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r489
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actionTools/ 466 (11 years ago) by lpetzo: MAJOR CHANGES: - merge the changes from the jung-branch: *Pdb loading scheme together with new methods getChains(), getModels() - different exceptions
proteinstructure/ 466 (11 years ago) by lpetzo: MAJOR CHANGES: - merge the changes from the jung-branch: *Pdb loading scheme together with new methods getChains(), getModels() - different exceptions
sadp/ 467 (11 years ago) by lpetzo: don't touch br!!!
tinker/ 466 (11 years ago) by lpetzo: MAJOR CHANGES: - merge the changes from the jung-branch: *Pdb loading scheme together with new methods getChains(), getModels() - different exceptions
tools/ 381 (11 years ago) by lpetzo: a generic pair class
Manifest.txt 489 (11 years ago) by duarte: Updated version to 0.8.7 in Manifest
benchmarkGraphAlgorithm.java 466 (11 years ago) by lpetzo: MAJOR CHANGES: - merge the changes from the jung-branch: *Pdb loading scheme together with new methods getChains(), getModels() - different exceptions
calculateGridDensity.java 466 (11 years ago) by lpetzo: MAJOR CHANGES: - merge the changes from the jung-branch: *Pdb loading scheme together with new methods getChains(), getModels() - different exceptions
cnCoarseNbhood.java 272 (12 years ago) by lappe:
cnEvalTargetNbhood.java 271 (12 years ago) by lappe:
cnHashIterNbhood.java 266 (12 years ago) by lappe:
cnex1.java 265 (12 years ago) by lappe: final version incl. pessimistic tie-break
compareCMs.java 466 (11 years ago) by lpetzo: MAJOR CHANGES: - merge the changes from the jung-branch: *Pdb loading scheme together with new methods getChains(), getModels() - different exceptions
createGraphDb.sh 413 (11 years ago) by filippis: createGraphDb.sh -pchain_code is now modified to VARCHAR(2) from CHAR(1) due to pdbase_chain_code -index for pdb_residue_info table added
genDbGraph.java 466 (11 years ago) by lpetzo: MAJOR CHANGES: - merge the changes from the jung-branch: *Pdb loading scheme together with new methods getChains(), getModels() - different exceptions
genGraph.java 466 (11 years ago) by lpetzo: MAJOR CHANGES: - merge the changes from the jung-branch: *Pdb loading scheme together with new methods getChains(), getModels() - different exceptions
hashIterNbhood.java 267 (12 years ago) by lappe:
iterEvalNbhood.java 269 (12 years ago) by lappe:
iterateNbhood.java 202 (12 years ago) by duarte: MySQLConnection now throwing SQLException on connect Many files changed following this: all calling classes now re-throwing or catching the SQLException
iterateNbs.java 202 (12 years ago) by duarte: MySQLConnection now throwing SQLException on connect Many files changed following this: all calling classes now re-throwing or catching the SQLException
iterateUpperNbhood.java 202 (12 years ago) by duarte: MySQLConnection now throwing SQLException on connect Many files changed following this: all calling classes now re-throwing or catching the SQLException
iterateUpperNbs.java 268 (12 years ago) by lappe:
listInfoGain.java 202 (12 years ago) by duarte: MySQLConnection now throwing SQLException on connect Many files changed following this: all calling classes now re-throwing or catching the SQLException
listInfoLoss.java 202 (12 years ago) by duarte: MySQLConnection now throwing SQLException on connect Many files changed following this: all calling classes now re-throwing or catching the SQLException
make-aglappe.sh 432 (11 years ago) by duarte: Initial commit: script to make aglappe project into one compiled jar
makeNbhTbl.java 24 (13 years ago) by stehr: moved executables (classes with main function) to root directory
maxInfoGain.java 202 (12 years ago) by duarte: MySQLConnection now throwing SQLException on connect Many files changed following this: all calling classes now re-throwing or catching the SQLException
minInfoGain.java 202 (12 years ago) by duarte: MySQLConnection now throwing SQLException on connect Many files changed following this: all calling classes now re-throwing or catching the SQLException
reconstruct.java 466 (11 years ago) by lpetzo: MAJOR CHANGES: - merge the changes from the jung-branch: *Pdb loading scheme together with new methods getChains(), getModels() - different exceptions
rewriteNBHood.java 299 (12 years ago) by lappe: only one out of both BB/SC insertion per moves based on sc/bb domin. out of temp shell
rewriteNBHood_parallel.java 291 (12 years ago) by lappe: 1st version scoring with pdb_reps_graph_4_2 and full nbhood string
runGenDbGraph.sh 395 (11 years ago) by duarte: Initial commit. Provisional script to use the genDbGraph program when iterating through loads of structures, because of the "memory leak" problem is not possible to use directly genDbGraph to iterate over many structures (~1000)
scoreTargetMoves.java 390 (11 years ago) by duarte: Not creating anymore the score table
testClusterConnection.java 202 (12 years ago) by duarte: MySQLConnection now throwing SQLException on connect Many files changed following this: all calling classes now re-throwing or catching the SQLException
testDeltaDistanceMap.java 466 (11 years ago) by lpetzo: MAJOR CHANGES: - merge the changes from the jung-branch: *Pdb loading scheme together with new methods getChains(), getModels() - different exceptions
testGraph2Pml.java 116 (12 years ago) by filippis: testGraph2Pml.java fixed according to changes made in Msdsd2Pdb.java
testGraphClustering.java 466 (11 years ago) by lpetzo: MAJOR CHANGES: - merge the changes from the jung-branch: *Pdb loading scheme together with new methods getChains(), getModels() - different exceptions
testMySQLConnection.java 202 (12 years ago) by duarte: MySQLConnection now throwing SQLException on connect Many files changed following this: all calling classes now re-throwing or catching the SQLException
testPdb.java 466 (11 years ago) by lpetzo: MAJOR CHANGES: - merge the changes from the jung-branch: *Pdb loading scheme together with new methods getChains(), getModels() - different exceptions
testPyMol.java 114 (12 years ago) by duarte: Initial commit. PyMol API script example, also using our PymolServerOutputStream to send commands directly to server
testPymolServer.java 203 (12 years ago) by duarte: Using apache xmlrpc version 3.0 in PyMolServerOutputStream
testResidueSelectionString.java 351 (11 years ago) by stehr: added some test programs to default package
writeTargetMoves.java 313 (12 years ago) by lappe: short form to compress nbstrings = condense multiple occurence of a symbol in the nbhstring to 1. Still a bitz buggy. sometimes 2 symbols are left in ?
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