- c -

c : denoptim.ga.EAUtilsTest, denoptim.graph.DGraphTest
CACTVS : denoptim.gui.GUIPreferences.SMITo3DEngine
canBeScaffold : denoptim.gui.GUIEmptyVertexMaker
candFragsPerAP : denoptim.fragspace.FragsCombinationIterator
candidate : denoptim.graph.DGraph
CANDIDATE2DEXTENSION : denoptim.constants.DENOPTIMConstants
CANDIDATESDF : denoptim.files.FileFormat
candidatesToAdd : denoptim.ga.EvolutionaryAlgorithm
candidatesToRemove : denoptim.ga.EvolutionaryAlgorithm
candsPerGeneration : denoptim.gui.GUIInspectGARun
candsWithFitnessMap : denoptim.gui.GUIInspectGARun
cap : denoptim.graph.DGraphTest
CAP : denoptim.graph.Vertex.BBType, denoptim.gui.GraphViewerPanel.JVertexType
CAPP : denoptim.graph.DGraphTest
cappingLib : denoptim.fragspace.FragmentSpace
cappingLibFile : denoptim.fragspace.FragmentSpaceParameters
cappingMap : denoptim.fragspace.FragmentSpace, denoptim.gui.CompatibilityMatrixForm
CDK : denoptim.gui.GUIPreferences.SMITo3DEngine
cdkBuilder : denoptim.fitness.DescriptorForFitness, denoptim.fitness.descriptors.TanimotoMolSimilarity
CEBL_PARAMS : denoptim.programs.RunTimeParameters.ParametersType
ceblSettings : denoptim.combinatorial.GraphBuildingTask
centralPanel : denoptim.gui.CuttingRulesSelectionDialog, denoptim.gui.GUIAPClassDefinitionDialog, denoptim.gui.GUIEmptyVertexMaker, denoptim.gui.GUIGraphHandler.ConfigTemplateDialog, denoptim.gui.GUIInspectFSERun, denoptim.gui.GUIInspectGARun, denoptim.gui.GUIPreferencesDialog, denoptim.gui.VertexViewPanel
centroid : denoptim.fragmenter.DynamicCentroidCluster
chainID : denoptim.graph.rings.PathSubGraph, denoptim.graph.rings.RingClosingConformations
CHANGEBRANCH : denoptim.utils.MutationType
CHANGELINK : denoptim.utils.MutationType
CHANGEVERTEX : denoptim.utils.GraphEdit.EditTask
chartByLevel : denoptim.gui.GUIInspectFSERun
chartBySorted : denoptim.gui.GUIInspectFSERun
chartHolderPanel : denoptim.gui.GUIInspectFSERun
chartPanelByLevel : denoptim.gui.GUIInspectFSERun
chartPanelSorted : denoptim.gui.GUIInspectFSERun
chartPointSize : denoptim.gui.GUIPreferences
checkedFlags : denoptim.gui.ParametersForm
checkFormula : denoptim.programs.fragmenter.FragmenterParameters
checkInterdepPaths : denoptim.graph.rings.RingClosureParameters
checkPreFitnessUID : denoptim.fitness.FitnessParameters
checkPreFitnessUIDFromInput : denoptim.fitness.FitnessParameters
chemBuilder : denoptim.ga.GraphOperationsTest, denoptim.graph.TemplateTest
chkpt : denoptim.programs.combinatorial.CEBLParameters
chkptFile : denoptim.programs.combinatorial.CEBLParameters
chkptRestart : denoptim.programs.combinatorial.CEBLParameters
chkptStep : denoptim.programs.combinatorial.CEBLParameters
chosenAPMap : denoptim.fragspace.APMapFinder, denoptim.fragspace.GraphLinkFinder
chosenNewLink : denoptim.fragspace.GraphLinkFinder
chosenOnes : denoptim.gui.CuttingRulesSelectionDialog
chosenSDFTags : denoptim.gui.GUIPreferences
className : denoptim.fitness.DescriptorForFitness
CLG : denoptim.main.Main.RunType
CLG_PARAM : denoptim.files.FileFormat, denoptim.files.FileFormat.DataKind
closableChains : denoptim.graph.DGraph
closeRings : denoptim.graph.rings.RingClosureParameters
clusters : denoptim.fragmenter.FragmentClusterer
cmbAPC2BO : denoptim.gui.GUIAPClassDefinitionDialog
cmbBBType : denoptim.gui.GUIEmptyVertexMaker
cmbFieldChange : denoptim.gui.ParametersForm
cmbPar11 : denoptim.gui.GAParametersForm
cmbPar15 : denoptim.gui.GAParametersForm
cmbPar19 : denoptim.gui.FSParametersForm, denoptim.gui.GAParametersForm
cmbPar2 : denoptim.gui.GAParametersForm
cmbPar25 : denoptim.gui.GAParametersForm
cmbParCrowd1 : denoptim.gui.GAParametersForm
cmbParMolSz1 : denoptim.gui.GAParametersForm
cmbPlotType : denoptim.gui.GUIInspectFSERun
cmbScaffoldingPolicy : denoptim.gui.MolToGraphParametersDialog
cmbSMILESTo3D : denoptim.gui.GUIPreferencesDialog
cmbTemplateContract : denoptim.gui.MolToGraphParametersDialog
cmd : denoptim.gui.GUI, denoptim.main.Behavior
cmdGridConstraints : denoptim.gui.ButtonsBar
cmdListener : denoptim.ga.EvolutionaryAlgorithm
cmdStr : denoptim.task.ProcessHandler
colors : denoptim.gui.GUIInspectGARun
combinatorialAlgorithm : denoptim.programs.combinatorial.FragSpaceExplorer
comment : denoptim.graph.Candidate
COMP_MAP : denoptim.files.FileFormat, denoptim.files.FileFormat.DataKind
compatChains : denoptim.ga.GraphOperations.FragForClosabChains
compatibilityOfPairs : denoptim.graph.rings.RingSizeManager
compatMap : denoptim.gui.CompatibilityMatrixForm
compatVrtxs : denoptim.gui.GUIGraphHandler
completed : denoptim.task.Task
compMatrixFile : denoptim.fragspace.FragmentSpaceParameters
componerCounter : denoptim.gui.ButtonsBar
configFilePathName : denoptim.task.ProgramTask
connections : denoptim.utils.ConnectedLigand
CONSTRUCTION : denoptim.ga.EAUtils.CandidateSource
CONTACT : denoptim.logging.Version
contractCmb : denoptim.gui.GUIGraphHandler.ConfigTemplateDialog.TemplateConfiguration
CONTRACTKEY : denoptim.gui.GUIGraphHandler
contractLevel : denoptim.graph.Template
contractTolTip : denoptim.gui.GUIGraphHandler.ConfigTemplateDialog.TemplateConfiguration
CONTRIBUTORS : denoptim.logging.Version
CONVERTBYFRAGATTEMPTS : denoptim.logging.CounterID
coupleMutationAndCrossover : denoptim.programs.denovo.GAParameters
cpMapHandler : denoptim.gui.GUICompatibilityMatrixTab
CPMapTabUID : denoptim.gui.GUICompatibilityMatrixTab
CROSSOVER : denoptim.ga.EAUtils.CandidateSource, denoptim.programs.genetweeker.GeneOpsRunnerParameters.Operator
crossoverWeight : denoptim.programs.denovo.GAParameters
crowdingMultiplier : denoptim.programs.denovo.GAParameters
crowdingProbabilityScheme : denoptim.programs.denovo.GAParameters
crowdingSigmaMiddle : denoptim.programs.denovo.GAParameters
crowdingSigmaSteepness : denoptim.programs.denovo.GAParameters
crowdProbData : denoptim.gui.GAParametersForm
ctrlPane : denoptim.gui.GUIVertexInspector, denoptim.gui.GUIVertexSelector
ctrlPanel : denoptim.gui.GUIInspectFSERun, denoptim.gui.GUIInspectGARun
ctrlPanelLeft : denoptim.gui.GUIInspectFSERun
ctrlPanelRight : denoptim.gui.GUIInspectFSERun
ctrlPanelRow1 : denoptim.gui.GUIInspectGARun
ctrlPanelRow1Left : denoptim.gui.GUIInspectGARun
ctrlPanelRow1Right : denoptim.gui.GUIInspectGARun
ctrlPanelRow2Left : denoptim.gui.GUIInspectGARun
currApIdx : denoptim.gui.GUIVertexSelector
currGrphIdx : denoptim.gui.GUIGraphHandler
currVrtxIdx : denoptim.gui.GUIVertexInspector, denoptim.gui.GUIVertexSelector
customRulesTabModel : denoptim.gui.CuttingRulesSelectionDialog
customVarDescExpressions : denoptim.fitness.FitnessParameters
cutId : denoptim.graph.AttachmentPoint
CUTRULE : denoptim.files.FileFormat
cutRulesFile : denoptim.programs.fragmenter.FragmenterParameters
CUTRULKEYWORD : denoptim.constants.DENOPTIMConstants
cuttingRules : denoptim.programs.fragmenter.FragmenterParameters