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Author: duarte
Date: Thu Nov 22 17:27:44 2007 UTC (11 years, 11 months ago)
Log Message:
First implementation of the new graph framework using JUNG2. Still a few classes to fix, but all basic functionality is there.
NOTE: at the moment ProtStructGraph is a SparseGraph which doesn't guarantee that the graph has no parallel or loop edges (I thought that would be solved by using the SimpleGraph interface but it doesn't, that's only a marker interface)

Changed paths

Path Details
Directorybranches/aglappe-jung/benchmarkGraphAlgorithm.java modified , text changed
Directorybranches/aglappe-jung/genDbGraph.java modified , text changed
Directorybranches/aglappe-jung/genGraph.java modified , text changed
Directorybranches/aglappe-jung/proteinstructure/AIGEdge.java added
Directorybranches/aglappe-jung/proteinstructure/AIGNode.java added
Directorybranches/aglappe-jung/proteinstructure/AIGraph.java added
Directorybranches/aglappe-jung/proteinstructure/DbGraph.java deleted
Directorybranches/aglappe-jung/proteinstructure/DbRIGraph.java added
Directorybranches/aglappe-jung/proteinstructure/Edge.java deleted
Directorybranches/aglappe-jung/proteinstructure/EdgeNbh.java deleted
Directorybranches/aglappe-jung/proteinstructure/EdgeSet.java deleted
Directorybranches/aglappe-jung/proteinstructure/FileGraph.java deleted
Directorybranches/aglappe-jung/proteinstructure/FileRIGraph.java added
Directorybranches/aglappe-jung/proteinstructure/GenericContact.java deleted
Directorybranches/aglappe-jung/proteinstructure/Graph.java deleted
Directorybranches/aglappe-jung/proteinstructure/GraphAverager.java modified , text changed
Directorybranches/aglappe-jung/proteinstructure/IntPairSet.java added
Directorybranches/aglappe-jung/proteinstructure/Node.java deleted
Directorybranches/aglappe-jung/proteinstructure/NodeNbh.java deleted
Directorybranches/aglappe-jung/proteinstructure/NodeSet.java deleted
Directorybranches/aglappe-jung/proteinstructure/Pdb.java modified , text changed
Directorybranches/aglappe-jung/proteinstructure/ProtStructGraph.java added
Directorybranches/aglappe-jung/proteinstructure/RIGCommonNbhood.java added
Directorybranches/aglappe-jung/proteinstructure/RIGEdge.java added
Directorybranches/aglappe-jung/proteinstructure/RIGNbhood.java added
Directorybranches/aglappe-jung/proteinstructure/RIGNode.java added
Directorybranches/aglappe-jung/proteinstructure/RIGraph.java added
Directorybranches/aglappe-jung/reconstruct.java modified , text changed
Directorybranches/aglappe-jung/sadp/ContactMap.java modified , text changed
Directorybranches/aglappe-jung/testDeltaDistanceMap.java modified , text changed
Directorybranches/aglappe-jung/testGraphAverager.java modified , text changed
Directorybranches/aglappe-jung/testJUNGframework.java added
Directorybranches/aglappe-jung/testPdb.java modified , text changed
Directorybranches/aglappe-jung/tinker/ConstraintsMaker.java modified , text changed
Directorybranches/aglappe-jung/tinker/TinkerRunner.java modified , text changed