data/biojava-live-1.7.1/LICENSE.COMMONS: ASCII text data/biojava-live-1.7.1/LICENSE: ASCII text data/biojava-live-1.7.1/README: ASCII text data/biojava-live-1.7.1/apps/org/biojava/app/BioGetSeq.java: C source, ASCII text data/biojava-live-1.7.1/apps/org/biojava/app/BioFlatIndex.java: C source, ASCII text data/biojava-live-1.7.1/src/org/biojavax/RankedCrossRef.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojavax/SimpleRankedCrossRef.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojavax/RankedDocRef.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojavax/RichAnnotation.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojavax/RichObjectBuilder.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojavax/bio/SimpleBioEntryRelationship.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojavax/bio/phylo/ParsimonyTreeMethod.java: Java source, ASCII text 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data/biojava-live-1.7.1/src/org/biojavax/bio/db/BioEntryDBLite.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojavax/bio/db/package.html: HTML document, ASCII text data/biojava-live-1.7.1/src/org/biojavax/bio/db/AbstractRichSequenceDB.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojavax/bio/db/RichSequenceDB.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojavax/bio/db/biosql/BioSQLAcceptNoneFilter.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojavax/bio/db/biosql/oracle/Taxon.hbm.xml: XML 1.0 document, ASCII text data/biojava-live-1.7.1/src/org/biojavax/bio/db/biosql/oracle/Ontology.hbm.xml: XML 1.0 document, ASCII text data/biojava-live-1.7.1/src/org/biojavax/bio/db/biosql/oracle/Feature.hbm.xml: XML 1.0 document, ASCII text data/biojava-live-1.7.1/src/org/biojavax/bio/db/biosql/oracle/BioEntryRelationship.hbm.xml: XML 1.0 document, ASCII text 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data/biojava-live-1.7.1/src/org/biojavax/bio/db/biosql/oracle/CrossRef.hbm.xml: XML 1.0 document, ASCII text data/biojava-live-1.7.1/src/org/biojavax/bio/db/biosql/BioSQLAcceptAllFilter.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojavax/bio/db/biosql/mysql/Taxon.hbm.xml: XML 1.0 document, ASCII text data/biojava-live-1.7.1/src/org/biojavax/bio/db/biosql/mysql/Ontology.hbm.xml: XML 1.0 document, ASCII text data/biojava-live-1.7.1/src/org/biojavax/bio/db/biosql/mysql/Feature.hbm.xml: XML 1.0 document, ASCII text data/biojava-live-1.7.1/src/org/biojavax/bio/db/biosql/mysql/BioEntryRelationship.hbm.xml: XML 1.0 document, ASCII text data/biojava-live-1.7.1/src/org/biojavax/bio/db/biosql/mysql/Namespace.hbm.xml: XML 1.0 document, ASCII text data/biojava-live-1.7.1/src/org/biojavax/bio/db/biosql/mysql/BioEntry.hbm.xml: XML 1.0 document, ASCII text data/biojava-live-1.7.1/src/org/biojavax/bio/db/biosql/mysql/Comment.hbm.xml: XML 1.0 document, ASCII text 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data/biojava-live-1.7.1/src/org/biojavax/bio/db/biosql/package.html: HTML document, ASCII text data/biojava-live-1.7.1/src/org/biojavax/bio/db/biosql/pg/Taxon.hbm.xml: XML 1.0 document, ASCII text data/biojava-live-1.7.1/src/org/biojavax/bio/db/biosql/pg/Ontology.hbm.xml: XML 1.0 document, ASCII text data/biojava-live-1.7.1/src/org/biojavax/bio/db/biosql/pg/Feature.hbm.xml: XML 1.0 document, ASCII text data/biojava-live-1.7.1/src/org/biojavax/bio/db/biosql/pg/BioEntryRelationship.hbm.xml: XML 1.0 document, ASCII text data/biojava-live-1.7.1/src/org/biojavax/bio/db/biosql/pg/Namespace.hbm.xml: XML 1.0 document, ASCII text data/biojava-live-1.7.1/src/org/biojavax/bio/db/biosql/pg/BioEntry.hbm.xml: XML 1.0 document, ASCII text data/biojava-live-1.7.1/src/org/biojavax/bio/db/biosql/pg/Comment.hbm.xml: XML 1.0 document, ASCII text data/biojava-live-1.7.1/src/org/biojavax/bio/db/biosql/pg/Location.hbm.xml: XML 1.0 document, ASCII text 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data/biojava-live-1.7.1/src/org/biojava/bio/program/xff/LocationHandlerBase.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/xff/PropDetailHandler.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/xff/XFFPartHandlerFactory.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/xff/package.inf: ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/xff/XFFTools.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/xff/PropertyWriter.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/xff/package.html: HTML document, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/xff/BasicXFFHelper.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/xff/FeatureHandler.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/abi/ABIFParser.java: HTML document, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/abi/ABIFChromatogram.java: HTML document, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/abi/ABITools.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/abi/package.html: ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/abi/ABITrace.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/tagvalue/TagValue.java: ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/tagvalue/Index2Model.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/tagvalue/TagValueParser.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/tagvalue/Indexer.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/tagvalue/TagValueContext.java: ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/tagvalue/RegexSplitter.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/tagvalue/RegexChanger.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/tagvalue/AnnotationBuilder.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/tagvalue/StateMachine.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/tagvalue/ParserListener.java: ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/tagvalue/TagMapper.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/tagvalue/LineSplitParser.java: ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/tagvalue/AbstractWrapper.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/tagvalue/PropertyChanger.java: ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/tagvalue/TagValueListener.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/tagvalue/TagDropper.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/tagvalue/SimpleTagValueWrapper.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/tagvalue/Echo.java: ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/tagvalue/TagRenamer.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/tagvalue/ChangeTable.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/tagvalue/Indexer2.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/tagvalue/TagValueWrapper.java: ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/tagvalue/package.html: ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/tagvalue/TagDelegator.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/tagvalue/MultiTagger.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/tagvalue/ValueChanger.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/tagvalue/Aggregator.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/tagvalue/BoundaryFinder.java: ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/tagvalue/Parser.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/tagvalue/RegexParser.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/tagvalue/Formats.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/tagvalue/RegexFieldFinder.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/xml/SimpleXMLEmitter.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/xml/BaseXMLWriter.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/xml/package.inf: ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/xml/package.html: ASCII text 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data/biojava-live-1.7.1/src/org/biojava/bio/program/fastq/SolexaFastqReader.java: ASCII text, with CRLF line terminators data/biojava-live-1.7.1/src/org/biojava/bio/program/fastq/SangerFastqWriter.java: ASCII text, with CRLF line terminators data/biojava-live-1.7.1/src/org/biojava/bio/program/fastq/FastqVariant.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/fastq/Fastq.java: ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/fastq/package-info.java: ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/fastq/AbstractFastqReader.java: ASCII text, with CRLF line terminators data/biojava-live-1.7.1/src/org/biojava/bio/program/BlastLikeToXMLConverter.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/scf/SCF.java: HTML document, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/scf/package.html: ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/indexdb/BioStoreFactory.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/indexdb/Record.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/indexdb/IndexStore.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/indexdb/SearchableFileAsList.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/indexdb/PropertiesAnnotation.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/indexdb/ConfigFile.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/indexdb/BioStore.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/indexdb/KeyPair.java: ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/indexdb/SearchableList.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/indexdb/package.html: ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/indexdb/PrimaryIDList.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/indexdb/IndexTools.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/indexdb/SecondaryFileAsList.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/indexdb/CacheList.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/package.inf: ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/gff/GFFDocumentHandler.java: ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/gff/GFFParser.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/gff/IgnoreRecordException.java: ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/gff/GFFTools.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/gff/GFFRecordFilter.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/gff/GFFRecord.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/gff/GFFErrorHandler.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/gff/SimpleGFFRecord.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/gff/SequencesAsGFF.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/gff/package.inf: ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/gff/GFFComparator.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/gff/package.html: HTML document, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/gff/GFFWriter.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/gff/GFFEntrySet.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/gff/GFFFilterer.java: ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/package.html: ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/das/Fetcher.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/das/dasstructure/DASStructureCall.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/das/dasstructure/DASStructureXMLResponseParser.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/das/dasstructure/package.html: ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/das/DASLinkHandler.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/das/DAS.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/das/DASCapabilities.java: C++ source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/das/DASSequenceI.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/das/RawAnnotationSequence.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/das/Segment.java: C++ source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/das/DASDistDataSource.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/das/DASRawSymbolList.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/das/ReferenceServer.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/das/package.inf: ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/das/DASSequence.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/das/TypesListener.java: ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/das/dasalignment/DASAlignmentClient.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/das/dasalignment/Alignment.java: HTML document, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/das/dasalignment/DASAlignmentCall.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/das/dasalignment/DASException.java: Java source, ISO-8859 text data/biojava-live-1.7.1/src/org/biojava/bio/program/das/dasalignment/DASAlignmentXMLResponseParser.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/das/dasalignment/package.html: ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/das/package.html: HTML document, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/das/TypesFetcher.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/das/DASGFFFeatureHandler.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/das/DASLink.java: ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/das/ComponentFeatureHandler.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/das/FeatureRequestManager.java: C++ source, ASCII text 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document, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/formats/package.html: ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/formats/Enzyme.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/formats/Swissprot.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/formats/FormatTools.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/blast2html/AbstractAlignmentStyler.java: HTML document, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/blast2html/Blast2HTMLHandler.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/blast2html/BlastMatrixAlignmentStyler.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/blast2html/DatabaseURLGenerator.java: HTML document, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/blast2html/URLGeneratorFactory.java: Java source, ASCII text 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data/biojava-live-1.7.1/src/org/biojava/bio/program/unigene/SQLUnigeneFactory.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/unigene/UnigeneFactory.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/unigene/UnigeneDB.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/unigene/FlatFileUnigeneFactory.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/unigene/FlatFileUnigeneDB.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/unigene/UnigeneTools.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/unigene/package.html: ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/unigene/SQLUnigeneDB.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/unigene/UnigeneCluster.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/PdbToXMLConverter.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/ssbind/HSPStAXHandler.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/ssbind/StAXHandlerBinding.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/ssbind/HeaderStAXHandler.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/ssbind/AnnotationFactory.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/ssbind/SeqSimilarityStAXAdapter.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/ssbind/StAXHandlerFactory.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/ssbind/HitStAXHandler.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/bio/program/ssbind/SimilarityPairBuilder.java: Java source, ASCII text 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data/biojava-live-1.7.1/src/org/biojava/ontology/Ontology.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/ontology/AbstractTerm.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/ontology/Synonym.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/ontology/io/GOParser.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/ontology/io/OboParser.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/ontology/io/TabDelimParser.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/ontology/io/package.html: ASCII text data/biojava-live-1.7.1/src/org/biojava/ontology/Term.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/ontology/obo/OboFileHandler.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/ontology/obo/OboFileParser.java: Java source, ASCII text data/biojava-live-1.7.1/src/org/biojava/ontology/obo/OboFileEventListener.java: Java source, 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data/biojava-live-1.7.1/demos/performance/SmithWatermanExample.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/performance/ReadFastaX2.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/performance/AlignProteins.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/performance/ReadFastaX.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/performance/package.html: HTML document, ASCII text, with no line terminators data/biojava-live-1.7.1/demos/performance/ReadFasta.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/unigene/ParseLibInfo.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/unigene/CreateUnigeneFlat.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/unigene/SearchUnigeneFlat.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/unigene/ParseUnigene.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/biosql/SequenceTest.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/biosql/LargeSequenceTest.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/biosql/SeqEMBL.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/biosql/DummyFromGFF.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/biosql/SeqGFF.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/biosql/SeqDumper.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/biosql/UploadFlat.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/eventbasedparsing/Pdb2XML.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/eventbasedparsing/BlastLike2XML.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/eventbasedparsing/TutorialEx1Handler.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/eventbasedparsing/Blast2HTML.java: Perl5 module source, ASCII text, with very long lines data/biojava-live-1.7.1/demos/eventbasedparsing/stylesheets/copyall.xsl: XML 1.0 document, ASCII text data/biojava-live-1.7.1/demos/eventbasedparsing/stylesheets/hitlisthtml.xsl: XML 1.0 document, ASCII text data/biojava-live-1.7.1/demos/eventbasedparsing/TutorialEx1.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/eventbasedparsing/Fasta2XML.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/ssbind/CountSubHits.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/ssbind/PropertyEchoer.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/ssbind/ListSubjects.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/ssbind/ProcessBlastReport.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/ssbind/SubHitBuilder.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/ssbind/AlignmentBuilder.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/ssbind/FilterByValue.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/ssbind/Echoer.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/ssbind/CountHits.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/ssbind/ListQueries.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/ssbind/SubHitFilter.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/CircLocTest/TestFrame.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/CircLocTest/CircularLocationTester.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/process/ProcessToolsTest.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/seqviewer/EmblViewer2.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/seqviewer/GappedViewer.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/seqviewer/CircularEmblViewer.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/seqviewer/FastBeadDemo.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/seqviewer/EmblViewer.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/seqviewer/TraceViewer.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/seqviewer/BeadDemo.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/seqviewer/test.fa: ASCII text data/biojava-live-1.7.1/demos/ssaha/SSAHASeqLarge.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/ssaha/CreateDNAFastaHashTableCompact.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/ssaha/ResultPrinter.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/ssaha/SSAHA.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/ssaha/CreateEmblHashTableLarge.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/ssaha/CreateDNAFastaHashTableLarge.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/ssaha/CreateEmblHashTable.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/ssaha/SSAHASeq.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/ssaha/SSAHALarge.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/ssaha/CreateDNAFastaHashTable.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/demos/files/fp_demo.db: ASCII text data/biojava-live-1.7.1/demos/files/scoptest.fa: ASCII text data/biojava-live-1.7.1/demos/files/hmmer/plus_tot.out: ASCII text data/biojava-live-1.7.1/demos/files/ChrI.prom.fasta: ASCII text data/biojava-live-1.7.1/demos/files/fakepromoter.xml: ASCII text data/biojava-live-1.7.1/demos/files/ontology/evidence_code.obo: ASCII text, with very long lines data/biojava-live-1.7.1/demos/files/ontology/biosapiens.obo: ASCII text, with very long lines data/biojava-live-1.7.1/demos/files/ontology/so.obo: ASCII text, with very long lines data/biojava-live-1.7.1/demos/files/pdb/hmga_1.pdb: ASCII text data/biojava-live-1.7.1/demos/files/pdb/tnf.pdb: Protein Data Bank data, ID Code 1TNF, 25-AUG-89 data/biojava-live-1.7.1/demos/files/pdb/hgh_ori.pdb: ASCII text data/biojava-live-1.7.1/demos/files/pdb/12E8.pdb: Protein Data Bank data, ID Code 12E8, 14-MAR-98 data/biojava-live-1.7.1/demos/files/wublast/sh_blastn.out: ASCII text data/biojava-live-1.7.1/demos/files/wublast/tblastx.out: ASCII text data/biojava-live-1.7.1/demos/files/wublast/blastp.out: ASCII text data/biojava-live-1.7.1/demos/files/wublast/sh_blastp.out: ASCII text data/biojava-live-1.7.1/demos/files/wublast/blastx.out: ASCII text data/biojava-live-1.7.1/demos/files/wublast/sh_blastx.out: ASCII text data/biojava-live-1.7.1/demos/files/wublast/blastn.out: ASCII text data/biojava-live-1.7.1/demos/files/wublast/tblastn.out: ASCII text data/biojava-live-1.7.1/demos/files/wublast/sh_tblastx.out: ASCII text data/biojava-live-1.7.1/demos/files/ACTN_HUMAN.uniprot: ASCII text data/biojava-live-1.7.1/demos/files/ncbiblast/tblastx.out: ASCII text data/biojava-live-1.7.1/demos/files/ncbiblast/blastp.out: ASCII text data/biojava-live-1.7.1/demos/files/ncbiblast/unsuppVersionBlastn.out: ASCII text data/biojava-live-1.7.1/demos/files/ncbiblast/blastx.out: ASCII text data/biojava-live-1.7.1/demos/files/ncbiblast/Massive.out: ASCII text data/biojava-live-1.7.1/demos/files/ncbiblast/blastn.out: ASCII text data/biojava-live-1.7.1/demos/files/ncbiblast/tblastn.out: ASCII text data/biojava-live-1.7.1/demos/files/ncbiblast/ReadMe: ASCII text data/biojava-live-1.7.1/demos/files/ncbiblast/shortBlastn.out: ASCII text data/biojava-live-1.7.1/demos/files/AL121903.genbank: ASCII text, with CRLF line terminators data/biojava-live-1.7.1/demos/files/fp_queries.db: ASCII text data/biojava-live-1.7.1/demos/files/out.gff: ASCII text, with very long lines data/biojava-live-1.7.1/demos/files/test.hmm: ASCII text data/biojava-live-1.7.1/demos/files/GCG/blast.report: ASCII text data/biojava-live-1.7.1/demos/files/varC4-2.dna: ASCII text data/biojava-live-1.7.1/demos/files/fake.fasta: ASCII text, with CRLF, LF line terminators data/biojava-live-1.7.1/demos/files/AF438419.embl: HTML document, ASCII text data/biojava-live-1.7.1/demos/files/clustal/keratin.aln: ASCII text data/biojava-live-1.7.1/demos/files/fp_demo.m10: ASCII text data/biojava-live-1.7.1/demos/files/AL121903.embl: ASCII text data/biojava-live-1.7.1/demos/files/NP_001307.gp: ASCII text data/biojava-live-1.7.1/demos/files/varC4-2.gff: ASCII text data/biojava-live-1.7.1/demos/prot/TestDigestIO.java: Perl5 module source, ASCII text data/biojava-live-1.7.1/.cvsignore: ASCII text data/biojava-live-1.7.1/resources/META-INF/services/org.biojava.bio.program.formats.Format: ASCII text data/biojava-live-1.7.1/resources/META-INF/services/org.biojava.directory.SequenceDBProvider: ASCII text data/biojava-live-1.7.1/resources/obda/naming/core.xml: ASCII text data/biojava-live-1.7.1/resources/org/biojava/bio/seq/io/FeatureQualifier.xml: XML 1.0 document, ASCII text data/biojava-live-1.7.1/resources/org/biojava/bio/seq/TranslationTables.xml: HTML document, ASCII text data/biojava-live-1.7.1/resources/org/biojava/bio/symbol/ResidueProperties.xml: XML 1.0 document, ASCII text data/biojava-live-1.7.1/resources/org/biojava/bio/symbol/CodonPrefTables.xml: ASCII text data/biojava-live-1.7.1/resources/org/biojava/bio/symbol/AlphabetManager.xml: XML 1.0 document, ASCII text data/biojava-live-1.7.1/resources/org/biojava/bio/structure/standardaminos.pdb: ASCII text data/biojava-live-1.7.1/resources/org/biojava/bio/structure/blosum62.mat: ASCII text data/biojava-live-1.7.1/resources/org/biojava/bio/gui/sequence/fastaDesc.html: HTML document, ASCII text data/biojava-live-1.7.1/resources/org/biojava/bio/gui/sequence/fastaExamp.fasta: ASCII text data/biojava-live-1.7.1/resources/org/biojava/bio/gui/sequence/msfDesc.html: HTML document, ASCII text data/biojava-live-1.7.1/resources/org/biojava/bio/gui/sequence/msfExamp.msf: ASCII text data/biojava-live-1.7.1/resources/org/biojava/bio/gui/sequence/NoSample.txt: ASCII text, with no line terminators data/biojava-live-1.7.1/resources/org/biojava/bio/gui/sequence/aprExamp.apr: ASCII text, with very long lines data/biojava-live-1.7.1/resources/org/biojava/bio/gui/sequence/NoDesc.html: HTML document, ASCII text data/biojava-live-1.7.1/resources/org/biojava/bio/gui/sequence/aprDesc.html: HTML document, ASCII text data/biojava-live-1.7.1/resources/org/biojava/bio/molbio/rebase_common.dat: ASCII text data/biojava-live-1.7.1/resources/org/biojava/bio/molbio/RestrictionEnzymeManager.properties: ASCII text data/biojava-live-1.7.1/resources/org/biojava/bio/program/unigene/createUnigene.sql: ASCII text data/biojava-live-1.7.1/resources/org/biojava/bio/program/sax/blastxml/NCBI_Entity.mod: exported SGML document, ASCII text data/biojava-live-1.7.1/resources/org/biojava/bio/program/sax/blastxml/NCBI_BlastOutput.mod: exported SGML document, ASCII text data/biojava-live-1.7.1/resources/org/biojava/bio/program/sax/blastxml/NCBI_BlastOutput.dtd: exported SGML document, ASCII text data/biojava-live-1.7.1/resources/org/biojava/bio/proteomics/ProteaseManager.xml: XML 1.0 document, ASCII text data/biojava-live-1.7.1/resources/org/biojava/ontology/core.list.pred: ASCII text data/biojava-live-1.7.1/resources/org/biojava/ontology/core.set.pred: C source, ASCII text data/biojava-live-1.7.1/resources/org/biojava/ontology/core.agregate.pred: ASCII text data/biojava-live-1.7.1/resources/org/biojava/ontology/core.pred: C++ source, ASCII text data/biojava-live-1.7.1/resources/org/biojava/ontology/colonel-west.pred: C++ source, ASCII text data/biojava-live-1.7.1/resources/org/biojava/ontology/core.onto: ASCII text data/biojava-live-1.7.1/resources/org/biojava/ontology/ontology.pred: Java source, ASCII text data/biojava-live-1.7.1/dtd/BlastLikeDataSetCollection.dtd: exported SGML document, ASCII text data/biojava-live-1.7.1/debian/README.Debian: ASCII text data/biojava-live-1.7.1/debian/README.source: ASCII text data/biojava-live-1.7.1/debian/changelog: ASCII text data/biojava-live-1.7.1/debian/compat: ASCII text data/biojava-live-1.7.1/debian/control: ASCII text data/biojava-live-1.7.1/debian/copyright: UTF-8 Unicode text data/biojava-live-1.7.1/debian/libbiojava-java-doc.dirs: ASCII text data/biojava-live-1.7.1/debian/libbiojava-java-doc.doc-base: UTF-8 Unicode text, with very long lines data/biojava-live-1.7.1/debian/libbiojava-java-doc.links: ASCII text data/biojava-live-1.7.1/debian/libbiojava-java.docs: ASCII text data/biojava-live-1.7.1/debian/libbiojava1.7-java.dirs: ASCII text data/biojava-live-1.7.1/debian/patches/buildxml.patch: unified diff output, ASCII text data/biojava-live-1.7.1/debian/patches/java8_instead_of_11.patch: unified diff output, ASCII text data/biojava-live-1.7.1/debian/patches/reproducible.patch: unified diff output, ASCII text, with very long lines data/biojava-live-1.7.1/debian/patches/series: ASCII text data/biojava-live-1.7.1/debian/rules: a /usr/bin/make -f script, ASCII text executable data/biojava-live-1.7.1/debian/source/format: ASCII text data/biojava-live-1.7.1/debian/upstream/metadata: UTF-8 Unicode text data/biojava-live-1.7.1/debian/watch: ASCII text data/biojava-live-1.7.1/.pc/.version: ASCII text data/biojava-live-1.7.1/.pc/.quilt_patches: ASCII text data/biojava-live-1.7.1/.pc/.quilt_series: ASCII text data/biojava-live-1.7.1/.pc/applied-patches: ASCII text data/biojava-live-1.7.1/.pc/buildxml.patch/build.xml: XML 1.0 document, ASCII text, with very long lines data/biojava-live-1.7.1/.pc/reproducible.patch/build.xml: XML 1.0 document, ASCII text, with very long lines data/biojava-live-1.7.1/.pc/java8_instead_of_11.patch/build.xml: XML 1.0 document, ASCII text, with very long lines data/biojava-live-1.7.1/.pc/java8_instead_of_11.patch/src/org/biojava/bio/structure/PDBHeader.java: Java source, ASCII text data/biojava-live-1.7.1/build.xml: XML 1.0 document, ASCII text, with very long lines