inprogress
authorcmzmasek@gmail.com <cmzmasek@gmail.com@ca865154-3058-d1c3-3e42-d8f55a55bdbd>
Tue, 2 Jul 2013 02:09:51 +0000 (02:09 +0000)
committercmzmasek@gmail.com <cmzmasek@gmail.com@ca865154-3058-d1c3-3e42-d8f55a55bdbd>
Tue, 2 Jul 2013 02:09:51 +0000 (02:09 +0000)
commit87d34f343d0262cd0c009c6f1da058a5a217bc64
treea070d8f96457f4a8a8deb738aeaeb00f3c637939
parent80b27563a791c190e3b5382c063d94dbafa54187
inprogress
41 files changed:
forester/java/src/org/forester/application/pfam2go_extractor.java
forester/java/src/org/forester/application/pfam_go.java
forester/java/src/org/forester/application/pfamacc2go.java
forester/java/src/org/forester/application/surfacing.java
forester/java/src/org/forester/go/PfamToGoMapping.java
forester/java/src/org/forester/go/PfamToGoParser.java
forester/java/src/org/forester/go/TestGo.java
forester/java/src/org/forester/go/etc/MetaOntologizer.java
forester/java/src/org/forester/io/parsers/HmmPfamOutputParser.java
forester/java/src/org/forester/io/parsers/HmmscanPerDomainTableParser.java
forester/java/src/org/forester/protein/BasicDomain.java
forester/java/src/org/forester/protein/BasicProtein.java
forester/java/src/org/forester/protein/BinaryDomainCombination.java
forester/java/src/org/forester/protein/Domain.java
forester/java/src/org/forester/protein/DomainId.java
forester/java/src/org/forester/protein/Protein.java
forester/java/src/org/forester/surfacing/AdjactantDirectedBinaryDomainCombination.java
forester/java/src/org/forester/surfacing/AdjactantDirectedCombinableDomains.java
forester/java/src/org/forester/surfacing/BasicBinaryDomainCombination.java
forester/java/src/org/forester/surfacing/BasicCombinableDomains.java
forester/java/src/org/forester/surfacing/BasicDomainSimilarityCalculator.java
forester/java/src/org/forester/surfacing/BasicGenomeWideCombinableDomains.java
forester/java/src/org/forester/surfacing/CombinableDomains.java
forester/java/src/org/forester/surfacing/CombinationsBasedPairwiseDomainSimilarityCalculator.java
forester/java/src/org/forester/surfacing/DirectedBinaryDomainCombination.java
forester/java/src/org/forester/surfacing/DirectedCombinableDomains.java
forester/java/src/org/forester/surfacing/DomainArchitectureBasedGenomeSimilarityCalculator.java
forester/java/src/org/forester/surfacing/DomainCountsDifferenceUtil.java
forester/java/src/org/forester/surfacing/DomainLengths.java
forester/java/src/org/forester/surfacing/DomainLengthsTable.java
forester/java/src/org/forester/surfacing/DomainParsimonyCalculator.java
forester/java/src/org/forester/surfacing/DomainSimilarity.java
forester/java/src/org/forester/surfacing/GenomeWideCombinableDomains.java
forester/java/src/org/forester/surfacing/PairwiseGenomeComparator.java
forester/java/src/org/forester/surfacing/PrintableDomainSimilarity.java
forester/java/src/org/forester/surfacing/PrintableSpeciesSpecificDomainSimilariyData.java
forester/java/src/org/forester/surfacing/SimpleDomain.java
forester/java/src/org/forester/surfacing/SpeciesSpecificDomainSimilariyData.java
forester/java/src/org/forester/surfacing/SurfacingUtil.java
forester/java/src/org/forester/surfacing/TestSurfacing.java
forester/java/src/org/forester/test/Test.java