A B C D E F G H I K L M N O P Q R S T U V W X

R

RandomGenerator - Interface in helix.graph.algo
 
Rank - Static variable in interface helix.graph.model.Registry
 
RBoolean - Class in helix.graph.model.impl
 
RBoolean(boolean) - Constructor for class helix.graph.model.impl.RBoolean
 
RBoolean(Boolean) - Constructor for class helix.graph.model.impl.RBoolean
 
RBoolean(String) - Constructor for class helix.graph.model.impl.RBoolean
 
RColorSet - Class in helix.graph.model.impl
Implements set of colors to store into Registry
RColorSet() - Constructor for class helix.graph.model.impl.RColorSet
constructor : make an empty RColorSet
RColorSet(String) - Constructor for class helix.graph.model.impl.RColorSet
constructor : make a RColorSet by parsing the binary string argument (e.g.
RColorSet(RColorSet) - Constructor for class helix.graph.model.impl.RColorSet
constructor : make a RColorSet by copying another RColorSet
RColorSet(Iterable<Integer>) - Constructor for class helix.graph.model.impl.RColorSet
constructor : make a RColorSet by using a specified set of integers
read() - Method in class helix.graph.io.AbstractGraphReader
 
read() - Method in class helix.graph.io.DimacsExtendedReader
 
read() - Method in class helix.graph.io.DimacsReader
 
read() - Method in interface helix.graph.io.GraphReader
 
register(Edge) - Method in class helix.graph.algo.DeltaClosure.Constraint
 
registry() - Method in class helix.graph.model.impl.AbstractRegistry
 
registry() - Method in class helix.graph.model.impl.DelegateRegistry
 
registry() - Method in class helix.graph.model.impl.memory.MemGraph
 
Registry - Interface in helix.graph.model
A Registry keeps pairs of (key, value) key : String value : RegistryValue
registry() - Method in interface helix.graph.model.Registry
 
RegistryException - Exception in helix.graph.model
 
RegistryException() - Constructor for exception helix.graph.model.RegistryException
 
RegistryException(String) - Constructor for exception helix.graph.model.RegistryException
 
RegistryException(Throwable) - Constructor for exception helix.graph.model.RegistryException
 
RegistryValue - Interface in helix.graph.model
A RegistryValue object represents something that can be stored in a Registry.
RehashKey - Static variable in interface helix.graph.model.GSet
 
remove() - Method in class helix.graph.algo.c3part.optimizer.AbstractColorOptimizer
remove not implemented : throws UnsupportedOperationException
remove(String) - Method in class helix.graph.model.impl.DelegateRegistry
 
remove(String) - Method in class helix.graph.model.impl.memory.MemRegistry
 
remove(String) - Method in interface helix.graph.model.Registry
 
remove() - Method in class helix.graph.util.AdaptedIterator
 
remove() - Method in class helix.graph.util.BitSetIterator
not implemented : throws UnsupportedOperationException
remove() - Method in class helix.graph.util.EmptyIterator
 
remove() - Method in class helix.graph.util.IPermutationIterator
not implemented : throws UnsupportedOperationException
removeAlias(Vertex, Vertex) - Static method in class helix.graph.algo.c3part.C3PartUtil
remove alias from multinode
removeAliases(Vertex) - Static method in class helix.graph.algo.c3part.C3PartUtil
remove all aliases from multinode V (also remove root from Aliases(V))
removeAliases(Iterable<Vertex>) - Static method in class helix.graph.algo.c3part.C3PartUtil
 
removeEdge(Vertex, Vertex) - Method in interface helix.graph.model.Graph
 
removeEdge(Edge) - Method in interface helix.graph.model.Graph
 
removeEdge(Edge) - Method in class helix.graph.model.impl.AbstractGraph
 
removeEdge(Vertex, Vertex) - Method in class helix.graph.model.impl.memory.MemGraph
 
removeMultinode(Vertex) - Static method in class helix.graph.algo.c3part.C3PartUtil
remove multinode V from datanode v
removeRoot(Vertex) - Static method in class helix.graph.algo.c3part.C3PartUtil
remove root from multinode V (and remove V from its root aliases)
removeRoot(Iterable<Vertex>) - Static method in class helix.graph.algo.c3part.C3PartUtil
 
removeSons(Vertex) - Static method in class helix.graph.algo.c3part.C3PartUtil
remove all sons from multinode V
removeSons(Iterable<Vertex>) - Static method in class helix.graph.algo.c3part.C3PartUtil
 
removeVertex(Vertex) - Method in interface helix.graph.model.Graph
 
removeVertex(Vertex) - Method in class helix.graph.model.impl.AbstractGraph
 
removeVertex(int) - Method in class helix.graph.model.impl.RVertexList
 
removeVertex(Vertex) - Method in class helix.graph.model.impl.RVertexSet
 
removeVertexAttribute(String) - Method in class helix.graph.util.GraphDebugger
remove a vertex attributes from printing
Reporter - Class in helix.graph.util
an abstract class to log and printout information
Reporter() - Constructor for class helix.graph.util.Reporter
 
reportGaps - Variable in class helix.graph.program.isofun.IsofunOptions
 
reportOGs - Variable in class helix.graph.program.isofun.IsofunOptions
 
reset() - Method in class helix.graph.util.StopWatch
Reset the stopwatch, whatever its state
restoreEdge_(Vertex, Vertex, Vertex, Graph) - Method in class helix.graph.algo.c3part.compressor.AbstractMultiCompressor
delegate edge restoration restore (if needed) edge between V and W
restoreEdge_(Vertex, Vertex, Vertex, Graph) - Method in class helix.graph.algo.c3part.compressor.MultiIdentCompressor
delegate restoration restore (if needed) edge between V and W
restoreEdge_(Vertex, Vertex, Vertex, Graph) - Method in class helix.graph.algo.c3part.compressor.MultiInColorsCompressor
delegate restoration restore (if needed) edge between V and W
restoreEdge_(Vertex, Vertex, Vertex, Graph) - Method in class helix.graph.algo.c3part.compressor.MultiInSetColorsCompressor
delegate restoration restore (if needed) edge between V and W
restoreEdge_(Vertex, Vertex, Vertex, Graph) - Method in class helix.graph.algo.c3part.compressor.MultiInSetCompressor
delegate restoration restore (if needed) edge between V and W
retrieveSet() - Method in class helix.graph.algo.c3part.compressor.AbstractCompressor
retrieve a copy of previously stored set optional operation
retrieveSet() - Method in interface helix.graph.algo.c3part.compressor.GraphCompressor
retrieve previously stored set this is an optional operation
retrieveSet() - Method in class helix.graph.algo.c3part.compressor.NoCompressor
 
RFloat - Class in helix.graph.model.impl
 
RFloat(float) - Constructor for class helix.graph.model.impl.RFloat
 
RFloat(Float) - Constructor for class helix.graph.model.impl.RFloat
 
RFloat(String) - Constructor for class helix.graph.model.impl.RFloat
 
RInteger - Class in helix.graph.model.impl
 
RInteger(int) - Constructor for class helix.graph.model.impl.RInteger
 
RInteger(Integer) - Constructor for class helix.graph.model.impl.RInteger
 
RInteger(String) - Constructor for class helix.graph.model.impl.RInteger
 
RObject - Class in helix.graph.model.impl
a memory implementation of a RegistryValue to hold any Object !! please use scarcely !!! note: this can be used for weak references too
RObject(Object) - Constructor for class helix.graph.model.impl.RObject
 
RString - Class in helix.graph.model.impl
 
RString(String) - Constructor for class helix.graph.model.impl.RString
 
run() - Method in class helix.graph.algo.c3part.C3PartAbstract
run algo with current options.
run() - Method in interface helix.graph.algo.c3part.C3PartAlgo
run main algo (with current options)
run(Graph) - Method in class helix.graph.algo.c3part.preprocessor.CCColorCleaner
 
run(Graph) - Method in class helix.graph.algo.c3part.preprocessor.Chromatizer
implement our run() operation
run(Graph) - Method in class helix.graph.algo.c3part.preprocessor.ColorCleaner
 
run(Graph) - Method in class helix.graph.algo.c3part.preprocessor.DataGraphCloser
implement our run() operation
run(Graph) - Method in class helix.graph.algo.c3part.preprocessor.EpsilonCloser
implement our run() operation
run(Graph) - Method in class helix.graph.algo.c3part.preprocessor.GraphPreprocessor
preprocess datagraph note: the datagraph argument is modified
run(Graph, Logger) - Method in class helix.graph.algo.c3part.preprocessor.GraphPreprocessor
same but with logging information
run(Graph) - Method in class helix.graph.algo.c3part.preprocessor.IterativeCleaner
 
run(Graph) - Method in class helix.graph.algo.c3part.preprocessor.MultiGraphCloser
implement our run() operation
run(Graph) - Method in class helix.graph.algo.c3part.preprocessor.NoCleaner
 
run(Graph) - Method in class helix.graph.algo.c3part.preprocessor.TandemCleaner
run cleaner
run() - Method in class helix.graph.algo.DeltaClosure
run delta closure computation
run(Vertex) - Method in class helix.graph.algo.Dijkstra
main Dijkstra algorithm get all distances from source to all vertices in connected component of source (CC(source)) distance are stored into vertices registry with label Dijkstra.Distance note: vertices not in CC(source) do not have the Dijkstra.Distance flag
run() - Method in class helix.graph.algo.Warshall
main Warshall algorithm get all distances between all pairs of vertices TODO connected by given color -> add constraint
run() - Method in class helix.graph.util.MemoryWatcher
 
RVertex - Class in helix.graph.model.impl
a memory implementation of a RegistryValue to hold a single Vertex
RVertex(Vertex) - Constructor for class helix.graph.model.impl.RVertex
 
RVertexArray - Class in helix.graph.model.impl
a memory implementation of RegistryValue for arrays (fixed size tuples) of Vertices
RVertexArray(int) - Constructor for class helix.graph.model.impl.RVertexArray
 
RVertexList - Class in helix.graph.model.impl
a memory implementation of RegistryValue for lists of Vertices
RVertexList(int) - Constructor for class helix.graph.model.impl.RVertexList
 
RVertexList() - Constructor for class helix.graph.model.impl.RVertexList
 
RVertexList(Vertex) - Constructor for class helix.graph.model.impl.RVertexList
 
RVertexList(Collection<Vertex>) - Constructor for class helix.graph.model.impl.RVertexList
 
RVertexSet - Class in helix.graph.model.impl
a memory implementation of RegistryValue for set of Vertices
RVertexSet() - Constructor for class helix.graph.model.impl.RVertexSet
 
RVertexSet(Vertex) - Constructor for class helix.graph.model.impl.RVertexSet
 
RVertexSet(Collection<Vertex>) - Constructor for class helix.graph.model.impl.RVertexSet
 
RVoid - Class in helix.graph.model.impl
a RegistryValue containing nothing (mostly used for flags)
RVoid() - Constructor for class helix.graph.model.impl.RVoid
 

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