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r466
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tools/ 381 (12 years ago) by lpetzo: a generic pair class
tinker/ 466 (12 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/ 446 (12 years ago) by lpetzo: Johannes provided us we the debugged version of noncrossing(), kept the old version for sentimental reason as noncrossing_()
proteinstructure/ 466 (12 years ago) by lpetzo: MAJOR CHANGES: - merge the changes from the jung-branch: *Pdb loading scheme together with new methods getChains(), getModels() - different exceptions
actionTools/ 466 (12 years ago) by lpetzo: MAJOR CHANGES: - merge the changes from the jung-branch: *Pdb loading scheme together with new methods getChains(), getModels() - different exceptions
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 ?
testResidueSelectionString.java 351 (12 years ago) by stehr: added some test programs to default package
testPymolServer.java 203 (12 years ago) by duarte: Using apache xmlrpc version 3.0 in PyMolServerOutputStream
testPyMol.java 114 (12 years ago) by duarte: Initial commit. PyMol API script example, also using our PymolServerOutputStream to send commands directly to server
testPdb.java 466 (12 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
testGraphClustering.java 466 (12 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
testDeltaDistanceMap.java 466 (12 years ago) by lpetzo: MAJOR CHANGES: - merge the changes from the jung-branch: *Pdb loading scheme together with new methods getChains(), getModels() - different exceptions
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
scoreTargetMoves.java 390 (12 years ago) by duarte: Not creating anymore the score table
runGenDbGraph.sh 395 (12 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)
rewriteNBHood_parallel.java 291 (12 years ago) by lappe: 1st version scoring with pdb_reps_graph_4_2 and full nbhood string
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
reconstruct.java 466 (12 years ago) by lpetzo: MAJOR CHANGES: - merge the changes from the jung-branch: *Pdb loading scheme together with new methods getChains(), getModels() - different exceptions
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
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
makeNbhTbl.java 24 (13 years ago) by stehr: moved executables (classes with main function) to root directory
make-aglappe.sh 432 (12 years ago) by duarte: Initial commit: script to make aglappe project into one compiled jar
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
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
iterateUpperNbs.java 268 (12 years ago) by lappe:
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
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
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
iterEvalNbhood.java 269 (12 years ago) by lappe:
hashIterNbhood.java 267 (12 years ago) by lappe:
genGraph.java 466 (12 years ago) by lpetzo: MAJOR CHANGES: - merge the changes from the jung-branch: *Pdb loading scheme together with new methods getChains(), getModels() - different exceptions
genDbGraph.java 466 (12 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 (12 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
compareCMs.java 466 (12 years ago) by lpetzo: MAJOR CHANGES: - merge the changes from the jung-branch: *Pdb loading scheme together with new methods getChains(), getModels() - different exceptions
cnex1.java 265 (12 years ago) by lappe: final version incl. pessimistic tie-break
cnHashIterNbhood.java 266 (12 years ago) by lappe:
cnEvalTargetNbhood.java 271 (12 years ago) by lappe:
cnCoarseNbhood.java 272 (12 years ago) by lappe:
calculateGridDensity.java 466 (12 years ago) by lpetzo: MAJOR CHANGES: - merge the changes from the jung-branch: *Pdb loading scheme together with new methods getChains(), getModels() - different exceptions
benchmarkGraphAlgorithm.java 466 (12 years ago) by lpetzo: MAJOR CHANGES: - merge the changes from the jung-branch: *Pdb loading scheme together with new methods getChains(), getModels() - different exceptions
Manifest.txt 439 (12 years ago) by duarte: Updated version in Manifest for tagging
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