FAIL bioperl-1.4 i386-linux-thread-multi 2.4.19-44mdkenterprise

This distribution has been tested as part of the cpan-testers
effort to test as many new uploads to CPAN as possible.  See
http://testers.cpan.org/

Please cc any replies to cpan-testers@perl.org to keep other
test volunteers informed and to prevent any duplicate effort.
	
--

Dear Ewan Birney,
    
This is a computer-generated error report created automatically by
CPANPLUS, version 0.053. Testers personal comments may appear 
at the end of this report.


Thank you for uploading your work to CPAN.  However, it appears that
there were some problems testing your distribution.

TEST RESULTS:

Below is the error stack from stage 'make test':

[MSG] [Sat Apr 30 21:06:01 2005] Checking if source files are up to date
[MSG] [Sat Apr 30 21:06:01 2005] Retrieving /home/cpanplus/.cpanplus/sourcefiles.2.14.stored
[MSG] [Sat Apr 30 21:06:02 2005] Trying to get 'file://usr/local/cpan/authors/id/B/BI/BIRNEY/bioperl-1.4.tar.gz'
[ERROR] [Sat Apr 30 21:06:02 2005] Fetching of 'file://usr/local/cpan/authors/id/B/BI/BIRNEY/bioperl-1.4.tar.gz' failed: Could not copy '/usr/local/cpan/authors/id/B/BI/BIRNEY/bioperl-1.4.tar.gz' to '/home/cpanplus/.cpanplus/authors/id/B/BI/BIRNEY/bioperl-1.4.tar.gz': No such file or directory 
[MSG] [Sat Apr 30 21:06:02 2005] Trying to get 'http://ftp.club-internet.fr/pub/perl/CPAN/authors/id/B/BI/BIRNEY/bioperl-1.4.tar.gz'
[MSG] [Sat Apr 30 21:06:42 2005] Trying to get 'file://usr/local/cpan/authors/id/B/BI/BIRNEY/CHECKSUMS'
[MSG] [Sat Apr 30 21:06:42 2005] Checksum matches for 'bioperl-1.4.tar.gz'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/DEPRECATED'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/AUTHORS'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/BUGS'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Changes'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/INSTALL'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/FAQ'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/Align/'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/Align/AlignI.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/Align/DNAStatistics.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/Align/PairwiseStatistics.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/Align/StatisticsI.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/Align/Utilities.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/AlignIO.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/AnalysisI.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/AnalysisParserI.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/AnalysisResultI.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/AnnotatableI.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/AnnotationCollectionI.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/AnnotationI.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/Biblio.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/ClusterI.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/ClusterIO.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/DBLinkContainerI.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/DasI.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/DescribableI.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/FeatureHolderI.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/Graphics.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/IdCollectionI.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/IdentifiableI.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/LocatableSeq.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/LocationI.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/MapIO.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/OntologyIO.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/Perl.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/PrimarySeq.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/PrimarySeqI.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/Range.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/RangeI.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/SearchDist.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/SearchIO.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/Seq.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/SeqAnalysisParserI.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/SeqFeatureI.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/SeqI.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/SeqIO.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/SeqUtils.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/SimpleAlign.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/SimpleAnalysisI.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/Species.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/Taxonomy.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/TreeIO.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/UpdateableSeqI.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/WebAgent.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/AlignIO/'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/AlignIO/bl2seq.pm'
[MSG] [Sat Apr 30 21:07:07 2005] Extracted 'bioperl-1.4/Bio/AlignIO/clustalw.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/AlignIO/emboss.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/AlignIO/fasta.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/AlignIO/maf.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/AlignIO/mase.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/AlignIO/mega.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/AlignIO/meme.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/AlignIO/metafasta.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/AlignIO/msf.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/AlignIO/nexus.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/AlignIO/pfam.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/AlignIO/phylip.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/AlignIO/prodom.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/AlignIO/psi.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/AlignIO/selex.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/AlignIO/stockholm.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Annotation/'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Annotation/AnnotationFactory.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Annotation/Collection.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Annotation/Comment.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Annotation/DBLink.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Annotation/OntologyTerm.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Annotation/Reference.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Annotation/SimpleValue.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Annotation/StructuredValue.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Annotation/TypeManager.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Assembly/'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Assembly/IO/'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Assembly/IO/phrap.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Assembly/IO/ace.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Assembly/Contig.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Assembly/ContigAnalysis.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Assembly/IO.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Assembly/Scaffold.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Assembly/ScaffoldI.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Biblio/'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Biblio/IO/'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Biblio/IO/medline2ref.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Biblio/IO/medlinexml.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Biblio/IO/pubmed2ref.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Biblio/IO/pubmedxml.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Biblio/Article.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Biblio/BiblioBase.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Biblio/Book.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Biblio/BookArticle.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Biblio/IO.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Biblio/Journal.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Biblio/JournalArticle.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Biblio/MedlineArticle.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Biblio/MedlineBook.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Biblio/MedlineBookArticle.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Biblio/MedlineJournal.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Biblio/MedlineJournalArticle.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Biblio/Organisation.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Biblio/Patent.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Biblio/Person.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Biblio/Proceeding.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Biblio/Provider.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Biblio/PubmedArticle.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Biblio/PubmedBookArticle.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Biblio/PubmedJournalArticle.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Biblio/Ref.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Biblio/Service.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Biblio/TechReport.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Biblio/Thesis.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Biblio/WebResource.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Cluster/'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Cluster/ClusterFactory.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Cluster/FamilyI.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Cluster/SequenceFamily.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Cluster/UniGene.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Cluster/UniGeneI.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/ClusterIO/'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/ClusterIO/dbsnp.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/ClusterIO/unigene.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/CodonUsage/'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/CodonUsage/Table.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/CodonUsage/IO.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Coordinate/'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Coordinate/Result/'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Coordinate/Result/Match.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Coordinate/Result/Gap.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Coordinate/Chain.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Coordinate/Collection.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Coordinate/ExtrapolatingPair.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Coordinate/GeneMapper.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Coordinate/Graph.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Coordinate/MapperI.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Coordinate/Pair.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Coordinate/Result.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Coordinate/ResultI.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Coordinate/Utils.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/BiblioI.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/Ace.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/Biblio/'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/Biblio/biofetch.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/Biblio/soap.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/BioFetch.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/CUTG.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/DBFetch.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/EMBL.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/Failover.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/Fasta.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/FileCache.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/Flat.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GDB.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GenBank.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GenPept.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/InMemoryCache.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/MANIFEST'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/Makefile.PL'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/MeSH.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/NCBIHelper.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/QueryI.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/RandomAccessI.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/RefSeq.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/Registry.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/SeqI.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/SwissProt.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/Taxonomy.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/Universal.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/UpdateableSeqI.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/WebDBSeqI.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/XEMBL.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/XEMBLService.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/Flat/'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/Flat/BDB/'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/Flat/BDB/fasta.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/Flat/BDB/embl.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/Flat/BDB/genbank.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/Flat/BDB/swiss.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/Flat/BDB/swissprot.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/Flat/BDB.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/Flat/BinarySearch.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Adaptor/'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Adaptor/biofetch.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Adaptor/ace.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Adaptor/dbi/'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Adaptor/dbi/caching_handle.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Adaptor/dbi/iterator.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Adaptor/dbi/mysql.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Adaptor/dbi/mysqlace.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Adaptor/dbi/mysqlopt.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Adaptor/dbi/oracle.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Adaptor/dbi/oracleace.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Adaptor/dbi/pg.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Adaptor/biofetch_oracle.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Adaptor/dbi.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Adaptor/memory.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Adaptor/memory_iterator.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Aggregator.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Featname.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Feature.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Homol.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/RelSegment.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Segment.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Typename.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Aggregator/'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Aggregator/alignment.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Aggregator/clone.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Aggregator/coding.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Aggregator/match.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Aggregator/none.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Aggregator/processed_transcript.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Aggregator/transcript.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Aggregator/ucsc_acembly.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Aggregator/ucsc_ensgene.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Aggregator/ucsc_genscan.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Aggregator/ucsc_refgene.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Aggregator/ucsc_sanger22.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Aggregator/ucsc_sanger22pseudo.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Aggregator/ucsc_softberry.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Aggregator/ucsc_twinscan.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Aggregator/ucsc_unigene.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Util/'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Util/Binning.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/GFF/Util/Rearrange.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/Query/'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/Query/GenBank.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/Query/WebQuery.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/Taxonomy/'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/Taxonomy/entrez.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/DB/Taxonomy/flatfile.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Das/'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Das/FeatureTypeI.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Das/SegmentI.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Event/'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Event/EventGeneratorI.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Event/EventHandlerI.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Expression/'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Expression/FeatureGroup/'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Expression/FeatureGroup/FeatureGroupMas50.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Expression/FeatureGroup.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Expression/FeatureI.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Expression/FeatureSet/'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Expression/FeatureSet/FeatureSetMas50.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Factory/'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Factory/AnalysisI.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Factory/ApplicationFactoryI.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Factory/DriverFactory.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Factory/FTLocationFactory.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Factory/HitFactoryI.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Factory/LocationFactoryI.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Factory/MapFactoryI.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Factory/ObjectBuilderI.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Factory/ObjectFactory.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Factory/ObjectFactoryI.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Factory/ResultFactoryI.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Factory/SeqAnalysisParserFactory.pm'
[MSG] [Sat Apr 30 21:07:08 2005] Extracted 'bioperl-1.4/Bio/Factory/SeqAnalysisParserFactoryI.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Factory/SequenceFactoryI.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Factory/SequenceProcessorI.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Factory/SequenceStreamI.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Factory/TreeFactoryI.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/FeatureFile/'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/FeatureFile/Iterator.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/ConfiguratorI.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Feature.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/FeatureFile.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Panel.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Pictogram.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/RendererI.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Util.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph/'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph/Factory.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph/alignment.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph/anchored_arrow.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph/arrow.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph/box.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph/cds.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph/crossbox.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph/diamond.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph/dna.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph/dot.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph/ellipse.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph/ex.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph/extending_arrow.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph/generic.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph/graded_segments.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph/group.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph/heterogeneous_segments.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph/line.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph/minmax.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph/oval.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph/pinsertion.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph/primers.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph/processed_transcript.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph/redgreen_box.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph/redgreen_segment.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph/rndrect.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph/ruler_arrow.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph/segmented_keyglyph.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph/segments.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph/span.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph/splice_site.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph/toomany.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph/track.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph/transcript.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph/transcript2.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph/translation.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph/triangle.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Graphics/Glyph/xyplot.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Index/'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Index/Abstract.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Index/AbstractSeq.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Index/Blast.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Index/EMBL.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Index/Fasta.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Index/Fastq.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Index/GenBank.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Index/SwissPfam.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Index/Swissprot.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/LiveSeq/'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/LiveSeq/IO/'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/LiveSeq/IO/BioPerl.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/LiveSeq/IO/Loader.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/LiveSeq/IO/README'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/LiveSeq/IO/SRS.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/LiveSeq/AARange.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/LiveSeq/Chain.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/LiveSeq/ChainI.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/LiveSeq/DNA.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/LiveSeq/Exon.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/LiveSeq/Gene.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/LiveSeq/Intron.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/LiveSeq/Mutation.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/LiveSeq/Mutator.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/LiveSeq/Prim_Transcript.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/LiveSeq/Range.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/LiveSeq/Repeat_Region.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/LiveSeq/Repeat_Unit.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/LiveSeq/SeqI.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/LiveSeq/Transcript.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/LiveSeq/Translation.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Location/'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Location/Atomic.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Location/AvWithinCoordPolicy.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Location/CoordinatePolicyI.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Location/Fuzzy.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Location/FuzzyLocationI.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Location/NarrowestCoordPolicy.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Location/Simple.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Location/Split.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Location/SplitLocationI.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Location/WidestCoordPolicy.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Map/'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Map/CytoMap.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Map/CytoMarker.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Map/CytoPosition.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Map/LinkageMap.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Map/LinkagePosition.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Map/MapI.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Map/MappableI.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Map/Marker.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Map/MarkerI.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Map/Microsatellite.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Map/OrderedPosition.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Map/OrderedPositionWithDistance.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Map/Position.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Map/PositionI.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Map/SimpleMap.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/MapIO/'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/MapIO/mapmaker.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Matrix/'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Matrix/IO/'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Matrix/IO/phylip.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Matrix/IO/scoring.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Matrix/PSM/'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Matrix/PSM/PsmHeader.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Matrix/PSM/IO.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Matrix/PSM/Psm.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Matrix/PSM/InstanceSite.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Matrix/PSM/InstanceSiteI.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Matrix/PSM/IO/'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Matrix/PSM/IO/transfac.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Matrix/PSM/IO/mast.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Matrix/PSM/IO/meme.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Matrix/PSM/PsmHeaderI.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Matrix/PSM/PsmI.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Matrix/PSM/SiteMatrix.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Matrix/PSM/SiteMatrixI.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Matrix/Generic.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Matrix/IO.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Matrix/MatrixI.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Matrix/PhylipDist.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Matrix/Scoring.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Ontology/'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Ontology/GOterm.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Ontology/InterProTerm.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Ontology/Ontology.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Ontology/OntologyEngineI.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Ontology/OntologyI.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Ontology/OntologyStore.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Ontology/Path.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Ontology/PathI.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Ontology/Relationship.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Ontology/RelationshipFactory.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Ontology/RelationshipI.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Ontology/RelationshipType.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Ontology/SimpleGOEngine.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Ontology/SimpleOntologyEngine.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Ontology/Term.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Ontology/TermFactory.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Ontology/TermI.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/OntologyIO/'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/OntologyIO/Handlers/'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/OntologyIO/Handlers/BaseSAXHandler.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/OntologyIO/Handlers/InterProHandler.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/OntologyIO/Handlers/InterPro_BioSQL_Handler.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/OntologyIO/InterProParser.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/OntologyIO/dagflat.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/OntologyIO/goflat.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/OntologyIO/simplehierarchy.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/OntologyIO/soflat.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Phenotype/'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Phenotype/MeSH/'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Phenotype/MeSH/Term.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Phenotype/MeSH/Twig.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Phenotype/OMIM/'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Phenotype/OMIM/MiniMIMentry.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Phenotype/OMIM/OMIMentry.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Phenotype/OMIM/OMIMentryAllelicVariant.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Phenotype/OMIM/OMIMparser.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Phenotype/Correlate.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Phenotype/Measure.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Phenotype/Phenotype.pm'
[MSG] [Sat Apr 30 21:07:09 2005] Extracted 'bioperl-1.4/Bio/Phenotype/PhenotypeI.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/PopGen/'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/PopGen/IO/'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/PopGen/IO/csv.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/PopGen/IO/prettybase.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/PopGen/Genotype.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/PopGen/GenotypeI.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/PopGen/IO.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/PopGen/Individual.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/PopGen/IndividualI.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/PopGen/Marker.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/PopGen/MarkerI.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/PopGen/PopStats.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/PopGen/Population.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/PopGen/PopulationI.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/PopGen/Statistics.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/PopGen/Simulation/'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/PopGen/Simulation/Coalescent.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/PopGen/Simulation/GeneticDrift.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Restriction/'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Restriction/Enzyme/'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Restriction/Enzyme/MultiCut.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Restriction/Enzyme/MultiSite.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Restriction/Analysis.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Restriction/Enzyme.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Restriction/EnzymeCollection.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Restriction/EnzymeI.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Restriction/IO.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Restriction/IO/'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Restriction/IO/bairoch.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Restriction/IO/base.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Restriction/IO/itype2.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Restriction/IO/withrefm.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Root/'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Root/Exception.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Root/Err.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Root/Global.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Root/HTTPget.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Root/IO.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Root/IOManager.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Root/Object.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Root/Root.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Root/RootI.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Root/Storable.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Root/Utilities.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Root/Vector.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Root/Version.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Root/Xref.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Search/'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Search/HSP/'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Search/HSP/BlastHSP.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Search/HSP/FastaHSP.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Search/HSP/GenericHSP.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Search/HSP/HMMERHSP.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Search/HSP/HSPFactory.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Search/HSP/HSPI.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Search/HSP/PSLHSP.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Search/HSP/PsiBlastHSP.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Search/HSP/WABAHSP.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Search/Hit/'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Search/Hit/BlastHit.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Search/Hit/Fasta.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Search/Hit/GenericHit.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Search/Hit/HMMERHit.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Search/Hit/HitFactory.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Search/Hit/HitI.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Search/Hit/PsiBlastHit.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Search/BlastUtils.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Search/DatabaseI.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Search/GenericDatabase.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Search/Processor.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Search/SearchUtils.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Search/Iteration/'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Search/Iteration/GenericIteration.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Search/Iteration/IterationI.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Search/Result/'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Search/Result/BlastResult.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Search/Result/GenericResult.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Search/Result/HMMERResult.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Search/Result/ResultFactory.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Search/Result/ResultI.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Search/Result/WABAResult.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SearchIO/'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SearchIO/Writer/'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SearchIO/Writer/BSMLResultWriter.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SearchIO/Writer/GbrowseGFF.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SearchIO/Writer/HSPTableWriter.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SearchIO/Writer/HTMLResultWriter.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SearchIO/Writer/HitTableWriter.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SearchIO/Writer/ResultTableWriter.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SearchIO/Writer/TextResultWriter.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SearchIO/EventHandlerI.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SearchIO/FastHitEventBuilder.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SearchIO/IteratedSearchResultEventBuilder.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SearchIO/SearchResultEventBuilder.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SearchIO/SearchWriterI.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SearchIO/axt.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SearchIO/blast.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SearchIO/blasttable.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SearchIO/blastxml.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SearchIO/exonerate.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SearchIO/fasta.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SearchIO/hmmer.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SearchIO/megablast.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SearchIO/psl.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SearchIO/sim4.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SearchIO/waba.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SearchIO/wise.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Seq/'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Seq/Meta/'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Seq/Meta/Array.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Seq/BaseSeqProcessor.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Seq/EncodedSeq.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Seq/LargePrimarySeq.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Seq/LargeSeq.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Seq/Meta.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Seq/MetaI.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Seq/PrimaryQual.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Seq/PrimedSeq.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Seq/QualI.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Seq/RichSeq.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Seq/RichSeqI.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Seq/SeqBuilder.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Seq/SeqFactory.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Seq/SeqFastaSpeedFactory.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Seq/SeqWithQuality.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Seq/SequenceTrace.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/Seq/TraceI.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SeqFeature/'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SeqFeature/Gene/'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SeqFeature/Gene/ExonI.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SeqFeature/Gene/Exon.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SeqFeature/Gene/GeneStructure.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SeqFeature/Gene/GeneStructureI.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SeqFeature/Gene/Intron.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SeqFeature/Gene/NC_Feature.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SeqFeature/Gene/Poly_A_site.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SeqFeature/Gene/Promoter.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SeqFeature/Gene/Transcript.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SeqFeature/Gene/TranscriptI.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SeqFeature/Gene/UTR.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SeqFeature/AnnotationAdaptor.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SeqFeature/Collection.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SeqFeature/CollectionI.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SeqFeature/Computation.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SeqFeature/FeaturePair.pm'
[MSG] [Sat Apr 30 21:07:10 2005] Extracted 'bioperl-1.4/Bio/SeqFeature/Generic.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqFeature/PositionProxy.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqFeature/Primer.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqFeature/Similarity.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqFeature/SimilarityPair.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqFeature/SiRNA/'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqFeature/SiRNA/Oligo.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqFeature/SiRNA/Pair.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqFeature/Tools/'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqFeature/Tools/TypeMapper.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqFeature/Tools/Unflattener.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqIO/'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqIO/game/'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqIO/game/featHandler.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqIO/game/gameHandler.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqIO/game/gameSubs.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqIO/game/gameWriter.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqIO/game/seqHandler.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqIO/FTHelper.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqIO/MultiFile.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqIO/abi.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqIO/ace.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqIO/alf.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqIO/asciitree.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqIO/bsml.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqIO/chadoxml.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqIO/ctf.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqIO/embl.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqIO/exp.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqIO/fasta.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqIO/fastq.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqIO/game.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqIO/gcg.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqIO/genbank.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqIO/kegg.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqIO/largefasta.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqIO/locuslink.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqIO/metafasta.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqIO/phd.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqIO/pir.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqIO/pln.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqIO/qual.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqIO/raw.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqIO/scf.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqIO/swiss.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqIO/tab.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqIO/tigr.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/SeqIO/ztr.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Structure/'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Structure/Chain.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Structure/Atom.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Structure/IO/'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Structure/IO/pdb.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Structure/Entry.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Structure/IO.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Structure/Model.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Structure/Residue.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Structure/StructureI.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Structure/SecStr/'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Structure/SecStr/DSSP/'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Structure/SecStr/DSSP/Res.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Structure/SecStr/STRIDE/'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Structure/SecStr/STRIDE/Res.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Symbol/'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Symbol/Alphabet.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Symbol/AlphabetI.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Symbol/DNAAlphabet.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Symbol/ProteinAlphabet.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Symbol/README.Symbol'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Symbol/Symbol.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Symbol/SymbolI.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Taxonomy/'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Taxonomy/FactoryI.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Taxonomy/Node.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Taxonomy/Taxon.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Taxonomy/Tree.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Alignment/'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Alignment/Consed.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Alignment/Trim.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/AlignFactory.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/AnalysisResult.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/BPbl2seq.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/BPlite.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/BPpsilite.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Blast.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Blat.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/CodonTable.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Coil.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/ECnumber.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/EPCR.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/ESTScan.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Eponine.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Est2Genome.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/FootPrinter.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/GFF.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Gel.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Geneid.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Genemark.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Genewise.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Genomewise.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Genscan.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Glimmer.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Grail.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/GuessSeqFormat.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Hmmpfam.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/IUPAC.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Lucy.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/MZEF.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/OddCodes.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Primer3.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Prints.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Profile.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Promoterwise.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/PrositeScan.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Pseudowise.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/QRNA.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/RandomDistFunctions.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/RepeatMasker.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/RestrictionEnzyme.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Seg.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/SeqAnal.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/SeqPattern.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/SeqStats.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/SeqWords.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/SiRNA.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Sigcleave.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Signalp.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Tmhmm.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/WWW.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/dpAlign.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/pICalculator.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/pSW.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Analysis/'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Analysis/DNA/'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Analysis/DNA/ESEfinder.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Analysis/SimpleAnalysisBase.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Analysis/Protein/'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Analysis/Protein/Domcut.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Analysis/Protein/ELM.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Analysis/Protein/GOR4.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Analysis/Protein/HNN.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Analysis/Protein/Mitoprot.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Analysis/Protein/NetPhos.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Analysis/Protein/Scansite.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Analysis/Protein/Sopma.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/BPlite/'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/BPlite/Iteration.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/BPlite/HSP.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/BPlite/Sbjct.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Blast/'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Blast/Sbjct.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Blast/CHANGES'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Blast/HSP.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Blast/HTML.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Blast/README'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/EMBOSS/'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/EMBOSS/Palindrome.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/HMMER/'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/HMMER/Domain.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/HMMER/Results.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/HMMER/Set.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Phylo/'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Phylo/Molphy/'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Phylo/Molphy/Result.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Phylo/Molphy.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Phylo/PAML.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Phylo/PAML/'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Phylo/PAML/ModelResult.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Phylo/PAML/Result.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Phylo/Phylip/'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Phylo/Phylip/ProtDist.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Prediction/'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Prediction/Exon.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Prediction/Gene.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Primer/'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Primer/Assessor/'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Primer/Assessor/Base.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Primer/AssessorI.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Primer/Feature.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Primer/Pair.pm'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Run/'
[MSG] [Sat Apr 30 21:07:11 2005] Extracted 'bioperl-1.4/Bio/Tools/Run/README'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/Bio/Tools/Run/RemoteBlast.pm'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/Bio/Tools/Run/StandAloneBlast.pm'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/Bio/Tools/Run/WrapperBase.pm'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/Bio/Tools/Sim4/'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/Bio/Tools/Sim4/Results.pm'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/Bio/Tools/Sim4/Exon.pm'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/Bio/Tree/'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/Bio/Tree/AlleleNode.pm'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/Bio/Tree/Node.pm'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/Bio/Tree/NodeI.pm'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/Bio/Tree/NodeNHX.pm'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/Bio/Tree/RandomFactory.pm'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/Bio/Tree/Statistics.pm'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/Bio/Tree/Tree.pm'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/Bio/Tree/TreeFunctionsI.pm'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/Bio/Tree/TreeI.pm'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/Bio/TreeIO/'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/Bio/TreeIO/TreeEventBuilder.pm'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/Bio/TreeIO/lintree.pm'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/Bio/TreeIO/newick.pm'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/Bio/TreeIO/nexus.pm'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/Bio/TreeIO/nhx.pm'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/Bio/TreeIO/svggraph.pm'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/Bio/TreeIO/tabtree.pm'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/Bio/Variation/'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/Bio/Variation/IO/'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/Bio/Variation/IO/flat.pm'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/Bio/Variation/IO/xml.pm'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/Bio/Variation/AAChange.pm'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/Bio/Variation/AAReverseMutate.pm'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/Bio/Variation/Allele.pm'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/Bio/Variation/DNAMutation.pm'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/Bio/Variation/IO.pm'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/Bio/Variation/README'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/Bio/Variation/RNAChange.pm'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/Bio/Variation/SNP.pm'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/Bio/Variation/SeqDiff.pm'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/Bio/Variation/VariantI.pm'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/faq/'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/faq/faq.html'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/faq/faq.dtd'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/faq/faq.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/faq/faq.xml'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/makedoc.PL'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/examples/'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/examples/graphics/'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/examples/graphics/blastn.out'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/examples/graphics/data1.txt'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/examples/graphics/embl2picture.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/examples/graphics/factor7.embl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/examples/graphics/render_blast1.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/examples/graphics/render_blast2.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/examples/graphics/render_blast3.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/examples/graphics/render_blast4.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/examples/graphics/render_features.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/examples/README'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/figs/'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/figs/graphics/'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/figs/graphics/fig1.png'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/figs/graphics/fig2.png'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/figs/graphics/fig3.png'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/figs/graphics/fig4.png'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/figs/graphics/fig5.png'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/figs/graphics/fig6.png'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/figs/README'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/html/'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/html/images/'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/html/images/tip.png'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/html/Flat_Databases.html'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/html/Graphics-HOWTO.html'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/html/OBDA_Access.html'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/html/PAML.html'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/html/README'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/html/SearchIO.html'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/html/SeqIO.html'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/html/SimpleWebAnalysis.html'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/html/e-novative.css'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/pdf/'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/pdf/Flat_Databases.pdf'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/pdf/Graphics-HOWTO.pdf'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/pdf/OBDA_Access.pdf'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/pdf/PAML.pdf'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/pdf/SearchIO.pdf'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/pdf/SeqIO.pdf'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/pdf/SimpleWebAnalysis.pdf'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/pdf/Trees.pdf'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/sgml/'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/sgml/Feature-Annotation.sgml'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/sgml/Flat_Databases.sgml'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/sgml/Graphics-HOWTO.sgml'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/sgml/OBDA_Access.sgml'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/sgml/PAML.sgml'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/sgml/README'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/sgml/SearchIO.sgml'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/sgml/SeqIO.sgml'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/sgml/SimpleWebAnalysis.sgml'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/sgml/Trees.sgml'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/txt/'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/txt/Flat_Databases.txt'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/doc/howto/txt/SimpleWebAnalysis.txt'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/INSTALL.WIN'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/LICENSE'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/MANIFEST.SKIP'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/Makefile.PL'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/PLATFORMS'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/README'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/biodatabases.pod'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/biodesign.pod'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/bioperl.lisp'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/bioperl.pod'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/bioscripts.pod'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/bptutorial.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/Bio-DB-GFF/'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/Bio-DB-GFF/load_ucsc.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/bioperl.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/generate_random_seq.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/longorf.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/make_mrna_protein.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/make_primers.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/rev_and_trans.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/revcom_dir.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/subsequence.cgi'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/align/'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/align/align_on_codons.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/align/aligntutorial.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/align/clustalw.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/align/simplealign.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/biblio/'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/biblio/biblio_examples.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/biblio/biblio_soap.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/biographics/'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/biographics/all_glyphs.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/biographics/dynamic_glyphs.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/biographics/feature_data.gff'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/biographics/feature_data.txt'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/biographics/lots_of_glyphs.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/biographics/render_sequence.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/cluster/'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/cluster/dbsnp.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/contributed/'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/contributed/nmrpdb_parse.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/contributed/prosite2perl.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/contributed/rebase2list.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/db/'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/db/get_seqs.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/db/dbfetch'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/db/est_tissue_query.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/db/gb2features.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/db/getGenBank.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/db/rfetch.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/db/use_registry.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/liveseq/'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/liveseq/change_gene.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/popgen/'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/popgen/parse_calc_stats.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/root/'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/root/lib/'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/root/lib/Bio/'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/root/lib/Bio/PrimarySeq.pm'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/root/lib/Bio/PrimarySeqI.pm'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/root/lib/Bio/Seq.pm'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/root/lib/Bio/SeqI.pm'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/root/lib/Error.pm'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/root/lib/TestInterface.pm'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/root/lib/TestObject.pm'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/root/README'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/root/exceptions1.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/root/exceptions2.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/root/exceptions3.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/root/exceptions4.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/searchio/'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/searchio/blast_example.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/searchio/custom_writer.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/searchio/hitwriter.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/searchio/hspwriter.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/searchio/htmlwriter.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/searchio/psiblast_features.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/searchio/psiblast_iterations.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/searchio/rawwriter.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/searchio/resultwriter.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/searchio/waba2gff.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/sirna/'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/sirna/TAG'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/sirna/rnai_finder.cgi'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/tk/'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/tk/gsequence.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/tk/hitdisplay.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/tools/'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/tools/gb_to_gff.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/tools/gff2ps.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/tools/parse_codeml.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/tools/psw.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/tools/restriction.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/tools/run_genscan.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/tools/seq_pattern.pl'
[MSG] [Sat Apr 30 21:07:12 2005] Extracted 'bioperl-1.4/examples/tools/standaloneblast.pl'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/examples/tree/'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/examples/tree/paup2phylip.pl'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/maintenance/'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/maintenance/authors.pl'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/maintenance/README'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/maintenance/modules.pl'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/maintenance/pod.pl'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/models/'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/models/biblio.dia'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/models/README'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/models/bio_liveseq_variation.dia'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/models/bio_map.dia'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/models/bio_restriction.dia'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/models/bioperl.dia'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/models/coordinatemapper.dia'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/models/map_proposal.txt'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/models/maps_and_markers.dia'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/models/popgen.dia'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/models/population_proposal.txt'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/Bio-DB-GFF/'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/Bio-DB-GFF/load_gff.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/Bio-DB-GFF/README'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/Bio-DB-GFF/TAG'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/Bio-DB-GFF/bp_genbank2gff.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/Bio-DB-GFF/bulk_load_gff.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/Bio-DB-GFF/fast_load_gff.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/Bio-DB-GFF/generate_histogram.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/Bio-DB-GFF/load_ucsc.pl'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/Bio-DB-GFF/pg_bulk_load_gff.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/Bio-DB-GFF/process_gadfly.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/Bio-DB-GFF/process_ncbi_human.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/Bio-DB-GFF/process_sgd.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/Bio-DB-GFF/process_wormbase.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/install_bioperl_scripts.pl'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/DB/'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/DB/TAG'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/DB/biofetch_genbank_proxy.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/DB/bioflat_index.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/DB/biogetseq.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/DB/flanks.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/biblio/'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/biblio/TAG'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/biblio/biblio.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/das/'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/das/README'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/das/TAG'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/graphics/'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/graphics/frend.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/graphics/README'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/graphics/TAG'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/graphics/feature_draw.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/graphics/search_overview.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/index/'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/index/TAG'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/index/bp_fetch.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/index/bp_index.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/popgen/'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/popgen/composite_LD.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/popgen/heterogeneity_test.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/searchio/'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/searchio/filter_search.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/seq/'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/seq/TAG'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/seq/extract_feature_seq.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/seq/seqconvert.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/seq/split_seq.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/seq/translate_seq.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/seqstats/'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/seqstats/TAG'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/seqstats/aacomp.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/seqstats/chaos_plot.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/seqstats/gccalc.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/seqstats/oligo_count.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/taxa/'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/taxa/TAG'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/taxa/local_taxonomydb_query.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/taxa/taxid4species.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/tree/'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/tree/TAG'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/tree/blast2tree.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/utilities/'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/utilities/bp_nrdb.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/utilities/README'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/utilities/TAG'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/utilities/bp_mrtrans.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/utilities/bp_sreformat.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/utilities/dbsplit.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/utilities/mask_by_search.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/utilities/mutate.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/utilities/pairwise_kaks.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/utilities/remote_blast.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/utilities/search2BSML.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/utilities/search2alnblocks.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/utilities/search2gff.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/utilities/search2tribe.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/scripts/utilities/seq_length.PLS'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/biodbgff/'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/biodbgff/test.gff'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/503384.MEGABLAST.0'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/503384.MEGABLAST.2'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/5X_1895.FASTXY'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/AAC12660.fa'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/AB077698.gb'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/AE003528_ecoli.bls'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/AE003644_Adh-genomic.gb'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/AF032047.gbk'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/AF165282.gb'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/AHCYL1.kegg'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/ATF14F8.gbk'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/AY095303S1.gbk'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/AnnIX-v003.gbk'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/BK000016-tpa.gbk'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/BLOSUM50'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/BN000066-tpa.embl'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/D10483.gbk'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/D12555.gbk'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/ECAPAH02.embl'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/GO.defs.test'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/GO.defs.test2'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/Genscan.FastA'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/HUMBETGLOA.FASTA'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/HUMBETGLOA.fa'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/HUMBETGLOA.gff'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/HUMBETGLOA.grail'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/HUMBETGLOA.grailexp'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/HUMBETGLOA.mzef'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/HUMBETGLOA.tblastx'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/L77119.hmmer'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/LL-sample.seq'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/LOAD_Ccd1.dnd'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/LittleChrY.dbsnp.xml'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/MmCT'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/NM_002254.gb'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/NT_021877.gbk'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/PAM250'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/SwissProt.dat'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/U58726.gb'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/X98338_Adh-mRNA.gb'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/a_thaliana.blastn'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/aaml.mlc'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/aaml_pairwise.mlc'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/acefile.ace.1'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/acefile.singlets'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/alnfile.fasta'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/amino.fa'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/ar.embl'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/bl2seq.blastn'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/bl2seq.blastn.rev'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/bl2seq.blastx.out'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/bl2seq.bug940.out'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/bl2seq.out'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/bl2seq.tblastx.out'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/blast.report'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/blat.psLayout3'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/c200-vs-yeast.BLASTN'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/c200-vs-yeast.BLASTN.m8'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/chad100.scf'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/codeml.mlc'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/codeml_nssites.mlc'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/compLD_missingtest.prettybase'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/compLD_test.prettybase'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/component.ontology.test'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/component.ontology.test2'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/crab.dat.cn'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/crab.nj'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/crab.njb'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/crypto.sim4-0'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/crypto.sim4-3'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/crypto.sim4-4'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/cys1_dicdi.water'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/cysprot.fa'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/cysprot.msf'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/cysprot.needle'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/cysprot.tblastn'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/cysprot.water'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/cysprot1.FASTA'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/cysprot1.fa'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/cysprot1a.fa'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/cysprot1a.msf'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/cysprot1b.fa'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/cysprot1b.hmmsearch'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/cysprot1b.msf'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/cysprot1b.newick'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/cysprot_vs_gadfly.FASTA'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/dmel_2Lchunk.gb'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/dna1.fa'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/dna2.fa'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/dnaE-bsub-prot.fa'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/dnaE-bsub.fa'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/dnaEbsub_ecoli.wublastx'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/dnaEbsub_ecoli.wutblastn'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/dnaEbsub_ecoli.wutblastx'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/ecoli-trna-qrna.out'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/ecoli_domains.rps.xml'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/ecoli_domains.rpsblast'
[MSG] [Sat Apr 30 21:07:13 2005] Extracted 'bioperl-1.4/t/data/ecolitst.bls'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/ecolitst.fa'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/ecolitst.wublastp'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/empty.bl2seq'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/expected.blast.out'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/factor7.embl'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/footprinter.out'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/geneid_1.0.out'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/genemark.out'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/genewise.out'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/genewise_output.paracel_btk'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/genomewise.out'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/genomic-seq.epcr'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/genomic-seq.fasta'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/genomic-seq.genscan'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/genomic-seq.mzef'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/gf-s71.needle'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/glimmer.out'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/hemoglobinA.meg'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/hg16_chroms.gff'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/hmmpfam.out'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/hmmsearch.out'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/hs_est.est2genome'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/hs_fugu.newick'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/hs_owlmonkey.fas'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/hs_owlmonkey.fasta'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/hsinsulin.blastcl3.blastn'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/humor.maf'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/humts1.pal'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/insulin.water'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/interpro_short.xml'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/lucy.info'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/lucy.qual'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/lucy.seq'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/lucy.stderr'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/lysozyme6.protml'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/lysozyme6.simple.protml'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/mapmaker.out'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/mast.dat'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/megablast_output.paracel_btk'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/meme.dat'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/mpath.ontology.test'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/multi_1.fa'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/multi_2.fa'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/multi_blast.bls'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/multifa.seq'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/multiseq.bls'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/mus.bls.xml'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/mutations.dat'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/mutations.xml'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/myco_sites.gff'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/nei_gojobori_test.aln'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/neighbor.dist'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/no-genes.genscan'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/no_hsps.blastp'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/noninterleaved.phy'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/omim_genemap_test'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/omim_text_test'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/pdb1bpt.ent'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/phi.out'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/phipsi.out'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/phredfile.phd'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/phylipdist-36.out'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/phylipdist.out'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/pictogram.fa'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/plague_yeast.bls.xml'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/polymorphism.dat'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/polymorphism.xml'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/popgen_saureus.dat'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/popgen_saureus.multidat'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/popstats.prettybase'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/roa1.dat'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/primedseq.fa'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/primer3_infile.txt'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/primer3_outfile.txt'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/primer3_output.txt'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/promoterwise.out'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/protpars.phy'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/psiblastreport.out'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/qrna-relloc.out'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/qualfile.qual'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/rebase.itype2'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/rebase.withrefm'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/repeatmasker.fa.out'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/revcomp_mrna.gb'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/roa1.genbank'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/roa1.swiss'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/sbay_c545-yeast.BLASTZ.PSL'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/seqdatabase.ini'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/seqfile.pir'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/seqs.fas'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/sequencefamily.dat'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/short.blx'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/sim4.for.for'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/sim4.for.rev'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/sim4.rev'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/sofa.ontology'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/sparsealn.needle'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/stress_test_medline.xml'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/stress_test_pubmed.xml'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/swiss.dat'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/swisspfam.data'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/test.ace'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/test.embl'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/test.fasta'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/test.game'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/test.gcg'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/test.gcgblast'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/test.gcgfasta'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/test.genbank'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/test.genbank.noseq'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/test.mase'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/test.metafasta'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/test.nh'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/test.nhx'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/test.pfam'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/test.pir'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/test.raw'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/test.swiss'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/test.tab'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/test.txt'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/test.waba'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/test_badlf.gcg'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/testaln.aln'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/testaln.fasta'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/testaln.mase'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/testaln.metafasta'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/testaln.msf'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/testaln.nexus'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/testaln.pfam'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/testaln.phylip'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/testaln.prodom'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/testaln.selex'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/testaln.stockholm'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/testdat.exonerate'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/testdbaccnums.out'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/testfuzzy.genbank'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/transfac.dat'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/unigene.data'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/version2.scf'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/version3.scf'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/worm_fam_2785.cdna'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/yn00.mlc'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/t1/'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/t1/version1.gif'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/t1/version1.png'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/t1/version2.gif'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/t1/version2.png'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/t1/version3.png'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/t1/version4.png'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/t1/version5.png'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/t1/version6.png'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/t1/version7.png'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/t1/version8.png'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/t2/'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/t2/version1.gif'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/t2/version1.png'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/t2/version10.png'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/t2/version11.png'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/t2/version12.png'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/t2/version13.png'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/t2/version14.png'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/t2/version2.gif'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/t2/version2.png'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/t2/version3.png'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/t2/version4.png'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/t2/version5.png'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/t2/version6.png'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/t2/version7.png'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/t2/version8.png'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/t2/version9.png'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/feature_data.txt'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/t3/'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/t3/version1.gif'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/t3/version1.png'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/t3/version2.gif'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/t3/version2.png'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/t3/version3.png'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/t3/version4.png'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/t3/version5.png'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/t3/version6.png'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/biographics/t3/version7.png'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/consed_project/'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/consed_project/edit_dir/'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/consed_project/edit_dir/test_project.contigs'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/consed_project/edit_dir/test_project.fasta'
[MSG] [Sat Apr 30 21:07:14 2005] Extracted 'bioperl-1.4/t/data/consed_project/edit_dir/test_project.fasta.log'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/data/consed_project/edit_dir/test_project.fasta.screen'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/data/consed_project/edit_dir/test_project.fasta.screen.ace.1'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/data/consed_project/edit_dir/test_project.fasta.screen.contigs'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/data/consed_project/edit_dir/test_project.fasta.screen.contigs.qual'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/data/consed_project/edit_dir/test_project.fasta.screen.log'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/data/consed_project/edit_dir/test_project.fasta.screen.problems'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/data/consed_project/edit_dir/test_project.fasta.screen.problems.qual'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/data/consed_project/edit_dir/test_project.fasta.screen.qual'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/data/consed_project/edit_dir/test_project.fasta.screen.singlets'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/data/consed_project/edit_dir/test_project.fasta.screen.view'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/data/consed_project/edit_dir/test_project.newtags'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/data/consed_project/edit_dir/test_project.phrap.out'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/data/consed_project/edit_dir/test_project.screen.out'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/data/consed_project/edit_dir/test_projectNewChromats.fof'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/data/consed_project/edit_dir/test_project_to_alu.cross'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/data/consed_project/phd_dir/'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/data/consed_project/phd_dir/ML4922R.phd.1'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/data/consed_project/phd_dir/ML4924F.phd.1'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/data/consed_project/phd_dir/ML4924R.phd.1'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/data/consed_project/phd_dir/ML4947F.phd.1'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/data/dbfa/'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/data/dbfa/1.fa'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/data/dbfa/2.fa'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/data/dbfa/3.fa'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/data/dbfa/4.fa'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/data/dbfa/5.fa'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/data/dbfa/6.fa'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/data/dbfa/7.fa'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/data/registry/'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/data/registry/bdb/'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/data/registry/bdb/seqdatabase.ini'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/data/registry/flat/'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/data/registry/flat/seqdatabase.ini'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/AAChange.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/AAReverseMutate.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/AlignIO.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/AlignStats.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Allele.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Alphabet.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Annotation.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/AnnotationAdaptor.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Assembly.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/BPbl2seq.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/BPlite.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/BPpsilite.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Biblio.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/BiblioReferences.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Biblio_biofetch.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/BioDBGFF.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/BioFetch_DB.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/BioGraphics.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/BlastIndex.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Chain.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/ClusterIO.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Coalescent.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/CodonTable.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/CoordinateGraph.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/CoordinateMapper.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Correlate.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/CytoMap.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/DB.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/DBCUTG.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/DBFasta.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/DNAMutation.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Domcut.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/ECnumber.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/ELM.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/EMBL_DB.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/EMBOSS_Tools.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/ESEfinder.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/EncodedSeq.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Exception.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Exonerate.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/FootPrinter.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/GDB.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/GFF.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/GOR4.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/GOterm.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/GeneCoordinateMapper.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Geneid.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Genewise.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Genomewise.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Genpred.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/GuessSeqFormat.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/HNN.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/IUPAC.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Index.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/InstanceSite.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/InterProParser.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/LinkageMap.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/LiveSeq.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/LocatableSeq.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Location.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/LocationFactory.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/LocusLink.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Map.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/MapIO.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Matrix.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/MeSH.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Measure.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/MetaSeq.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/MicrosatelliteMarker.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/MiniMIMentry.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/MitoProt.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Molphy.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Mutation.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Mutator.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/NetPhos.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Node.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/OMIMentry.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/OMIMentryAllelicVariant.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/OMIMparser.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/OddCodes.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Ontology.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/OntologyEngine.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/PAML.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Perl.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Phenotype.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/PhylipDist.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Pictogram.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/PopGen.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/PopGenSims.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/PrimarySeq.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Primer.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Promoterwise.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/ProtDist.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/QRNA.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/RNAChange.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/RandDistFunctions.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/RandomTreeFactory.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Range.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/RangeI.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/RefSeq.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Registry.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Relationship.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/RelationshipType.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/RemoteBlast.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/RepeatMasker.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/RestrictionAnalysis.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/RestrictionEnzyme.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/RestrictionIO.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/RootI.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/RootIO.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/RootStorable.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/SNP.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Scansite.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/SearchDist.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/SearchIO.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Seq.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/SeqAnalysisParser.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/SeqBuilder.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/SeqDiff.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/SeqFeatCollection.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/SeqFeature.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/SeqIO.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/SeqPattern.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/SeqStats.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/SeqUtils.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/SeqWords.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/SequenceFamily.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Sigcleave.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Sim4.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/SimilarityPair.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/SimpleAlign.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/SiteMatrix.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Sopma.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Species.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/StandAloneBlast.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/StructIO.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Structure.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Swiss.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Symbol.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Taxonomy.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Tempfile.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Term.t'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Test.pm'
[MSG] [Sat Apr 30 21:07:15 2005] Extracted 'bioperl-1.4/t/Tools.t'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'bioperl-1.4/t/Tree.t'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'bioperl-1.4/t/TreeIO.t'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'bioperl-1.4/t/UCSCParsers.t'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'bioperl-1.4/t/Unflattener.t'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'bioperl-1.4/t/Unflattener2.t'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'bioperl-1.4/t/UniGene.t'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'bioperl-1.4/t/Variation_IO.t'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'bioperl-1.4/t/WABA.t'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'bioperl-1.4/t/XEMBL_DB.t'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'bioperl-1.4/t/cigarstring.t'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'bioperl-1.4/t/consed.t'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'bioperl-1.4/t/ePCR.t'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'bioperl-1.4/t/est2genome.t'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'bioperl-1.4/t/flat.t'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'bioperl-1.4/t/game.t'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'bioperl-1.4/t/hmmer.t'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'bioperl-1.4/t/largefasta.t'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'bioperl-1.4/t/largepseq.t'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'bioperl-1.4/t/lucy.t'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'bioperl-1.4/t/multiple_fasta.t'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'bioperl-1.4/t/pICalculator.t'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'bioperl-1.4/t/phd.t'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'bioperl-1.4/t/primaryqual.t'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'bioperl-1.4/t/primedseq.t'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'bioperl-1.4/t/primer3.t'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'bioperl-1.4/t/psm.t'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'bioperl-1.4/t/qual.t'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'bioperl-1.4/t/scf.t'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'bioperl-1.4/t/seqfeaturePrimer.t'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'bioperl-1.4/t/sequencetrace.t'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'bioperl-1.4/t/seqwithquality.t'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'bioperl-1.4/t/simpleGOparser.t'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'bioperl-1.4/t/sirna.t'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'bioperl-1.4/t/splicedseq.t'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'bioperl-1.4/t/testformats.pl'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'bioperl-1.4/t/trim.t'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'bioperl-1.4/t/tutorial.t'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'bioperl-1.4/MANIFEST'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'bioperl-1.4/Makefile.old'
[MSG] [Sat Apr 30 21:07:16 2005] Extracted 'Bio::DB::Flat' to '/home/cpanplus/.cpanplus/5.8.5/build/bioperl-1.4'
[ERROR] [Sat Apr 30 21:15:41 2005] MAKE TEST failed: No such file or directory PERL_DL_NONLAZY=1 /usr/bin/perl5.8.5 "-MExtUtils::Command::MM" "-e" "test_harness(0, 'blib/lib', 'blib/arch')" t/*.t
t/AAChange...................ok
t/AAReverseMutate............ok
t/AlignIO....................ok
t/AlignStats.................ok
t/Allele.....................ok
t/Alphabet...................ok
t/Annotation.................ok
t/AnnotationAdaptor..........ok
t/Assembly...................ok
t/Biblio.....................ok
t/Biblio_biofetch............ok
t/BiblioReferences...........ok
t/BioDBGFF...................ok
t/BioFetch_DB................FAILED tests 20-21
	Failed 2/27 tests, 92.59% okay
t/BioGraphics................ok
t/BlastIndex.................ok
t/B