 ../
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AAinfo.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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AIGEdge.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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AIGNode.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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AIGraph.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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Alignment.java
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501
(12 years ago)
by duarte:
Changed implementation of Alignment: now based on indices rather than tags. Interface remains mostly the same
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AlignmentConstructionError.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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Box.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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CaspRRFileData.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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CaspRRFileRIGraph.java
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497
(12 years ago)
by duarte:
Extracted some constants: NO_PDB_CODE, NO_PDB_CHAIN_CODE, NO_CONTACT_TYPE, NO_CUTOFF
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CatalSiteSet.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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CatalyticSite.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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CiffileFormatError.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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CiffilePdb.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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ConformationsNotSameSizeError.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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ContactType.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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DbRIGraph.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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EC.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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ECRegion.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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FastaFileFormatError.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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FileFormatError.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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FileRIGraph.java
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497
(12 years ago)
by duarte:
Extracted some constants: NO_PDB_CODE, NO_PDB_CHAIN_CODE, NO_CONTACT_TYPE, NO_CUTOFF
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FileTypeGuesser.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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GraphFileFormatError.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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GraphIODb.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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GraphIOGDLFile.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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GraphIdNotFoundError.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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IntPairComparator.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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IntPairSet.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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Interval.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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IntervalSet.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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MaxClusterRunner.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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MsdsdInconsistentResidueNumbersError.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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MsdsdPdb.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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NbhProbDistribution.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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NbhoodBackgrnd.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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PairwiseAlignmentConverter.java
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501
(12 years ago)
by duarte:
Changed implementation of Alignment: now based on indices rather than tags. Interface remains mostly the same
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PairwiseAlignmentGraphConverter.java
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498
(12 years ago)
by duarte:
Now also copying the CASP RR identifier fields in RIGraph.copy() and in PairwiseAlignmentGraphConverter.converGraph().
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PairwiseSequenceAlignment.java
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499
(12 years ago)
by duarte:
Got rid of check for equality of tags
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Pdb.java
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497
(12 years ago)
by duarte:
Extracted some constants: NO_PDB_CODE, NO_PDB_CHAIN_CODE, NO_CONTACT_TYPE, NO_CUTOFF
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PdbChainCodeNotFoundError.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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PdbCodeNotFoundError.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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PdbLoadError.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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PdbaseInconsistencyError.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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PdbasePdb.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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PdbfileFormatError.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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PdbfilePdb.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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PirFileFormatError.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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PredEval.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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ProtStructGraph.java
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497
(12 years ago)
by duarte:
Extracted some constants: NO_PDB_CODE, NO_PDB_CHAIN_CODE, NO_CONTACT_TYPE, NO_CUTOFF
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RIGCommonNbhood.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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RIGEdge.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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RIGEnsemble.java
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495
(12 years ago)
by stehr:
added main function and loading from Multi-model PDB files
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RIGNbhood.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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RIGNode.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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RIGraph.java
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498
(12 years ago)
by duarte:
Now also copying the CASP RR identifier fields in RIGraph.copy() and in PairwiseAlignmentGraphConverter.converGraph().
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Scop.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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ScopRegion.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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SecStrucElement.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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SecondaryStructure.java
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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aapairsBounds.dat
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492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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contactTypes.dat
|
492
(12 years ago)
by duarte:
Copied the aglappe-jung branch into trunk.
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