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r1347
File (rev) Last Change
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owl/ 1347 (8 years ago) by hstehr: moving project CCCP to this repository
examples/ 1326 (8 years ago) by jmduarteg: Renamed xxxxError classes to xxxxException as they should be.
writeSASAtoBFactor.java 1326 (8 years ago) by jmduarteg: Renamed xxxxError classes to xxxxException as they should be.
writePerAtomDistancesToBFactor.java 1005 (9 years ago) by hstehr: refactoring: renaming proteinstructure to structure and tools to util; moving connections,features,runners,sequence,structure,util to owl.core
unitCellVol.java 1181 (9 years ago) by jmduarteg: Now parsing the unit cell and crystal space group info when reading PDB sources. New simple script for unit cell volume.
testPymolServer.java 951 (9 years ago) by duarte: Reorganised the project with a src folder for java source files. Added a jars dir with all jars needed for the project. Added .project and .classpath pointing to relative path of jars. The project should now work out of the box after a check-out with eclipse. No need to setup external jars or anything.
testPyMol.java 1005 (9 years ago) by hstehr: refactoring: renaming proteinstructure to structure and tools to util; moving connections,features,runners,sequence,structure,util to owl.core
testPdb.java 1326 (8 years ago) by jmduarteg: Renamed xxxxError classes to xxxxException as they should be.
testMySQLConnection.java 1005 (9 years ago) by hstehr: refactoring: renaming proteinstructure to structure and tools to util; moving connections,features,runners,sequence,structure,util to owl.core
testJUNGframework.java 1326 (8 years ago) by jmduarteg: Renamed xxxxError classes to xxxxException as they should be.
testDbRIGraph.java 1009 (9 years ago) by hstehr: refactoring: moved many many classes to more appropriate packages; created new packages owl.core.sequence.alignment, owl.core.structure.alignment, owl.core.structure.features
testClusterConnection.java 1005 (9 years ago) by hstehr: refactoring: renaming proteinstructure to structure and tools to util; moving connections,features,runners,sequence,structure,util to owl.core
testAICGraph.java 1192 (9 years ago) by jmduarteg: Committing test class for AICGraph
superimposeMult.java 1326 (8 years ago) by jmduarteg: Renamed xxxxError classes to xxxxException as they should be.
scorePdbSet.java 1326 (8 years ago) by jmduarteg: Renamed xxxxError classes to xxxxException as they should be.
scoreGeomOfPdbs.java 1326 (8 years ago) by jmduarteg: Renamed xxxxError classes to xxxxException as they should be.
scoreDecoys.java 1326 (8 years ago) by jmduarteg: Renamed xxxxError classes to xxxxException as they should be.
runMD.java 1009 (9 years ago) by hstehr: refactoring: moved many many classes to more appropriate packages; created new packages owl.core.sequence.alignment, owl.core.structure.alignment, owl.core.structure.features
reconstruct.java 1326 (8 years ago) by jmduarteg: Renamed xxxxError classes to xxxxException as they should be.
pir2fasta.java 1343 (8 years ago) by hstehr:
pairwiseSeqId.java 1009 (9 years ago) by hstehr: refactoring: moved many many classes to more appropriate packages; created new packages owl.core.sequence.alignment, owl.core.structure.alignment, owl.core.structure.features
mirrorIt.java 1005 (9 years ago) by hstehr: refactoring: renaming proteinstructure to structure and tools to util; moving connections,features,runners,sequence,structure,util to owl.core
mapMutations.java 1326 (8 years ago) by jmduarteg: Renamed xxxxError classes to xxxxException as they should be.
genGraph.java 1326 (8 years ago) by jmduarteg: Renamed xxxxError classes to xxxxException as they should be.
genDbGraph.java 1326 (8 years ago) by jmduarteg: Renamed xxxxError classes to xxxxException as they should be.
enumerateInterfaces.java 1345 (8 years ago) by jmduarteg: Now the colors of chains of pymol generated images are consistent with the letter codes (given a chain letter code the color will always be the same for it for all images generated)
dumpseq.java 1326 (8 years ago) by jmduarteg: Renamed xxxxError classes to xxxxException as they should be.
dumppdb.java 1326 (8 years ago) by jmduarteg: Renamed xxxxError classes to xxxxException as they should be.
computeEnergies.java 1009 (9 years ago) by hstehr: refactoring: moved many many classes to more appropriate packages; created new packages owl.core.sequence.alignment, owl.core.structure.alignment, owl.core.structure.features
compareCMs.java 1009 (9 years ago) by hstehr: refactoring: moved many many classes to more appropriate packages; created new packages owl.core.sequence.alignment, owl.core.structure.alignment, owl.core.structure.features
compareAlignments.java 1326 (8 years ago) by jmduarteg: Renamed xxxxError classes to xxxxException as they should be.
clustal2fasta.java 1344 (8 years ago) by hstehr:
checkChirality.java 1005 (9 years ago) by hstehr: refactoring: renaming proteinstructure to structure and tools to util; moving connections,features,runners,sequence,structure,util to owl.core
calculateGridDensity.java 1341 (8 years ago) by jmduarteg: Now parsing pdb titles in PDB, CIF and pdbase. Tests pass. Moved some constants from Pdb to PdbAsymUnit
calcVolsAndSurfs.java 1032 (9 years ago) by jmduarteg: Extracted the calc-vol and calc-surf runner code to its own Runner class.
benchmarkGraphAlgorithm.java 1341 (8 years ago) by jmduarteg: Now parsing pdb titles in PDB, CIF and pdbase. Tests pass. Moved some constants from Pdb to PdbAsymUnit
averageGraph.java 1009 (9 years ago) by hstehr: refactoring: moved many many classes to more appropriate packages; created new packages owl.core.sequence.alignment, owl.core.structure.alignment, owl.core.structure.features
analyseHistone.java 1005 (9 years ago) by hstehr: refactoring: renaming proteinstructure to structure and tools to util; moving connections,features,runners,sequence,structure,util to owl.core
alignSeq.java 1340 (8 years ago) by hstehr: Fixed bugs in method for reading from PIR file; added script to convert from PIR to Fasta
addSeq2Mcma.java 1342 (8 years ago) by hstehr:
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