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Identifier Index

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G

g (in MaestroArrow)	getActivityMissing() (in PhpProject)	getNJobs() (in Stage)
g (in MaestroSphere)	getAdjustedNJobs() (in Stage)	getNode() (in DendrogramGraphicNode)
gamma_Bfactor_data_set (in Report)	getAlignedMobileStructures() (in BindingSiteAligner)	getNode() (in DendrogramGraphicTree)
GAMMA_KEY (in Crystal)	getAlignmentVector() (in Nanoparticle)	getNodeIndex() (in CommonTreeNodeStream)
GAMMA_PARAM (in ParserWrapper)	getAllAngles() (in OptimizationTab)	getNodeNumber() (in DOTTreeGenerator)
gamma_polar() (in schrodinger.application.jaguar.output)	getAllArrayCoordinates() (in _VDCoordinateFrame)	getNodeST() (in DOTTreeGenerator)
gamma_polar_precision (in JaguarResults)	getAllArrayCoordinates() (in VolumeData)	getNonBondedEnergies() (in Minimizer)
gap_penalty (in StructAlign)	getAllAtomicBases() (in JaguarInput)	getNonDefault() (in JaguarInput)
GAS_PHASE_ENERGY_PROP (in schrodinger.application.matsci.jaguarworkflows)	getAllAtomPairs() (in OptimizationTab)	getNormal() (in CrystalPlane)
gasPhaseReferenceChanged() (in SolvationTab)	getAllAuxListbox() (in PropertySelector)	getNormalOrdering() (in ReactionCoords)
GATES (in schrodinger.utils.ligfilter)	getAllBonds() (in HydrogenBondFinder)	getNormalsAndRadius() (in SpearRing)
GAUSSIAN (in schrodinger.application.matsci.spectra)	getAllBonds() (in HydrophobicContactFinder)	getNormed() (in Vector)
gaussian_filter (in schrodinger.application.desmond)	getAllBonds() (in ProtLigInteractionFinder)	getNumAtoms() (in Structure)
GaussianFilter (in schrodinger.application.desmond.gaussian_filter)	getAllBonds() (in SaltBridgeFinder)	getNumber() (in replica_energy)
gchart (in schrodinger.application.desmond)	getAllChannels() (in ChannelDefinitions)	getNumber() (in sketcherResidue)
gconfig (in schrodinger.application.desmond)	getAllExcludes() (in PhpFeatureDefinition)	getNumberOfClustersList() (in CanvasFingerprintCluster)
gen() (in QSiteInput)	getAllIncludes() (in PhpFeatureDefinition)	getNumberOfColorSchemes() (in ColorSchemeManager)
gen_alpha_helix_restraint() (in schrodinger.application.desmond.cms)	getAllowedRange() (in GlideJob)	getNumberOfSubColorSchemes() (in ColorSchemeManager)
gen_charges() (in schrodinger.application.jaguar.output)	getAllowedRows() (in PropertiesTab)	getNumberOfSyntaxErrors() (in BaseRecognizer)
gen_dE_files() (in schrodinger.application.desmond.deltaE)	getAllowedRows() (in PropertiesTabBase)	getNumBondOrders() (in AssignBondOrders)
gen_key() (in schrodinger.application.desmond.mdkey)	getAllowedRows() (in PropertiesTabIGO)	getNumColors() (in MM_ColorRamp)
gen_mcpro_command() (in ModelSystem)	getAllPreferences() (in Preferences)	getNumColors() (in MM_ColorRampHolder)
gen_model_sys() (in McproSystemBuilder)	getAllProperties() (in BaseBlockProperty)	getNumExcludes() (in PhpFeatureDefinition)
gen_protein_rmsf_image() (in FEPEdgeReportMaker)	getAllSpaceGroups() (in SpaceGroups)	getNumIncludes() (in PhpFeatureDefinition)
gen_random_color() (in schrodinger.application.combiglide.connection_storage)	getAllTorsions() (in OptimizationTab)	getNumLigandHeavyAtoms() (in DrawSolventPanel)
gen_range_specification() (in schrodinger.application.canvas.driverutils)	getAllWorldCoordinates() (in _VDCoordinateFrame)	getNumMarkers() (in ItemRowWithTemplates)
gen_reordered_ct() (in schrodinger.application.mcpro.perturbations)	getAllWorldCoordinates() (in VolumeData)	getNumNeighbors() (in AssignBondOrders)
gen_replica() (in schrodinger.application.desmond.config)	getAlpha() (in CanvasFingerprintSimilarity)	getNumPlanes() (in CrystalPlane)
gen_replica() (in schrodinger.application.desmond.gconfig)	getAncestor() (in BaseTree)	getNumRamps() (in MM_ColorRampHolder)
gen_restraint() (in SystemBuilder)	getAncestor() (in Tree)	getNumStructures() (in BaseJaguarPanel)
gen_temperature_for_solute_tempering() (in schrodinger.application.desmond.config)	getAncestors() (in BaseTree)	getNumStructures() (in InputTabJobMixin)
gen_temperature_for_solute_tempering() (in schrodinger.application.desmond.gconfig)	getAncestors() (in Tree)	getNumStructures() (in InputTabBase)
gen_test() (in schrodinger.application.desmond.simulation_block_test)	getAnchorAtoms() (in AtomMappingData)	getNumStructures() (in MultiFileWriter)
genAllJobs() (in BaseJob)	getAngle() (in PBC)	getNumUnitCells() (in MultiWalledNanoTube)
genAllPrereqs() (in BaseJob)	getAnion() (in SaltBridge)	getNumUsedCoordSites() (in ComplexBuilder)
gencodes (in schrodinger.application.vsw.stages)	getApplicationHeaderFields() (in Job)	getOblig() (in JoiningRules)
gencodes (in schrodinger.pipeline.stages)	getApplicationHeaderString() (in Job)	getOffIterator() (in Bitset)
GENER_LOG_FILE_SEP (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)	getApplyGUI() (in CanvasFingerprintClusterGUI)	getOffsetPBCBonds() (in PBCBonds)
GENER_SUBDIR (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)	getArray() (in Mode)	getOffsets() (in FrameAslSelection)
general (in schrodinger.test.performance)	getArray() (in Vector)	getOffsets() (in FrameIndexSelection)
GENERAL_INFO_FILE (in schrodinger.application.licensing.licadmin)	getArray() (in VectorBase)	getOffsets() (in FrameSliceSelection)
GENERAL_INFO_TEMPLATE (in schrodinger.application.licensing.licadmin)	getArray() (in ModeSet)	getOkmPattern() (in JoiningRules)
GENERAL_LOGLEVEL (in schrodinger.application.desmond.cmj)	getArray() (in NMA)	getOkmRule() (in JoiningRules)
GENERAL_PREF_GROUP (in schrodinger.application.bioluminate.antibody.utils)	getArrayNx3() (in VectorBase)	getOkPattern() (in JoiningRules)
GENERAL_SPECS (in schrodinger.application.macromodel.input)	getArraySelection() (in FrameSliceSelection)	getOkRule() (in JoiningRules)
GENERAL_VEC_1 (in Crystal)	getAsl() (in AslLigandSearcher)	getOpcdArgs() (in ComUtil)
GENERAL_VEC_2 (in Crystal)	getASL() (in MM_CSchemeRule)	getOpcdArgs() (in SbcUtil)
GENERAL_VEC_3 (in Crystal)	getASLExcludingLigand() (in schrodinger.trajectory.automatic_analysis_generator)	getOpenFileName() (in SequenceFileDialog)
GeneralContextSubMenu (in schrodinger.application.bioluminate.pml_menus)	getASLName() (in ItemRowWithTemplates)	getOptimizationCmd() (in InputTabHB)
generate() (in Mutator)	getAssociationChannels() (in ChannelDefinitions)	getOptionDesc() (in CanvasFingerprintGeneratorCLI)
generate() (in CanvasFingerprintGenerator)	getAsymmetricUnit() (in HoneycombUnitCell)	getOptions() (in Minimizer)
generate() (in schrodinger.application.desmond.starter.generator.fep_plus)	getAtArrayCoordinate() (in VolumeData)	getOptions() (in TestUtility)
generate_aligned_2d_ligand_pair() (in schrodinger.application.desmond.report_helper)	getAtArrayCoordinateL() (in VolumeData)	getOrAddColumn() (in Table)
generate_asl() (in schrodinger.structutils.analyze)	getAtom() (in Structure)	getOrbitalsKeywords() (in ScfTab)
generate_complex_msj() (in MapperMsjGenerator)	getAtom() (in sketcher)	getOrderedIntersections() (in CrystalPlane)
generate_core_pic() (in schrodinger.application.desmond.fep_scholar_util)	getAtom() (in sketcherLID)	getOrderedPartitioningNames() (in Hierarchy)
generate_criterion() (in schrodinger.utils.ligfilter)	getAtom() (in sketcherMolecule)	getOrigAtomIndex() (in FEPIOProperty)
generate_crystal_mates() (in schrodinger.structutils.analyze)	getAtom1() (in AtomPairWithValue)	getOrigin() (in Interface)
generate_curve() (in schrodinger.application.matsci.spectra)	getAtom2() (in AtomPairWithValue)	getOriginalName() (in MM_CScheme)
generate_default_pic() (in schrodinger.application.desmond.fep_scholar_util)	getAtomBondTypingSchemeDescription() (in CanvasFingerprintGeneratorCLI)	getOtherBlockNames() (in _FEPIO)
generate_description() (in schrodinger.application.jaguar.gui.basis_selector)	getAtomColorList() (in ConnectionStorage)	getOtherBlockNames() (in _FFIO)
generate_dummy_atoms() (in Membrane_Model)	getAtomCount() (in JaguarInput)	getOuterChiralIndicies() (in MultiWalledNanoTube)
generate_eval_string() (in schrodinger.infra.propedit)	getAtomEntry() (in NewEntryGroup)	getOuterTubeVectors() (in MultiWalledNanoTube)
generate_eval_string_all() (in schrodinger.infra.propedit)	getAtomGroups() (in AtomGroupFrame)	getOutput() (in Step)
generate_from_ligand() (in schrodinger.application.phase.hypothesis)	getAtomicBasis() (in JaguarInput)	getOutput() (in Stage)
generate_groups() (in schrodinger.infra.propedit)	getAtomicNonPolarSASAGenerator() (in PropertyCalculator)	getOutputData() (in MDPoseStrainJob)
generate_hot_atoms_pic() (in schrodinger.application.desmond.fep_scholar_util)	getAtomicNumber() (in StructureAtom)	getOutputFiles() (in Job)
generate_job_name() (in schrodinger.application.jaguar.gui.utils)	getAtomicNumber() (in sketcherAtom)	getOutputName() (in Stage)
GENERATE_KEY_BITS (in schrodinger.utils.sshconfig)	getAtomicPolarSASAGenerator() (in PropertyCalculator)	getOutputNames() (in Stage)
generate_ligand_2d_image() (in schrodinger.application.desmond.report_helper)	getAtomIndices() (in RMSF)	getOutputStructure() (in MDPoseGlideJob)
generate_ligand_2d_placeholder() (in schrodinger.application.desmond.report_helper)	getAtomIndices() (in FrameAslSelection)	getOverlap() (in replica_container)
generate_mapping_pic() (in schrodinger.application.desmond.fep_scholar_util)	getAtomIndices() (in FrameIndexSelection)	getOverlapEnergyPlot() (in FEPReportMaker)
generate_master_msj() (in FEPScholarMsjGenerator)	getAtomIndices() (in FrameSliceSelection)	getOverlapTable() (in schrodinger.trajectory.prody.compare)
generate_master_msj() (in MapperMsjGenerator)	getAtomList() (in ConnectionStorage)	getPairFromRow() (in ConnectionStorage)
generate_meta_cfg() (in schrodinger.application.desmond.meta)	getAtomList() (in _AtomCollection)	getParallelepipedLineSegments() (in CrystalPlane)
generate_molecular_formula() (in schrodinger.structutils.analyze)	getAtomMatchRules() (in ApplyJoiningRules)	getParallelepipedVertices() (in Parallelepiped)
generate_mutation_pic() (in schrodinger.application.desmond.fep_scholar_util)	getAtomName() (in ZAtom)	getParams() (in JobInputFrame)
generate_protein_structure() (in schrodinger.application.desmond.mdpose.mdpose_average_structure)	getAtomNums() (in SubTabRow)	getParams() (in MultiInputFrame)
generate_reordered_ct() (in Perturbations)	getAtomOblig() (in ApplyJoiningRules)	getParent() (in DebugTreeAdaptor)
generate_return_code_dict() (in schrodinger.infra.mmcheck)	getAtomOkmPatterns() (in ApplyJoiningRules)	getParent() (in BaseTree)
generate_scripts() (in schrodinger.application.desmond.fep_scholar_util)	getAtomOkmRules() (in ApplyJoiningRules)	getParent() (in CommonTree)
generate_scripts() (in schrodinger.application.desmond.feputils)	getAtomOkPatterns() (in ApplyJoiningRules)	getParent() (in CommonTreeAdaptor)
generate_smarts() (in schrodinger.structutils.analyze)	getAtomOkRules() (in ApplyJoiningRules)	getParent() (in Tree)
generate_smarts_canvas() (in schrodinger.structutils.analyze)	getAtoms() (in SubTabRow)	getParent() (in TreeAdaptor)
generate_smiles() (in schrodinger.structutils.analyze)	getAtoms() (in MmpdbxReader)	getParser() (in TestUtility)
generate_solvent_msj() (in MapperMsjGenerator)	getAtoms() (in StructureRing)	getParticipants() (in ReactionMoleculesTab)
generate_special_states() (in schrodinger.application.prepwizard)	getAtomsAndWeight() (in ItemRowWithTemplates)	getPartitioningNamesAtLevels() (in CoreClassifier)
generate_subjob_msj() (in FEPScholarMsjGenerator)	getAtomsInResidue() (in ResidueTools)	getPath() (in Grid)
generate_subjob_msj() (in CovalentMsjGenerator)	getAtomsRings() (in AssignBondOrders)	getPath() (in PhaseDB)
generate_subjob_msj() (in MapperMsjGenerator)	getAtomsToTerminate() (in Grow)	getPatternsAll() (in JoiningRules)
generate_subjob_msj() (in ProteinMapperMsjGenerator)	getAtomText() (in ComparisonListWidget)	getPatternsOblig() (in JoiningRules)
generate_tautomer_code() (in schrodinger.structutils.analyze)	getAtomText() (in ReferenceListWidget)	getPatternsOk() (in JoiningRules)
generate_water_structure() (in schrodinger.application.desmond.mdpose.mdpose_average_structure)	getAtomTotal() (in JaguarResults)	getPatternsOkm() (in JoiningRules)
generateCfg() (in Meta)	getAttachmentPoints() (in AtomMappingData)	getPatternString() (in FragmentCreator)
generateCsvFile() (in DockingStage)	getAtWorldCoordinate() (in VolumeData)	getPBCMinMaxes() (in Scaffold)
generateDM() (in CanvasFingerprintCluster)	getAtWorldCoordinateL() (in VolumeData)	getPBCSide() (in AmorphousCellBuilder)
generateFinalMolecules() (in _StructureFragmenter)	getAverageDistanceFromCentroid() (in CanvasFingerprintCluster)	getpdb (in schrodinger.protein)
generateFingerprint() (in StructuralInteractionFingerprintGenerator)	getAxisExtreme() (in SlidableHLine)	getpdb_utility (in schrodinger.protein)
generateHtml() (in Report2D)	getAxisExtreme() (in SlidableVLine)	getPercentScreenCurvePoints() (in Calculator)
GenerateInterfaceSelection (in schrodinger.application.bioluminate.pml_menus)	getBacktrackingLevel() (in BaseRecognizer)	getPharmSet() (in PhpProject)
generateJaguarStatus() (in BaseJaguarPanel)	getBaroMethod() (in EnsembleTab)	getPkaAtom() (in ProjEntryPka)
generateJaguarStatus() (in StandardStatusMixin)	getBasis() (in _BasisSelectorPopUp)	getPlaneBoxIntersections() (in CrystalPlane)
generateJaguarStatus() (in TaskStatusMixin)	getBasis() (in ProvidesBasisMixin)	getPLDBToolBar() (in sketcher)
GenerateLigandSelection (in schrodinger.application.bioluminate.pml_menus)	getBasis() (in InputTab)	getPLISKWList() (in schrodinger.trajectory.automatic_analysis_generator)
generateMurckoScaffold() (in _StructureFragmenter)	getBasis() (in MoleculeTab)	getPlotFigure() (in Plotter)
generatePdf() (in Report2D)	getBasis() (in MultiStructureTab)	getPocketColor() (in sketcherAtom)
generatePicture() (in createFragmentDelegate)	getBasisForEid() (in InputEntriesModel)	getPocketDistance() (in sketcherAtom)
generatePicture() (in simpleEnumDockDelegate)	getBasisForEid() (in InputTab)	getPointInBox() (in Box)
generatePictureHighlight() (in ScholarStructureItem)	getBending() (in Minimizer)	getPointInBox() (in Scaffold)
GeneratePropsStage (in schrodinger.pipeline.stages.filtering)	getBendingEnergy() (in Minimizer)	getPosition() (in SlidableHLine)
GenerateSelection (in schrodinger.application.bioluminate.pml_menus)	getBestDoubleBond() (in AssignBondOrders)	getPosition() (in SlidableVLine)
generateSeqProjectRows() (in SimplifiedSequenceViewer)	getBestMatch() (in DEE_Backtracking)	getPotentialDoubleBondAtoms() (in AssignBondOrders)
generateSeqStructures() (in SimplifiedSequenceViewer)	getBestMatch() (in SimulatedAnnealing)	getPotentialEnergyGenerator() (in PropertyCalculator)
generateStateCT() (in Ionizer)	getBestNumberOfClusters() (in CanvasFingerprintCluster)	getPrecision() (in CanvasFingerprintGenerator)
generateStatus() (in BaseJaguarPanel)	getBeta() (in CanvasFingerprintSimilarity)	getPrereqs() (in BaseJob)
generateStatus() (in JobApp)	getBindingModes() (in PhpProject)	getPressureTensorTimeSeries() (in MSEnergyGroupAnalysis)
GenerateSubMenu (in schrodinger.application.bioluminate.pml_menus)	getBlock() (in XpDesReader)	getPrimeEnergyByResidues() (in PropertyCalculator)
GenerateSurfResSelection (in schrodinger.application.bioluminate.pml_menus)	getBond() (in Structure)	getProgram() (in TokenRewriteStream)
generateSymmetryEquiv() (in SymmetryEquiv)	getBondColorList() (in ConnectionStorage)	getProgramName() (in App)
GenerateSymmetryMates (in schrodinger.application.bioluminate.pml_menus)	getBondedEnergies() (in Minimizer)	getProgressAsPercentage() (in Job)
generateTestFile() (in sketcherChemicalKnowledge)	getBondedEnergyComponents() (in Minimizer)	getProgressAsSteps() (in Job)
generateXls() (in Report2D)	getBondedInteractionEnergy() (in Minimizer)	getProgressAsString() (in Job)
GENERATION_KEY (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)	getBondingInfo() (in Grow)	getProjectedOnly() (in PhpSite)
GENERATIONS (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)	getBondList() (in ConnectionStorage)	getProjectedType() (in PhpFeatureDefinition)
generator (in schrodinger.application.desmond.starter)	getBondListWithIgnored() (in ConnectionStorage)	getProjectPath() (in PhpProject)
GENERIC_ACTIONS (in schrodinger.application.licensing.licadmin)	getBonds() (in MmpdbxReader)	getProperty() (in LabelAtomByEntryIndex)
GENERIC_FRAGMENT_TITLE (in schrodinger.application.combiglide.combenumdock)	getBondXYIntersection() (in SpearRing)	getProperty() (in LabelAtomByMolIndex)
genetic_optimization (in schrodinger.application.matsci)	getBool() (in sketcherStyle)	getProperty() (in LabelAtomByNumType)
genetic_optimization (in schrodinger.application.matsci.genetic_optimization)	getBoolProperty() (in sketcherGraphicalObject)	getProperty() (in LabelAtomByOccupancy)
GeneticOptimization (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)	getBoxAngles() (in PBC)	getProperty() (in LabelAtomByProp)
genFileName() (in Stage)	getBoxLengths() (in PBC)	getProperty() (in LabelAtomByVDW)
genFixedRestrainedProtein() (in liaison)	getBoxVectors() (in DesmondBoxSize)	getPropertyBool() (in StructureAtom)
GenOptions (in schrodinger.application.jaguar.input)	getBoxVectors() (in PBC)	getPropertyInt() (in StructureAtom)
genOutputFileName() (in Stage)	getBranchColor() (in DendrogramGraphicNode)	getPropertyMinMax() (in PropFilterDialog)
GenSelectionSubMenu (in schrodinger.application.bioluminate.pml_menus)	getBridgeAtoms() (in AtomMappingData)	getPropertyName() (in BaseBlockProperty)
gensym() (in Env)	getBuildingBlocks() (in AmorphousCellBuilder)	getPropertyNames() (in Structure)
GenSymMatesSubMenu (in schrodinger.application.bioluminate.pml_menus)	getCalculationGUI() (in CanvasFingerprintSimilarityGUI)	getPropertyNames() (in StructureAtom)
geom() (in ComUtil)	getCartesianCoords() (in ReactionCoords)	getPropertyNames() (in Project)
GEOM_AND_SETTINGS (in ReadFileDialog)	getCategory() (in HomologyRama)	getPropertyPrecision() (in Project)
GEOM_ONLY (in ReadFileDialog)	getCation() (in PiCationInteraction)	getPropertyReal() (in StructureAtom)
geometry_read() (in schrodinger.application.jaguar.output)	getCation() (in SaltBridge)	getPropertyString() (in StructureAtom)
geometry_scan_step() (in schrodinger.application.jaguar.output)	getCell() (in _Column)	getProteinChargedAtoms() (in ProtLigInteractionFinder)
geopt_geometry() (in schrodinger.application.jaguar.output)	getCell() (in _Row)	getProtFilename() (in RelaxFrame)
geopt_stuck() (in schrodinger.application.jaguar.output)	getCellDiff() (in _DesmondFrame)	getProtLigInterKW() (in schrodinger.trajectory.automatic_analysis_generator)
get() (in BitArray)	getCenterOrientationOfAtoms() (in Membrane_Model)	getProtocol() (in _DesmondProt)
get() (in DebugTokenStream)	getCenterX() (in StructureRing)	getProtocol() (in _McproProt)
get() (in CommonTokenStream)	getCenterY() (in StructureRing)	getProtocol() (in _ProtItem)
get() (in TokenStream)	getCenterZ() (in StructureRing)	getPTGroupnameCollection() (in SimpleEnumDockPanel)
get() (in CommonTreeNodeStream)	getCentroid() (in Box)	getPTGroupnamePalette() (in SimpleEnumDockPanel)
get() (in TreeNodeStream)	getChain() (in Mmpdbx)	getQImage() (in sketcher)
get() (in JobOutput)	getChain() (in _StructureAtom)	getQImage() (in sketcherScene)
get() (in PairDict)	getChain() (in sketcherResidue)	getQPicture() (in sketcher)
get() (in schrodinger.application.desmond.envir)	getChainAtoms() (in Structure)	getQPicture() (in sketcherScene)
get() (in schrodinger.application.desmond.icon)	getChainResidues() (in Mmpdbx)	getQsarAlignments() (in PhpProject)
get() (in GlideJob)	getChannel() (in ClassicToken)	getQsarCount() (in PhpProject)
get() (in Bitset)	getChannel() (in CommonToken)	getQsarHypoIDs() (in PhpProject)
get() (in HuntCache)	getChannel() (in Token)	getQsarIDs() (in PhpProject)
get() (in Job)	getCharErrorDisplay() (in Lexer)	getQsarModel() (in PhpProject)
get() (in _BaseClient)	getCharge() (in ProjEntry)	getQsarModelClassDescription() (in PhpProject)
get() (in MultiListbox)	getCharge() (in sketcherAtom)	getQsarModelClasses() (in PhpProject)
get() (in Preferences)	getCharIndex() (in Lexer)	getQsarModelClassFraction() (in PhpProject)
get14EleEnergy() (in Minimizer)	getCharPositionInLine() (in Lexer)	getQsarModelCoeff() (in PhpProject)
get14LJEnergy() (in Minimizer)	getCharPositionInLine() (in ANTLRStringStream)	getQsarModelCoeffRange() (in PhpProject)
get3Dx() (in sketcherAtom)	getCharPositionInLine() (in CharStream)	getQsarModelFactorCount() (in PhpProject)
get3Dy() (in sketcherAtom)	getCharPositionInLine() (in ClassicToken)	getQsarModelGridLimits() (in PhpProject)
get3Dz() (in sketcherAtom)	getCharPositionInLine() (in CommonToken)	getQsarModelGridSpacing() (in PhpProject)
get_2d_ligand_image() (in FEPEdgeReportMaker)	getCharPositionInLine() (in Token)	getQsarModelRegF() (in PhpProject)
get_2var_plot() (in schrodinger.application.desmond.mplchart)	getCharPositionInLine() (in BaseTree)	getQsarModelRegP() (in PhpProject)
get_abfep_cross_link() (in schrodinger.application.desmond.fepana)	getCharPositionInLine() (in CommonTree)	getQsarModelRegRsqr() (in PhpProject)
get_action_obj_name() (in schrodinger.application.bioluminate.actions.factory)	getCharPositionInLine() (in Tree)	getQsarModelRegRsqrCv() (in PhpProject)
get_active_databases() (in schrodinger.application.bioluminate.antibody.utils)	getChild() (in DebugTreeAdaptor)	getQsarModelRegRsqrScramble() (in PhpProject)
get_active_site_asl() (in schrodinger.application.desmond.mdpose.mdpose_analysis)	getChild() (in BaseTree)	getQsarModelRegSD() (in PhpProject)
get_alignment_matrix() (in schrodinger.structutils.transform)	getChild() (in BaseTreeAdaptor)	getQsarModelRegStability() (in PhpProject)
get_all_databases() (in schrodinger.application.bioluminate.antibody.utils)	getChild() (in CommonTreeAdaptor)	getQsarModelStyle() (in PhpProject)
get_allocator (in SwigDoubleVector)	getChild() (in Tree)	getQsarModelVolBitCount() (in PhpProject)
get_allocator (in SwigDoubleVector3)	getChild() (in TreeAdaptor)	getQsarModelVolClasses() (in PhpProject)
get_allocator (in SwigIntVector)	getChildCount() (in DebugTreeAdaptor)	getQsarModelVolCoords() (in PhpProject)
get_allocator (in SwigStringVector)	getChildCount() (in BaseTree)	getQsarModelVolOnBits() (in PhpProject)
get_allocator (in SwigUInt64Vector)	getChildCount() (in BaseTreeAdaptor)	getQsarProps() (in PhpProject)
get_allocator (in SwigUnsignedIntVector)	getChildCount() (in CommonTreeAdaptor)	getQsarSet() (in PhpProject)
get_allocator (in SwigUnsignedIntVector2)	getChildCount() (in Tree)	getQsarStats() (in PhpProject)
get_allocator (in SwigVectorIntIntPair)	getChildCount() (in TreeAdaptor)	getRampNames() (in MM_ColorRampHolder)
get_allocator (in SwigDoubleVector)	getChildIndex() (in DebugTreeAdaptor)	getRandomItems() (in Partition)
get_allocator (in SwigDoubleVector3)	getChildIndex() (in BaseTree)	getRange() (in MM_Colormap)
get_allocator (in SwigIntVector)	getChildIndex() (in CommonTree)	getReactionInternals() (in ReactionCoords)
get_allocator (in SwigStringVector)	getChildIndex() (in CommonTreeAdaptor)	getReactiveAtoms() (in ReactionPath)
get_allocator (in SwigUInt64Vector)	getChildIndex() (in Tree)	getReadErrors() (in FormatReader)
get_allocator (in SwigUnsignedIntVector)	getChildIndex() (in TreeAdaptor)	getReadErrors() (in StructureReader)
get_allocator (in SwigUnsignedIntVector2)	getChildren() (in BaseTree)	getRecentTemplatePath() (in SketcherBox)
get_allocator (in SwigVectorIntIntPair)	getChildren() (in DendrogramGraphicNode)	getRecentTemplatesList() (in SketcherBox)
get_allocator() (in SwigDoubleVector)	getChiralAngle() (in NanoTube)	getReceptorID() (in StructuralInteractionFingerprintGenerator)
get_allocator() (in SwigDoubleVector3)	getChoiceSpectrum() (in SimulatedAnnealing)	getReciprocals() (in CrystalPlane)
get_allocator() (in SwigIntVector)	getCircumRadius() (in Cube)	getRedundantAtoms() (in Grow)
get_allocator() (in SwigStringVector)	getCircumRadius() (in Cubeoctahedron)	getReferenceEdges() (in Face)
get_allocator() (in SwigUInt64Vector)	getCircumRadius() (in Dodecahedron)	getReferenceEntryId() (in ConsensusToolBar)
get_allocator() (in SwigUnsignedIntVector)	getCircumRadius() (in Icosahedron)	getReferenceFaces() (in ConvexPolyhedron)
get_allocator() (in SwigUnsignedIntVector2)	getCircumRadius() (in Octahedron)	getReferenceStructure() (in SimplifiedSequenceViewer)
get_allocator() (in SwigVectorIntIntPair)	getCircumRadius() (in Tetrahedron)	getRemark3() (in MmpdbxReader)
get_allocator() (in DoubleDoubleList)	getClashes() (in BuilderWithClashDetection)	getRemarks() (in MmpdbxReader)
get_allocator() (in DoubleList)	getCleanupRequested() (in Stage)	getReorderedStructure() (in ReorderAtomFrame)
get_allocator() (in StringList)	getClosest() (in Consensus)	getRep() (in CoreClassifier)
get_allocator() (in SwigAtomList)	getClosestDistance() (in HydrophobicContactFinder)	getReplica() (in replica_container)
get_allocator() (in SwigAtomPairList)	getClosestHydrophobicDist() (in ProtLigInteractionFinder)	getRepresentativeStructure() (in MultiStructureTab)
get_allocator() (in SwigAtomPairWithValueList)	getClusterContents() (in CanvasFingerprintCluster)	getReps() (in CoreClassifier)
get_allocator() (in SwigAtomQueryParamsList)	getClusterGUI() (in CanvasFingerprintClusterGUI)	getRequirements() (in LocalhostJob)
get_allocator() (in SwigDcNonPbcAtomIdxList)	getClusteringMap() (in CanvasFingerprintCluster)	getRequirements() (in RequirementsJob)
get_allocator() (in SwigDcPbcAtomList)	getClusterOrderMap() (in CanvasFingerprintCluster)	getResCa() (in ProtLigInteractionFinder)
get_allocator() (in SwigPiCationList)	getClusterTime() (in CanvasFingerprintCluster)	getResid() (in ResidueTools)
get_allocator() (in SwigPiPiInteractionList)	getClusterVariance() (in CanvasFingerprintCluster)	getResidue() (in _StructureAtom)
get_allocator() (in SwigRingList)	getCmdListArgValue() (in JobApp)	getResidueAtomicNonPolarSASA() (in PropertyCalculator)
get_allocator() (in SwigSaltBridgeList)	getCode() (in _Residue)	getResidueAtomicPolarSASA() (in PropertyCalculator)
get_allocator() (in SwigDoubleVector)	getCollectionFilename() (in SimpleEnumDockPanel)	getResidueAtoms() (in Structure)
get_allocator() (in SwigDoubleVector3)	getColor() (in sketcherAtom)	getResidueCheckbox() (in MutationSelectorFrame)
get_allocator() (in SwigIntVector)	getColor() (in sketcherStyle)	getResidueGroups() (in MutationSelectorFrame)
get_allocator() (in SwigStringVector)	getColor() (in MM_CSchemeRule)	getResidueHydropathy() (in PropertyCalculator)
get_allocator() (in SwigUInt64Vector)	getColorIndices() (in MM_ColorRamp)	getResidueID() (in StructuralInteractionFingerprintGenerator)
get_allocator() (in SwigUnsignedIntVector)	getColorIndices() (in MM_ColorRampHolder)	getResidueInteractionEnergy() (in PropertyCalculator)
get_allocator() (in SwigUnsignedIntVector2)	getColorName() (in MM_CSchemeRule)	getResidueInternalEnergy() (in PropertyCalculator)
get_allocator() (in SwigVectorIntIntPair)	getColorProperty() (in sketcherGraphicalObject)	getResidueLabels() (in SolventAccessibleSurfaceAreaByResidue)
get_anchor_atoms() (in schrodinger.application.desmond.r_group_asl)	getColorRGB() (in _StructureAtom)	getResidueList() (in ResidueTools)
get_angle_between_vectors() (in schrodinger.structutils.transform)	getColorRGBString() (in _StructureAtom)	getResiduepKa() (in PropertyCalculator)
get_angles() (in Torsion)	getColorSchemeName() (in ColorSchemeManager)	getResiduePotentialEnergy() (in PropertyCalculator)
get_antibody_scheme() (in schrodinger.application.bioluminate.antibody.utils)	getColumnIndex() (in Table)	getResidueRotatableBonds() (in PropertyCalculator)
get_api_key() (in schrodinger.test.stu.common)	getColumnNames() (in Table)	getResidueSASA() (in PropertyCalculator)
get_appdata_dir() (in schrodinger.utils.fileutils)	getColumnTotal() (in Table)	getResiduesInRadius() (in ResidueTools)
get_appdata_release_dir() (in _mmutil')	getCombinations() (in _StructureFragmenter)	getResidueSurfComp() (in PropertyCalculator)
get_approximate_atomic_sasa() (in schrodinger.structutils.analyze)	getCommand() (in JobControlJob)	getResidueType() (in StructuralInteractionFingerprintGenerator)
get_approximate_sasa() (in schrodinger.structutils.analyze)	getCommandArgs() (in Launcher)	getResName() (in ResidueTools)
get_ark_results() (in FEPReport)	getCommandDir() (in BaseJob)	getResourceHolder() (in _JobManager)
get_asl() (in _AtomGroup)	getCommonBasis() (in InputEntriesModel)	getResourceURI() (in _BaseClient)
get_asl() (in schrodinger.application.desmond.mdkey)	getCommonBasis() (in InputTab)	getRESTDensityPlot() (in FEPReportMaker)
get_asl_chain_name() (in schrodinger.application.bioluminate.pml_menus)	getCommonBasis() (in InputTabWithSubTabs)	getRestrGroup() (in RestraintsTab)
get_atom() (in Workspace)	getCompleteBondList() (in ConnectionStorage)	getResults() (in HydrogenBondFinder)
get_atom_chirality() (in schrodinger.application.canvas.r_group)	getConfigDialog() (in GuiApp)	getResults() (in AnalysisTool)
get_atom_group() (in Cms)	getConfigDialog() (in BaseJaguarPanel)	getResults() (in HydrophobicContactFinder)
get_atom_grp() (in _AtomGroup)	getConfigDialog() (in JobApp)	getResults() (in ProtLigInteractionFinder)
get_atom_grp() (in schrodinger.application.desmond.mdkey)	getConformer() (in PhpProject)	getResults() (in SaltBridgeFinder)
get_atom_indices() (in local_residue)	getConformerCount() (in PhpProject)	getResultsForLastNPercent() (in MSEnergyGroupAnalysis)
get_atom_info() (in schrodinger.application.jaguar.gui.utils)	getConformers() (in PhpProject)	getResultsGUI() (in CanvasFingerprintClusterGUI)
get_atom_key() (in FEPScholarMapper)	getConnectionColor() (in ConnectionStorage)	getResultWithThisEnergy() (in Results)
get_atom_mapping() (in schrodinger.application.desmond.fep_mapping)	getConnectionFile() (in ConnectionStorage)	getRGB() (in ColorRamp)
get_atom_mapping_data() (in schrodinger.application.desmond.fep_mapping)	getConnectionMaxLink() (in ConnectionStorage)	getRGBA() (in MM_Color)
get_atom_marking() (in schrodinger.application.desmond.fep_mapping)	getConnectionMinLink() (in ConnectionStorage)	getRGBA() (in MM_Colormap)
get_atom_property() (in schrodinger.application.desmond.fepdiff)	getConnectionName() (in ConnectionStorage)	getRHistogram() (in replica_energy)
get_atomic_element_symbols() (in schrodinger.application.matsci.nano.util)	getConnectionSize() (in ConnectionStorage)	getRing() (in PiCationInteraction)
get_atoms_from_asl() (in schrodinger.structutils.analyze)	getConstraint() (in JaguarInput)	getRing1() (in PiPiInteraction)
get_atoms_from_uid() (in schrodinger.application.desmond.maestro)	getConvergenceCriteriaKeywords() (in ScfTab)	getRing2() (in PiPiInteraction)
get_attach() (in TempAtom)	getConvergenceKeywords() (in OptimizationTab)	getRMax() (in replica_energy)
get_attachment_bonds() (in schrodinger.application.desmond.r_group_asl)	getConvergenceMethodsKeywords() (in ScfTab)	getRMean() (in replica_energy)
get_attachment_pair_list() (in MakeRLinkerUtils)	getCoordName() (in ZAtom)	getRMin() (in replica_energy)
get_attachment_points() (in Data)	getCoords() (in CellMatchAtom)	getRMSD() (in schrodinger.test.stu.outcomes.jaguar)
get_attribute_alias() (in schrodinger.application.jaguar.output)	getCoords() (in Ensemble)	getRMSD() (in schrodinger.trajectory.prody.ensemble)
get_authorization() (in schrodinger.utils.urllib)	getCore() (in SimpleEnumDockPanel)	getRmsdDataname() (in ConformerRmsd)
get_average_box_volume() (in schrodinger.application.desmond.fepana)	getCoreAtoms() (in AtomMappingData)	getRmsdDataname() (in ConformerRmsdX)
get_average_dispersion_coefficient_from_log() (in schrodinger.application.desmond.fepana)	getCoreCBChanged() (in SimpleEnumDockPanel)	getRMSDKeywords() (in schrodinger.trajectory.automatic_analysis_generator)
get_backbone_indices() (in local_residue)	getCoreRmsd() (in FEPScholarMapper)	getRMSDLigandKW() (in schrodinger.trajectory.automatic_analysis_generator)
get_backend() (in schrodinger.application.desmond.meta)	getCount() (in PipeIO)	getRMSFLigandKW() (in schrodinger.trajectory.automatic_analysis_generator)
get_backend() (in schrodinger.job.jobcontrol)	getCount() (in Structures)	getRMSFProtKeywords() (in schrodinger.trajectory.automatic_analysis_generator)
get_backend_host_list() (in schrodinger.job.jobcontrol)	getCovariance() (in NMA)	getROCAreaRomberg() (in Calculator)
get_base_names() (in schrodinger.application.matsci.nano.surfaces_interfaces_mod)	getCpus() (in StartDialog1)	getROCCurvePoints() (in Calculator)
get_basename() (in ModelSystem)	getCpus() (in StartDialog2)	getRotatableBondsGenerator() (in PropertyCalculator)
get_basename() (in schrodinger.utils.fileutils)	getCpus() (in _SdJobFrame)	getRotationMatrix() (in SpearRing)
get_bases() (in schrodinger.application.jaguar.basis)	getCpus() (in _SdSubjobFrame)	getRotationToZ() (in CrystalPlane)
get_basis() (in schrodinger.application.jaguar.basis)	getCreateAttachmentsTableSql() (in ApplyJoiningRules)	getRotEnergy() (in BondRotator)
get_basis_by_name() (in schrodinger.application.jaguar.basis)	getCreateJoiningRulesTableSql() (in JoiningRules)	getRotTran() (in Superimposer)
get_best_vertex() (in Perturbations)	getCreateSmartsRulesTableSql() (in JoiningRules)	getRow() (in ConnectionStorage)
get_big_fused_rings() (in schrodinger.application.desmond.r_group_asl)	getCryst1() (in MmpdbxReader)	getRow() (in ResiduesModel)
get_bio_database() (in schrodinger.application.bioluminate.antibody.utils)	getCrystalSystem() (in CrystalSystems)	getRow() (in StrucListModel)
get_block_summary() (in schrodinger.application.desmond.simulation_block_data)	getCsvRows() (in Calculator)	getRow() (in Project)
get_bonded_hydrogens() (in schrodinger.application.ligprep.ionizer)	getCt() (in proteinHandler)	getRowCriteria() (in CriteriaListModel)
get_bonds_in_molecule() (in schrodinger.application.matsci.rxn_channel.rxn_channel)	getCt() (in DistanceCell)	getRowData() (in ActiveDatabaseTable)
get_bonds_in_rings() (in Data)	getCumulativeMatches() (in PropFilterDialog)	getRowModel() (in MM_Project)
get_box() (in schrodinger.application.desmond.cms)	getCurrentAtomBondTyping() (in CanvasFingerprintGenerator)	getRowName() (in StrucListModel)
get_box() (in schrodinger.application.desmond.mdkey)	getCurrentColorScheme() (in ColorSchemeManager)	getRowTarget() (in StrucListModel)
get_boxsize() (in schrodinger.application.desmond.cms)	getCurrentColorSchemeName() (in ColorSchemeManager)	getRowText() (in PatternModel)
get_boxsize() (in schrodinger.application.desmond.mdkey)	getCurrentInputSymbol() (in BaseRecognizer)	getRSquaredList() (in CanvasFingerprintCluster)
get_boxvolume() (in schrodinger.application.desmond.cms)	getCurrentInputSymbol() (in Parser)	getRuleInvocationStack() (in BaseRecognizer)
get_boxvolume() (in schrodinger.application.desmond.mdkey)	getCurrentInputSymbol() (in TreeParser)	getRuleMemoization() (in BaseRecognizer)
get_bridge_atoms() (in schrodinger.application.desmond.fep_mapping)	getCurrentLinkage() (in CanvasFingerprintCluster)	getRules() (in MM_CScheme)
get_bridging_waters() (in schrodinger.application.prepwizard)	getCurrentSchemeDescription() (in ColorSchemeManager)	getRulesOk() (in JoiningRules)
get_builtin_directory() (in schrodinger.application.matsci.builderwidgets)	getCurrentSetting() (in QualitySlider)	getRulesOkm() (in JoiningRules)
get_canvas_sssr() (in ChUtils)	getCurrentSymbol() (in CommonTreeNodeStream)	getRuntimeName() (in PhpProject)
get_carat_map() (in FEPScholarMapper)	getCurrentType() (in CanvasFingerprintGenerator)	getRuntimePath() (in Stage)
get_cell() (in schrodinger.application.matsci.nano.xtal)	getCustomData() (in sketcherGraphicalObject)	getRxAtoms() (in SketcherBox)
get_cell_pairs() (in schrodinger.application.matsci.nano.xtal)	getCustomSamplingASLString() (in _ProtItem)	getSamplePoints() (in ReactionPath)
get_centroid() (in schrodinger.application.matsci.shapes)	getCutoff() (in ContactParams)	getSASAGenerator() (in PropertyCalculator)
get_centroid() (in schrodinger.structutils.transform)	getData() (in VolumeData)	getSASANonPolarGenerator() (in PropertyCalculator)
get_chain_sequences() (in schrodinger.application.prepwizard)	getData() (in Grid)	getSASAPolarGenerator() (in PropertyCalculator)
get_charge() (in schrodinger.application.bioluminate.propka_parse)	getData() (in PhaseDB)	getSasOptions() (in PhpFeatureDefinition)
get_child_like_parent() (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)	getData() (in Structures)	getSbcFileName() (in SbcFrame)
get_chiral_atoms() (in schrodinger.structutils.analyze)	getData() (in Text)	getSBpartners() (in SaltBridgeFinder)
get_chmmol() (in ChUtils)	getDataColumn() (in PhpFeatureData)	getSBtype() (in SaltBridgeFinder)
get_chmmol_bonds_from_atoms() (in schrodinger.application.desmond.fep_scholar_util)	getDataLabels() (in SecondaryStructure)	getScanCoordinate() (in JaguarInput)
get_chorus_from_params() (in schrodinger.application.matsci.nano.xtal)	getDataLabels() (in AnalysisTool)	getScanStep() (in JaguarOutput)
get_chorus_properties() (in schrodinger.application.matsci.nano.xtal)	getDataModelClass() (in ReportFrame)	getScene() (in DendrogramView)
get_clone_xyz() (in schrodinger.application.desmond.mdkey)	getDataModelClass() (in MultiReportWithChart)	getScene() (in sketcher)
get_close_atoms() (in schrodinger.structutils.measure)	getDataRow() (in PhpFeatureData)	getSegmentPlaneIntersections() (in ConvexPolyhedron)
get_cmd_string() (in schrodinger.application.desmond.util)	getDataValue() (in PhpFeatureData)	getSelected() (in ConnectionStorage)
get_cms() (in FEPReportMaker)	getDbID() (in PhpProject)	getSelected() (in PropertySelector)
get_cms() (in FEPSimulationReport)	getDebugListener() (in DebugParser)	getSelected() (in PropertySelectorMenu)
get_collapsed_index() (in schrodinger.application.matsci.nano.xtal)	getDebugListener() (in DebugTokenStream)	getSelectedAtoms() (in sketcherScene)
get_color() (in schrodinger.application.bioluminate.pml_menus)	getDebugListener() (in DebugTreeAdaptor)	getSelectedAtomsAndResidues() (in sketcherScene)
get_color() (in schrodinger.application.matsci.amorphous)	getDefault() (in JaguarInput)	getSelectedDataTitles() (in ReportFrame)
get_color() (in Torsion)	getDefaultAtomTypingScheme() (in CanvasFingerprintGenerator)	getSelectedIndexes() (in SliderPlot)
get_color_list() (in schrodinger.application.combiglide.connection_storage)	getDefaultCustomTemplateDir() (in SketcherBox)	getSelectedLigand() (in ChooseLigandDialog)
get_color_scheme() (in schrodinger.structutils.color)	getDefaultFdFile() (in PhpProject)	getSelectedMutations() (in MutationSelectorComboBox)
get_command() (in MMKVSettings)	getDefaultFeatureFreq() (in PhpProject)	getSelectedMutations() (in MutationSelectorLineEdit)
get_command() (in schrodinger.job.queue)	getDefaultFeatureRadii() (in PhpProject)	getSelectedPatternName() (in LigfilterFrame)
get_command_arguments() (in MMKVSettings)	getDefaultFeatureTol() (in PhpProject)	getSelectedResidues() (in sketcherScene)
get_command_items() (in schrodinger.maestro.maestro)	getDefaultKeywords() (in BaseTab)	getSelectedResult() (in FullTable)
get_command_line_host_list() (in schrodinger.job.jobcontrol)	getDefaultKeywords() (in InputTab)	getSelectedResult() (in TableView)
get_command_option() (in schrodinger.maestro.maestro)	getDefaultKeywords() (in IrcTab)	getSelectedResults() (in SplitTable)
get_connected_pair() (in Rama)	getDefaultKeywords() (in MoleculeTab)	getSelectedRows() (in Table)
get_connected_ring_bonds() (in schrodinger.application.canvas.r_group)	getDefaultKeywords() (in MultiStructureTab)	getSelectedRowTotal() (in Table)
get_connection_color() (in schrodinger.application.combiglide.connection_storage)	getDefaultKeywords() (in TheoryTab)	getSelectedRowTotal() (in Project)
get_constraint() (in Cms)	getDefaultMap() (in MM_ColormapGL)	getSelectedX() (in SliderPlot)
get_contacts() (in _structure')	getDefaultSiteMasks() (in PhpProject)	getSelectedXY() (in SliderPlot)
get_converged() (in schrodinger.structutils.minimize)	getDefaultSpinMult() (in ProjEntry)	getSelectionString() (in sketcher)
get_coords_and_box() (in schrodinger.trajectory.rdf)	getDefByName() (in JoiningRules)	getSelfEnergy() (in Minimizer)
get_coords_array_from_list() (in schrodinger.structutils.transform)	getDefinition() (in AddDefinitionDialog)	getSemiPartialRSquaredList() (in CanvasFingerprintCluster)
get_coords_dict() (in FEPScholarMapper)	getDefNamesAll() (in JoiningRules)	getSeparationRatioList() (in CanvasFingerprintCluster)
get_core() (in Data)	getDeleter() (in _StructureManager)	getSeqres() (in MmpdbxReader)
get_core_bonds() (in Data)	getDendrogramData() (in CanvasFingerprintCluster)	getSeqStructure() (in SimplifiedSequenceViewer)
get_core_map() (in FEPScholarMapper)	getDescription() (in CanvasFingerprintCluster)	getSequenceViewerImage() (in FEPReportMaker)
get_cores() (in Data)	getDescription() (in CanvasFingerprintGenerator)	getSettings() (in FEPConfigDialog)
get_cov_radii() (in schrodinger.application.matsci.nano.xtal)	getDescription() (in CanvasFingerprintSimilarity)	getSettings() (in DesmondGuiConfigDialog)
get_cpu() (in schrodinger.utils.sysinfo)	getDescription() (in DFA)	getSettings() (in _BaseMarker)
get_cpu_gpu_info() (in FEPSimulationReport)	getDescription() (in RewriteRuleElementStream)	getSettingsAffectedBySpinTreatment() (in PropertiesTabBase)
get_create_linker_table_sql() (in ChUtils)	getDescription() (in MM_CScheme)	getSettingsAffectedBySpinTreatment() (in SurfacesSubTab)
get_cross() (in schrodinger.graphics3d.common)	getDescription() (in MM_CSchemeRule)	getShortestVector() (in PBC)
get_csidl_dir() (in schrodinger.utils.fileutils)	getDesiredVolume() (in AmorphousCellBuilder)	getShortName() (in MM_CScheme)
get_ct() (in NewEntry)	getDictionaries() (in ProtLigInteractionFinder)	getShortName() (in MM_ColorRamp)
get_ct() (in NewEntryGroup)	getDihedral() (in PBC)	getShow1_4() (in ContactParams)
get_ct_offsets() (in Data)	getDirective() (in JaguarInput)	getSimHistogramByActiveId() (in ActiveDecoyFingerprintAnalyzer)
get_current_command_item() (in schrodinger.maestro.maestro)	getDirectives() (in JaguarInput)	getSimilarityMetricDescription() (in CanvasFingerprintSimilarityCLI)
get_cutoff_from_log() (in schrodinger.application.desmond.fepana)	getDissociationChannels() (in ChannelDefinitions)	getSimpleSlabVectors() (in CrystalPlane)
get_databases() (in schrodinger.application.bioluminate.antibody.utils)	getDistance() (in CellMatchAtom)	getSingleDisplacementChannels() (in ChannelDefinitions)
get_default() (in MMKVSettings)	getDistance() (in PBC)	getSingleString() (in sketcher)
get_default_box_size() (in schrodinger.application.glide.glide)	getDistanceCell() (in _structure')	getSingleStructure() (in sketcher)
get_default_criterion_parser() (in schrodinger.utils.ligfilter)	getDistanceMatrixFile() (in CanvasFingerprintCluster)	getSiteFragment() (in PhpProject)
get_default_setting() (in schrodinger.application.desmond.config)	getDistanceToCentroid() (in CanvasFingerprintCluster)	getSiteMasks() (in PhpProject)
get_default_template() (in JaguarTemplates)	getDistortedStructure() (in SmilesStructure)	getSiteNumber() (in PhpSite)
get_default_template() (in MopacTemplates)	getDiverseRandomItems() (in Partition)	getSitesConformer() (in PhpProject)
get_degrees_of_freedom() (in Cms)	getDmatrix() (in InternalCoords)	getSitesConformers() (in PhpProject)
get_degrees_of_freedom() (in schrodinger.application.desmond.remd)	getDonor() (in InteractionAtomPair)	getSiteSimilarity() (in PhpSite)
get_desktop_dir() (in schrodinger.utils.fileutils)	getDonorAlphaAtomicNumbers() (in AtomQueryParams)	getSiteStatus() (in PhpSite)
get_detailed() (in schrodinger.application.bioluminate.propka_parse)	getDonorAtomicNumbers() (in AtomQueryParams)	getSiteType() (in PhpSite)
get_diff_pert() (in Perturbations)	getDoubleDisplacementChannels() (in ChannelDefinitions)	getSiteTypeChar() (in PhpSite)
get_directed_pert() (in Perturbations)	getDuration() (in JaguarOutput)	getSize() (in MM_Colormap)
get_directory() (in schrodinger.maestro.maestro)	getDuration() (in Job)	getSketcherScene() (in sketcherView)
get_directory() (in schrodinger.utils.fileutils)	getEdgeLength() (in Cube)	getSketcherStructure() (in SketcherBox)
get_directory_path() (in schrodinger.utils.fileutils)	getEdgeLength() (in Cubeoctahedron)	getSlabVectors() (in CrystalPlane)
get_dist() (in FEPScholarMapper)	getEdgeLength() (in Dodecahedron)	getSlash() (in PhpProject)
get_distance() (in schrodinger.application.desmond.meta)	getEdgeLength() (in Icosahedron)	getSMARTSFromSelection() (in AddDefinitionDialog)
get_distance() (in ProtLigInteractionFinder)	getEdgeLength() (in Octahedron)	getSmiles() (in SmilesGenerator)
get_driver_option_parser() (in schrodinger.application.canvas.driverutils)	getEdgeLength() (in Tetrahedron)	getSmilesAndMap() (in SmilesGenerator)
get_dummy_atoms() (in schrodinger.application.desmond.r_group_asl)	getEdges() (in Face)	getSolventExposure() (in sketcherAtom)
get_element_histogram() (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)	getEdgeToFaceMaximumDistance() (in PiPiParams)	getSolventName() (in CompactSolventSelector)
get_element_mutator_dict() (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)	getEdgeToFaceMinimumAngle() (in PiPiParams)	getSourceName() (in DebugTokenStream)
get_endpoint_cmsfiles() (in FepanaJob)	getEids() (in MultiStructureTab)	getSourceName() (in BaseRecognizer)
get_energy() (in schrodinger.application.macromodel.apps)	getEigval() (in Mode)	getSourceName() (in Lexer)
get_energy() (in schrodinger.pipeline.stages.ligprep)	getEigvals() (in ModeSet)	getSourceName() (in Parser)
get_energy() (in schrodinger.structutils.minimize)	getEigvals() (in NMA)	getSourceName() (in ANTLRFileStream)
get_energy_group_output_filename() (in schrodinger.application.desmond.config)	getEleEnergy() (in Minimizer)	getSourceName() (in ANTLRStringStream)
get_energy_group_output_filename() (in schrodinger.application.desmond.gconfig)	getElement() (in AssignBondOrders)	getSourceName() (in CommonTokenStream)
get_energy_table() (in schrodinger.application.desmond.fepana)	getElementRepr() (in BaseBlockProperty)	getSourceName() (in IntStream)
get_enrichment_calculator() (in schrodinger.application.glide.glideanalysis)	getElementRestrictions() (in AtomQueryParams)	getSourceName() (in CommonTreeNodeStream)
get_ensemble() (in FEPSimulationReport)	getEnergy() (in InteractionReader)	getSourceName() (in TreeParser)
get_ensemble_class_method() (in schrodinger.application.desmond.config)	getEnergy() (in PostLigPrepStage)	getSpanningVectors() (in CrystalPlane)
get_ensemble_class_method() (in schrodinger.application.desmond.gconfig)	getEnergy() (in Minimizer)	getSpecialProperties() (in PropertiesTab)
get_ensemble_type() (in schrodinger.application.desmond.energygroup)	getEnergyConvergencePlot() (in FEPReportMaker)	getSpecialProperties() (in PropertiesTabBase)
get_ent() (in schrodinger.protein.getpdb)	getEnergyTimeSeries() (in EnergyGroupAnalysis)	getSpecialProperties() (in PropertiesTabIGO)
get_entry_hypothesis() (in schrodinger.application.phase.hypothesis)	getEnergyTimeSeries() (in MSEnergyGroupAnalysis)	getSpecificHeat() (in MSEnergyGroupAnalysis)
get_entry_id() (in schrodinger.application.desmond.maestro)	getEntryId() (in RowModel)	getSpecificHeatType() (in MSEnergyGroupAnalysis)
get_entry_id() (in schrodinger.application.desmond.util)	getenv() (in schrodinger.utils.unicodesupport)	getSpecsString() (in InputConfig)
get_entry_title() (in FEPSimulationReport)	getErrorHandler() (in FormatReader)	getSpgObjByName() (in SpaceGroups)
get_entryimport_opts() (in schrodinger.protein.getpdb)	getErrorHandler() (in MaestroReader)	getSpinMult() (in ProjEntry)
get_entryname_prefix() (in schrodinger.application.desmond.maestro)	getErrorHandler() (in Mol2Reader)	getSpinTreatment() (in TheoryTab)
get_entrynames() (in schrodinger.job.hunt_stub)	getErrorHandler() (in PDBReader)	getSpinTreatment() (in SpinTreatmentWidget)
get_envar() (in UI)	getErrorHandler() (in SDReader)	getSquareVertices() (in CrystalPlane)
get_error_text() (in MopacResults)	getErrorHeader() (in BaseRecognizer)	getSSEProtKeywords() (in schrodinger.trajectory.automatic_analysis_generator)
get_error_text() (in MopacResults2012)	getErrorHeader() (in TreeParser)	getStageByJobid() (in Pipeline)
get_error_text() (in MopacResults71)	getErrorMessage() (in BaseRecognizer)	getStageDirectory() (in Stage)
get_excluded_columns() (in schrodinger.application.canvas.driverutils)	getErrorMessage() (in Lexer)	getStageIndex() (in MultiStageArea)
get_exec() (in schrodinger.application.desmond.config)	getErrorMessage() (in TreeParser)	getStart() (in ParserRuleReturnScope)
get_exec_name() (in schrodinger.application.desmond.config)	getExcitedState() (in TheoryTab)	getStart() (in RuleReturnScope)
get_fep_ct_indices() (in schrodinger.trajectory.desmondsimulation)	getExcitedState() (in ExcitedStateWidget)	getStart() (in TreeRuleReturnScope)
get_fep_cts() (in schrodinger.application.desmond.r_group_asl)	getExcludedAtomList() (in Minimizer)	getStatusStrings() (in BaseJob)
get_fep_idx_map() (in schrodinger.trajectory.desmondsimulation)	getExcludedVolume() (in Scaffold)	getStatusStrings() (in JobControlJob)
get_fep_lambda_schedule() (in schrodinger.application.desmond.config)	getExcludePattern() (in PhpFeatureDefinition)	getStatusStrings() (in TestSPJob)
get_fep_mapping() (in FEPScholarMapper)	getExtendDistance() (in PhpFeatureDefinition)	getStdSimDecoyByActiveId() (in ActiveDecoyFingerprintAnalyzer)
get_fep_output_filename() (in schrodinger.application.desmond.config)	getExtentsAndStrainedLength() (in Interface)	getStep() (in PhpProject)
get_fep_output_filename() (in schrodinger.application.desmond.gconfig)	getExtracyclicAtom() (in AssignBondOrders)	getSteps() (in WorkFlow)
get_fepio_atom_mapping() (in schrodinger.application.desmond.fep_mapping)	getFaces() (in ConvexPolyhedron)	getStop() (in ParserRuleReturnScope)
get_fepio_sub_block_std_prop_getter() (in schrodinger.application.desmond.ffiostructure)	getFaces() (in MaestroPolyhedronCore)	getStop() (in RuleReturnScope)
get_fepio_sub_block_std_prop_setter() (in schrodinger.application.desmond.ffiostructure)	getFaceToFaceMaximumAngle() (in PiPiParams)	getStOutput() (in _StructureFragmenter)
get_fepio_sub_block_std_prop_short_name() (in schrodinger.application.desmond.ffiostructure)	getFaceToFaceMaximumDistance() (in PiPiParams)	getStrainedAngle() (in Interface)
get_ff() (in FEPSimulationReport)	getFcnSigs() (in schrodinger.application.desmond.enhanced_sampling.FcnTypes)	getStretch() (in Minimizer)
get_ffio_sub_block_std_prop_getter() (in schrodinger.application.desmond.ffiostructure)	getFdFile() (in PhpProject)	getStretchEnergy() (in Minimizer)
get_ffio_sub_block_std_prop_setter() (in schrodinger.application.desmond.ffiostructure)	getFeature() (in PhaseFeatureMixin)	getString() (in sketcherStyle)
get_ffio_sub_block_std_prop_short_name() (in schrodinger.application.desmond.ffiostructure)	getFeatureComment() (in PhpFeatureDefinition)	getStringProperty() (in Structure)
get_file_data() (in schrodinger.application.matsci.spectra)	getFeatureDef() (in PhpProject)	getStrings() (in sketcher)
get_flat_color_list() (in schrodinger.application.combiglide.connection_storage)	getFeatureDefFromProj() (in PhpProject)	getStrucChargeAndSpinMult() (in ProjEntry)
get_flexlm_search_path() (in schrodinger.application.licensing.licadmin)	getFeatureFreq() (in PhpProject)	getStructure() (in ReportFrame)
get_font_id() (in schrodinger.utils.pymol)	getFeatureName() (in PhpFeatureDefinition)	getStructure() (in ProjEntry)
get_font_names() (in schrodinger.maestro.maestro)	getFeatureNumber() (in PhpFeatureDefinition)	getStructure() (in ReactionParticipant)
get_formal_charge() (in CtObj)	getFeatureRadii() (in PhpProject)	getStructure() (in SubTabRow)
get_format_from_extension() (in _structure')	getFeatureTol() (in PhpProject)	getStructure() (in JaguarInput)
get_formulas_basename() (in schrodinger.application.matsci.nano.interface_mod)	getFeatureType() (in PhpFeatureDefinition)	getStructure() (in JaguarOutput)
get_fragment() (in schrodinger.application.desmond.r_group_asl)	getFFIOblock() (in System)	getStructure() (in JaguarResults)
get_fragment_smiles() (in schrodinger.application.matsci.rxn_channel.rxn_channel)	getFHistogram() (in replica_energy)	getStructure() (in ItemRow)
get_fragment_structure() (in schrodinger.protein.helix)	getFile() (in JobInputFrame)	getStructure() (in ItemRowWithTemplates)
get_fragments_from_att_points() (in schrodinger.application.desmond.r_group_asl)	getFileExt() (in WriteInputs)	getStructure() (in Results)
get_fragname() (in Cms)	getFilename() (in FrameworkTemplate)	getStructure() (in Step)
get_fragname() (in schrodinger.application.desmond.struc)	getFilename() (in FrameworkTemplate)	getStructure() (in HoneycombUnitCell)
get_free_energy() (in schrodinger.application.bioluminate.propka_parse)	getFilename() (in StructureFileReader)	getStructure() (in StructureAtom)
get_freezer_structure() (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)	getFilename() (in JobInputParams)	getStructure() (in ProjectRow)
get_from_atoms() (in ChUtils)	getFileName() (in MM_CScheme)	getStructure() (in Minimizer)
get_fullsys_ct_atom_index_range() (in Cms)	getFileName() (in MM_ColorRamp)	getStructure() (in _DesmondFrame)
get_functional_rings() (in Data)	getFilenames() (in MultiInputParams)	getStructureCount() (in collectionViewerModel)
get_gcd_list_ints() (in schrodinger.application.matsci.nano.xtal)	getFiles() (in Grid)	getStructureFile() (in QSiteInput)
get_generation_log_file_name() (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)	getFiles() (in PhaseDB)	getStructureFileReader() (in _structure')
get_glibc_version() (in schrodinger.utils.sysinfo)	getFiles() (in PipeIO)	getStructureFromAnySource() (in Results)
get_glide_job() (in schrodinger.application.glide.glide)	getFiles() (in Structures)	getStructureOutput() (in Pipeline)
get_global_quantity() (in schrodinger.application.desmond.fepana)	getFiles() (in Text)	getStructures() (in FEPScholarMapper)
get_gluepoints() (in schrodinger.application.desmond.cms)	getFiles() (in MultiFileWriter)	getStructures() (in InputEntriesModel)
get_grid_data() (in CNSData)	getFiles() (in MultiInputFrame)	getStructures() (in InputEntriesModelPka)
get_gui_table() (in Perturbations)	getFilterText() (in LigfilterFrame)	getStructures() (in InputTabBase)
get_handlers_for_key() (in schrodinger.infra.mmkv)	getFingerprintDescription() (in CanvasFingerprintGeneratorCLI)	getStructures() (in MultiStructureTab)
get_heavy_atoms() (in schrodinger.application.desmond.r_group_asl)	getFingerprintString() (in StructuralInteractionFingerprintGenerator)	getStructures() (in TransitionStateTab)
get_heavy_fragment() (in schrodinger.application.desmond.fep_mapping)	getFirstChildWithType() (in BaseTree)	getStructures() (in JaguarInput)
get_histogram() (in replicas_monitor)	getFirstNode() (in DendrogramGraphicTree)	getStructures() (in JaguarOutput)
get_hkl() (in schrodinger.application.matsci.nano.slab)	getFirstSelectedRow() (in Table)	getStructures() (in sketcher)
get_home_dir() (in schrodinger.utils.fileutils)	getFloat() (in sketcherStyle)	getStructureSize() (in DesmondBoxSize)
get_homebox() (in schrodinger.application.desmond.config)	getFloatProperty() (in sketcherGraphicalObject)	getStructureTitleForJobname() (in ProvidesStructuresMixin)
get_homebox() (in schrodinger.application.desmond.mdkey)	getFMax() (in replica_energy)	getStructureTitleForJobname() (in InputTabBase)
get_host() (in schrodinger.job.hunt_stub)	getFMean() (in replica_energy)	getStructureTitleForJobname() (in MultiStructureTab)
get_host() (in schrodinger.job.jobcontrol)	getFMin() (in replica_energy)	getStructureTitleForJobname() (in ReactionTab)
get_host() (in _SysInfo)	getFrag() (in _Pert)	getStructureWithJagNames() (in ProjEntryPka)
get_hostfile() (in schrodinger.job.hunt_stub)	getFrame() (in DesmondSimulation)	getStyle() (in sketcherScene)
get_hostfile() (in schrodinger.job.jobcontrol)	getFrameResults() (in EnergyGroup)	getStyleKey() (in sketcherGraphicalObject)
get_hostid() (in schrodinger.application.licensing.licadmin)	getFrameResults() (in Angle)	getSubColorSchemeName() (in ColorSchemeManager)
get_hostid() (in schrodinger.utils.sysinfo)	getFrameResults() (in AverageStructure)	getSubColorSchemeNamesList() (in ColorSchemeManager)
get_hostname() (in schrodinger.utils.sysinfo)	getFrameResults() (in CenterOfMass)	getSubColorSchemes() (in ColorSchemeManager)
get_hosts() (in schrodinger.job.jobcontrol)	getFrameResults() (in CenterOfMotion)	getSubjobHost() (in StartDialog1)
get_hot_atoms() (in LigandReport)	getFrameResults() (in CovarianceMatrix)	getSubjobHost() (in StartDialog2)
get_hot_atoms() (in ProteinReport)	getFrameResults() (in Dihedral)	getSubsetEnergy() (in Minimizer)
get_hydrogen_bonds() (in _structure')	getFrameResults() (in Distance)	getSubTab() (in InputTabWithSubTabs)
get_idx() (in schrodinger.trajectory.automatic_analysis_generator)	getFrameResults() (in HydrogenBondFinder)	getSummaryData() (in MultiReportWithChart)
get_idx() (in schrodinger.trajectory.rdf)	getFrameResults() (in HydrogenBondTracker)	getSuperimposedRMSD() (in SiteMatchLookup)
get_image() (in schrodinger.application.desmond.report_helper)	getFrameResults() (in LigandRMSD)	getSurface() (in Surfaces)
get_included_entries() (in schrodinger.maestro.maestro)	getFrameResults() (in MolecularSurfaceArea)	getSurfaceArea() (in ConvexPolyhedron)
get_included_entry() (in schrodinger.maestro.maestro)	getFrameResults() (in PlanarAngle)	getSurfaceArea() (in Cylinder)
get_included_entry_ids() (in schrodinger.maestro.maestro)	getFrameResults() (in PolarSurfaceArea)	getSurfaceArea() (in Sphere)
get_index() (in TempAtom)	getFrameResults() (in Position)	getSurfaces() (in Surfaces)
get_index_map_from_coord() (in schrodinger.application.desmond.fepdiff)	getFrameResults() (in RMSD)	getSymbolicLine() (in ZAtom)
get_indices() (in schrodinger.application.desmond.util)	getFrameResults() (in RMSF)	getSystemOpt() (in DrawFepPanel)
get_installed_hostfiles() (in schrodinger.job.jobcontrol)	getFrameResults() (in RadiusOfGyration)	getSystemOpt() (in DrawMcPanel)
get_interface_kwargs() (in schrodinger.application.matsci.nano.surfaces_interfaces_mod)	getFrameResults() (in Ramachandran)	getTab() (in CanvasFingerprintClusterGUI)
get_inversion_index() (in schrodinger.application.matsci.nano.util)	getFrameResults() (in SecondaryStructure)	getTab() (in CanvasFingerprintSimilarityGUI)
get_isoelectronic_mutator_indicies() (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)	getFrameResults() (in SolventAccessibleSurfaceArea)	getTab() (in BaseJaguarPanel)
get_jaguar_out_mae() (in schrodinger.application.matsci.jaguarworkflows)	getFrameResults() (in SolventAccessibleSurfaceAreaByResidue)	getTableLayout() (in ActiveDatabaseDialog)
get_jaguar_output() (in schrodinger.application.matsci.jaguarworkflows)	getFrameResults() (in AnalysisTool)	getTempImageFilename() (in FEPReportMaker)
get_jaguar_output_structure() (in schrodinger.application.matsci.jaguarworkflows)	getFrameResults() (in HydrophobicContactFinder)	getTemplate() (in RuleReturnScope)
get_job_details() (in schrodinger.application.desmond.simulation_block_test)	getFrameResults() (in Jcoupling)	getTestFromDir() (in schrodinger.test.stu.testscripts)
get_job_selection() (in schrodinger.job.jobcontrol)	getFrameResults() (in AreaPerLipid)	getTests() (in TestUtility)
get_job_status_color() (in schrodinger.maestro.maestro)	getFrameResults() (in PhospholipidBilayerThickness)	getText() (in DebugTreeAdaptor)
get_job_type() (in FEPSimulationReport)	getFrameResults() (in ProtLigInteractionFinder)	getText() (in Lexer)
get_jobname() (in schrodinger.utils.fileutils)	getFrameResults() (in SaltBridgeFinder)	getText() (in ClassicToken)
get_jobs() (in schrodinger.job.jobcontrol)	getFrameStructure() (in DesmondSimulation)	getText() (in CommonToken)
get_jobs() (in schrodinger.maestro.maestro)	getFrameTime() (in DesmondSimulation)	getText() (in Token)
get_kernel_version() (in schrodinger.utils.sysinfo)	getFullReps() (in CoreClassifier)	getText() (in BaseTreeAdaptor)
get_keyword_template() (in JaguarTemplates)	getFunctional() (in TheoryTab)	getText() (in CommonErrorNode)
get_keyword_template() (in MopacTemplates)	getGrammarFileName() (in BaseRecognizer)	getText() (in CommonTree)
get_knime_workflows_url() (in schrodinger.utils.config)	getGroup() (in PhpProject)	getText() (in CommonTreeAdaptor)
get_labeled_from_tos() (in ChUtils)	getGroup() (in Preferences)	getText() (in Tree)
get_lambda() (in _FepSchedule)	getGroupCount() (in PhpProject)	getText() (in TreeAdaptor)
get_lambda() (in FepSchedule)	getGroups() (in EnergyGroupAnalysis)	getTextSummary() (in Results)
get_last_20_lines() (in schrodinger.pipeline.pipeutils)	getGroupTime() (in CanvasFingerprintCluster)	getTheoryLevel() (in TheoryTab)
get_last_job_started() (in schrodinger.maestro.maestro)	getGrowParams() (in NanoSheet)	getThermoMethod() (in EnsembleTab)
get_lattice_param_properties() (in schrodinger.application.matsci.nano.xtal)	getGrowVectors() (in Grow)	getThickness() (in Surface)
get_lattice_parameters() (in schrodinger.application.matsci.nano.slab)	getGUI() (in CanvasFingerprintGeneratorGUI)	getTimes() (in DesmondSimulation)
get_lattice_properties() (in schrodinger.application.matsci.nano.particle)	getGUI() (in CanvasFingerprintSimilarityGUI)	getTitle() (in liaison)
get_lattice_vectors() (in schrodinger.application.matsci.nano.xtal)	getHamiltonian() (in TheoryTab)	getTitle() (in PhpProject)
get_launcher() (in MopacAPI)	getHandle() (in Structure)	getTitle() (in MmpdbxReader)
get_lead_confs() (in schrodinger.application.macromodel.apps)	getHash() (in SMResidue)	getTitle() (in Structure)
get_legal_name() (in PymolInstance)	getHeader() (in ChmCSVTools)	getTitle() (in Mode)
get_license() (in schrodinger.application.canvas.utils)	getHeader() (in MmpdbxReader)	getTitle() (in Vector)
get_license_paths() (in schrodinger.utils.licutils)	getHKLIndices() (in Surfaces)	getTitle() (in ModeSet)
get_lig_heavy_atom_num() (in ModelSystem)	getHost() (in StartDialog1)	getTitle() (in NMA)
get_ligand_asl() (in schrodinger.maestro.maestro)	getHost() (in StartDialog2)	getToken() (in DebugTreeAdaptor)
get_ligand_asl() (in schrodinger.structutils.sitealign)	getHost() (in Host)	getToken() (in CommonTree)
get_ligand_cts() (in schrodinger.application.desmond.fepdiff)	getHostList() (in Stage)	getToken() (in CommonTreeAdaptor)
get_ligands() (in schrodinger.application.desmond.feputils)	getHosts() (in FEPConfigDialog)	getToken() (in TreeAdaptor)
get_linked_path() (in schrodinger.application.licensing.flexlm)	getHosts() (in StartDialog)	getTokenErrorDisplay() (in BaseRecognizer)
get_linked_path() (in schrodinger.utils.licutils)	getHostStr() (in App)	getTokenIndex() (in ClassicToken)
get_listof_props_ene() (in schrodinger.application.desmond.simulation_block_data)	getHostStr() (in Stage)	getTokenIndex() (in CommonToken)
get_local_appdata_dir() (in schrodinger.utils.fileutils)	getHotAtoms() (in FEPScholarMapper)	getTokenIndex() (in Token)
get_local_symmetry() (in schrodinger.application.desmond.meta)	getHSliderMax() (in SliderPlot)	getTokens() (in CommonTokenStream)
get_log_props() (in schrodinger.application.desmond.simulation_block_data)	getHSliderMin() (in SliderPlot)	getTokenSource() (in DebugTokenStream)
get_loggable_float() (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)	getHydropathyGenerator() (in PropertyCalculator)	getTokenSource() (in CommonTokenStream)
get_low_energy_conformers() (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)	getHydrophobicResidueIndex() (in HydrophobicContactFinder)	getTokenSource() (in TokenStream)
get_machid_output() (in schrodinger.application.licensing.licadmin)	getHypoAlignments() (in PhpProject)	getTokenStartIndex() (in DebugTreeAdaptor)
get_macro() (in Keyword)	getHypoIDs() (in PhpProject)	getTokenStartIndex() (in CommonTree)
get_macro() (in Setting)	getHypoMatches() (in PhpProject)	getTokenStartIndex() (in CommonTreeAdaptor)
get_maestro() (in schrodinger)	getHypoScores() (in PhpProject)	getTokenStartIndex() (in Tree)
get_maestro_groupname() (in schrodinger.application.combiglide.combenumdock)	getHypoSites() (in PhpProject)	getTokenStartIndex() (in TreeAdaptor)
get_maestro_toplevel_window() (in schrodinger.maestro.maestro)	getHypoSitesStrings() (in PhpProject)	getTokenStopIndex() (in DebugTreeAdaptor)
get_main_window() (in schrodinger.maestro.maestro)	getID() (in _HypothesisFeature)	getTokenStopIndex() (in CommonTree)
get_map() (in schrodinger.test.canvas_utils)	getId() (in _DesmondFrame)	getTokenStopIndex() (in CommonTreeAdaptor)
get_mapping_from_fepio_fep() (in schrodinger.application.desmond.fepdiff)	getIgnoredSpinMult() (in ProjEntry)	getTokenStopIndex() (in Tree)
get_mapping_from_i_fep_mapping() (in schrodinger.application.desmond.fepdiff)	getImportantRotatableBonds() (in schrodinger.application.desmond.r_group_asl)	getTokenStopIndex() (in TreeAdaptor)
get_mapping_from_i_fep_subst() (in schrodinger.application.desmond.fepdiff)	getImpTorsion() (in Minimizer)	getTokenStream() (in Parser)
get_marker_atom_indexes_from_structure() (in schrodinger.application.matsci.builderwidgets)	getImpTorsionEnergy() (in Minimizer)	getTokenStream() (in CommonTreeNodeStream)
get_mass() (in schrodinger.trajectory.rdf)	getIncludePattern() (in PhpFeatureDefinition)	getTokenStream() (in TreeNodeStream)
get_matching_ws_atoms() (in schrodinger.application.bioluminate.pml_menus)	getIncorp() (in _SdIncorpFrame)	getTokenType() (in TreeWizard)
get_matching_ws_entries() (in schrodinger.application.bioluminate.pml_menus)	getIndex() (in CellMatchAtom)	getToolBar() (in Factory)
get_mean() (in schrodinger.application.desmond.fepana)	getIndex() (in StructureAtom)	getTorsion() (in Minimizer)
get_measurement_items() (in schrodinger.utils.pymol)	getIndex() (in Mode)	getTorsionEnergy() (in Minimizer)
get_meta_cfg_filename() (in schrodinger.application.desmond.meta)	getIndex() (in MM_Colormap)	getTorsionKeywords() (in schrodinger.trajectory.automatic_analysis_generator)
get_minimal_fragments_with_mutation() (in FEPEdgeData)	getIndexInfo() (in _RamachandranCallback)	getTotal14Pair() (in Minimizer)
get_mmshare_listing() (in schrodinger.application.licensing.licadmin)	getIndices() (in MaestroCube)	getTotalAggregation() (in PropertyCalculator)
get_model_system_type() (in schrodinger.application.desmond.cms)	getIndices() (in MaestroDodecahedron)	getTotalAtom() (in Minimizer)
get_model_system_type() (in schrodinger.application.desmond.mdkey)	getIndices() (in MaestroIcosahedron)	getTotalBending() (in Minimizer)
get_modified_backbone_angles() (in schrodinger.test.stu.outcomes.prime_workups)	getIndices() (in MaestroOctahedron)	getTotalChains() (in Mmpdbx)
get_mol_formula() (in LigandReport)	getIndices() (in MaestroPolyhedronCore)	getTotalComplementarity() (in PropertyCalculator)
get_mopac_codes() (in schrodinger.application.moldescriptors)	getIndices() (in MaestroTetrahedron)	getTotalEnergy() (in Minimizer)
get_mopac_jobname() (in schrodinger.application.mopac.utils)	getIndices() (in ModeSet)	getTotalHydropathy() (in PropertyCalculator)
get_mopac_launcher() (in schrodinger.application.mopac.mopac_launchers)	getInFileType() (in PhpProject)	getTotalImpTorsion() (in Minimizer)
get_mopac_methods() (in schrodinger.application.moldescriptors)	getInfraStructure() (in BuilderWithClashDetection)	getTotalpKa() (in PropertyCalculator)
get_mopac_results_instance() (in schrodinger.application.mopac.mopac_launchers)	getInitialGuess() (in ReactionPath)	getTotalPotentialEnergy() (in PropertyCalculator)
get_moved_residues() (in schrodinger.test.stu.outcomes.prime_workups)	getInPlaceRMSD() (in SiteMatchLookup)	getTotalPrimeEnergy() (in PropertyCalculator)
get_mutation_atoms_and_bonds() (in schrodinger.application.desmond.fep_scholar_util)	getInput() (in Step)	getTotalRotatableBonds() (in PropertyCalculator)
get_mydocuments_dir() (in schrodinger.utils.fileutils)	getInput() (in Stage)	getTotalSASA() (in PropertyCalculator)
get_mynetworkplaces_dir() (in schrodinger.utils.fileutils)	getInputFiles() (in Job)	getTotalSASANonPolar() (in PropertyCalculator)
get_name() (in ReturnCode)	getInputNames() (in Stage)	getTotalSASAPolar() (in PropertyCalculator)
get_name_file() (in schrodinger.application.jaguar.input)	getInputStream() (in ClassicToken)	getTotalSolubility() (in PropertyCalculator)
get_natom_btw_two_cells() (in schrodinger.application.matsci.nano.xtal)	getInputStream() (in CommonToken)	getTotalStretch() (in Minimizer)
get_natoms() (in LigandReport)	getInputStream() (in Token)	getTotalSubColorSchemes() (in ColorSchemeManager)
get_neighbors() (in schrodinger.structutils.assignbondorders)	getInputText() (in JaguarInput)	getTotalSurfComp() (in PropertyCalculator)
get_network_info() (in schrodinger.application.licensing.licadmin)	getIntactMolecules() (in Crystal)	getTotalTorsion() (in Minimizer)
get_next_filename() (in schrodinger.utils.fileutils)	getInteractionEnergy() (in Minimizer)	getTotalTypes() (in Group)
get_next_filename_prefix() (in schrodinger.utils.fileutils)	getInteractionEnergyGenerator() (in PropertyCalculator)	getTranslationToBox() (in Box)
get_next_partition() (in schrodinger.application.desmond.autopartition)	getInteractionMatrix() (in StructuralInteractionFingerprintGenerator)	getTree() (in RuleReturnScope)
get_nmr() (in schrodinger.application.jaguar.output)	getInteractions() (in sketcherScene)	getTree() (in TreeRuleReturnScope)
get_nonduplicated_atom() (in schrodinger.application.desmond.remd)	getInterface() (in Interface)	getTreeAdaptor() (in DebugEventSocketProxy)
get_normalized() (in schrodinger.graphics3d.common)	getInterface() (in Interfaces)	getTreeAdaptor() (in DebugTreeAdaptor)
get_normalized_spanning_vectors() (in schrodinger.application.matsci.nano.xtal)	getInterfaceASL() (in InterfaceMixin)	getTreeAdaptor() (in CommonTreeNodeStream)
get_normalized_vector() (in schrodinger.structutils.transform)	getInterfaces() (in Interfaces)	getTreeAdaptor() (in TreeNodeStream)
get_nrep() (in replica_container)	getInternalEnergyGenerator() (in PropertyCalculator)	getTreeAdaptor() (in mexpParser)
get_nrep() (in replicas_monitor)	getInterPlanarSeparation() (in CrystalPlane)	getTreeNodeStream() (in TreeParser)
get_num_constraint() (in Cms)	getInterpolatedStructure() (in ReactionPath)	getTreeSource() (in CommonTreeNodeStream)
get_num_constraint() (in schrodinger.application.desmond.remd)	getIntProperty() (in sketcherGraphicalObject)	getTreeSource() (in TreeNodeStream)
get_num_hbonds() (in schrodinger.structutils.analyze)	getIrcStep() (in JaguarOutput)	getTubeSpacings() (in MultiWalledNanoTube)
get_num_nonwateratom() (in schrodinger.application.desmond.remd)	getIsClashing() (in sketcherAtom)	getTubeVectors() (in NanoTubeSheet)
get_num_rotatable_bonds() (in schrodinger.structutils.analyze)	getIsFarthestFromCentroid() (in CanvasFingerprintCluster)	getType() (in DebugTreeAdaptor)
get_num_simple_bonds() (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)	getIsNearestToCentroid() (in CanvasFingerprintCluster)	getType() (in ClassicToken)
get_num_wateratom() (in schrodinger.application.desmond.remd)	getIsWaterMap() (in sketcherAtom)	getType() (in CommonToken)
get_number_atoms() (in ProteinReport)	getItems() (in Partition)	getType() (in Token)
get_number_density_from_cms() (in schrodinger.application.desmond.fepana)	getJagVersion() (in schrodinger.test.stu.outcomes.jaguar)	getType() (in BaseTreeAdaptor)
get_number_rotatable_bonds() (in LigandReport)	getJob() (in _Backend)	getType() (in CommonErrorNode)
get_nwaters() (in FEPSimulationReport)	getJob() (in JobControlJob)	getType() (in CommonTree)
get_old2new() (in schrodinger.trajectory.analyze_trajectories)	getJobDJ() (in BaseJob)	getType() (in CommonTreeAdaptor)
get_op_positions() (in schrodinger.infra.propedit)	getJobDJ() (in Stage)	getType() (in Tree)
get_opacity() (in schrodinger.application.desmond.fep_edge_report_maker)	getJobname() (in StartDialog1)	getType() (in TreeAdaptor)
get_open_file_name() (in SequenceFileDialog)	getJobname() (in StartDialog2)	getType() (in _HypothesisFeature)
get_open_file_name() (in TemplateFileDialog)	getJobName() (in App)	getUid() (in sketcherAtom)
get_open_file_names() (in SequenceFileDialog)	getJobParameters() (in AppFramework)	getUnexpectedToken() (in UnwantedTokenException)
get_opener() (in schrodinger.utils.urllib)	getJsonString() (in sketcher)	getUnexpectedType() (in RecognitionException)
get_opls_dir_setting() (in schrodinger.application.desmond.feputils)	getKelleyPenaltyList() (in CanvasFingerprintCluster)	getUniqueID() (in DebugTreeAdaptor)
get_option() (in SingleDashOptionParser)	getKey() (in Key)	getUniqueID() (in BaseTreeAdaptor)
get_or_create() (in schrodinger.test.performance.reporter)	getKeystring() (in CompactSolventSelector)	getUniqueID() (in TreeAdaptor)
get_or_create_test() (in schrodinger.test.performance.reporter)	getKeyType() (in Preferences)	getUniquePert() (in _Pert)
get_orig_cfg() (in schrodinger.application.desmond.energygroup)	getKeywordDict() (in KeywordEdit)	getUniqueTitle() (in collectionViewerModel)
get_os_version() (in _SysInfo)	getKeywordDict() (in QualitySlider)	getUnknownKeywords() (in JaguarInput)
get_osname() (in schrodinger.utils.sysinfo)	getKeywordString() (in KeywordEdit)	getUnusedHostList() (in StageJob)
get_output_file_name() (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)	getKeywordString() (in QualitySlider)	getUsedHosts() (in Pipeline)
get_parallelepiped_vertices() (in schrodinger.application.matsci.shapes)	getKindOfOps() (in TokenRewriteStream)	getuser() (in schrodinger.utils.unicodesupport)
get_param_string() (in schrodinger.application.matsci.textlogger)	getLabel() (in EnergyGroup)	getUserOutputFiles() (in Pipeline)
get_params_from_chorus() (in schrodinger.application.matsci.nano.xtal)	getLabel() (in MSEnergyGroup)	getUserOutputs() (in Pipeline)
get_params_from_vectors() (in schrodinger.application.matsci.nano.xtal)	getLabel() (in Angle)	getUserTemplateList() (in SketcherBox)
get_pargph() (in schrodinger.application.desmond.report_helper)	getLabel() (in AverageStructure)	getValue() (in JaguarInput)
get_parser() (in schrodinger.analysis.enrichment)	getLabel() (in CenterOfMass)	getValue() (in StructureLauncher)
get_parser() (in schrodinger.application.glide.poseviewconvert)	getLabel() (in CenterOfMotion)	getValue() (in AtomPairWithValue)
get_pathway() (in schrodinger.application.desmond.fepana)	getLabel() (in CovarianceMatrix)	getvalue() (in AslCriterion)
get_pdb() (in schrodinger.protein.getpdb)	getLabel() (in Dihedral)	getvalue() (in Criterion)
get_pert_data() (in Perturbations)	getLabel() (in Distance)	getvalue() (in PredefinedCriterion)
get_pert_reference() (in Perturbations)	getLabel() (in HydrogenBondTracker)	getvalue() (in PropertyCriterion)
get_pert_unique_feps() (in Perturbations)	getLabel() (in LigandRMSD)	getvalue() (in SmartsCriterion)
get_phi_psi() (in schrodinger.test.stu.outcomes.prime_workups)	getLabel() (in MolecularSurfaceArea)	getValueFromItem() (in OutputTab)
get_phi_psi_atoms() (in schrodinger.trajectory.analysis)	getLabel() (in PlanarAngle)	getVariableLines() (in ZAtom)
get_pi_cation_interactions() (in _structure')	getLabel() (in PolarSurfaceArea)	getVariance() (in Mode)
get_pi_pi_interactions() (in _structure')	getLabel() (in RMSD)	getVariances() (in ModeSet)
get_picked() (in Rama)	getLabel() (in RMSF)	getVariances() (in NMA)
get_pl_analysis() (in FEPReport)	getLabel() (in RadiusOfGyration)	getvdWRadius() (in StructureAtom)
get_platform() (in _SysInfo)	getLabel() (in SecondaryStructure)	getVerbosity() (in Stage)
get_point_cart() (in FragBox)	getLabel() (in SolventAccessibleSurfaceArea)	getVertices() (in ConvexPolyhedron)
get_polygon_area() (in schrodinger.application.matsci.shapes)	getLabel() (in SolventAccessibleSurfaceAreaByResidue)	getVertices() (in MaestroCube)
get_position_array() (in _FepFrame)	getLabel() (in VolumeMapper)	getVertices() (in MaestroDodecahedron)
get_potential() (in Torsion)	getLabel() (in AnalysisTool)	getVertices() (in MaestroIcosahedron)
get_prime_factors() (in schrodinger.application.desmond.autopartition)	getLabel() (in PhospholipidBilayerThickness)	getVertices() (in MaestroOctahedron)
get_print_simbox_data() (in schrodinger.application.desmond.simulation_block_data)	getLabel() (in DendrogramGraphicNode)	getVertices() (in MaestroPolyhedronCore)
get_process_name() (in schrodinger.test.performance.general)	getLabel() (in DendrogramNode)	getVertices() (in MaestroTetrahedron)
get_processor() (in _SysInfo)	getLabel() (in sketcherResidue)	getVerticesOfAllPlanes() (in CrystalPlane)
get_product_info() (in schrodinger.application.desmond.util)	getLabels() (in DendrogramTreeBuilder)	getViewPointer() (in sketcherScene)
get_prop_list() (in Data)	getLargestNumericType() (in Zmat)	getViews() (in sketcher)
get_prop_value() (in Array_Prop)	getLargestSpan() (in Box)	getVisibleColumnIndex() (in Table)
get_prop_values() (in Data)	getLastRewriteTokenIndex() (in TokenRewriteStream)	getVisibleColumnTotal() (in Table)
get_property_name() (in schrodinger.structutils.smiles)	getLatticeParameters() (in Crystal)	getVisiblePropertyNames() (in Project)
get_prot() (in ModelSystem)	getLatticeVectors() (in HoneycombLattice)	getVisibleRowIndex() (in Table)
get_protein() (in FEPReportMaker)	getLatticeVectors() (in Parallelepiped)	getVisibleRowTotal() (in Table)
get_protein() (in ProteinReport)	getLaunchCommand() (in ComUtil)	getVolume() (in Cube)
get_protein_label_string() (in schrodinger.application.desmond.feputils)	getLeafIndices() (in DendrogramGraphicNode)	getVolume() (in Cubeoctahedron)
get_protein_rmsf() (in FEPEdgeReportMaker)	getLegendQPicture() (in sketcher)	getVolume() (in Cylinder)
get_proteins() (in schrodinger.application.desmond.feputils)	getLegendQPicture() (in sketcherScene)	getVolume() (in Dodecahedron)
get_proxy_config_file() (in schrodinger.utils.urllib)	getLength() (in Edge)	getVolume() (in Icosahedron)
get_pymol_cmd() (in schrodinger.utils.fileutils)	getLigand() (in PhpProject)	getVolume() (in Octahedron)
get_qglwidget_image() (in schrodinger.test.get_widget_image)	getLigand() (in schrodinger.trajectory.automatic_analysis_generator)	getVolume() (in Parallelepiped)
get_qikprop_properties() (in schrodinger.application.moldescriptors)	getLigandChargedAtoms() (in ProtLigInteractionFinder)	getVolume() (in Sphere)
get_quartets() (in Jcoupling)	getLigandCount() (in PhpProject)	getVolume() (in Tetrahedron)
get_quick_results() (in ModelCheck)	getLigandFragments() (in LigandReport)	getVolume() (in PBC)
get_r_group_for_atom() (in Data)	getLigandFragments() (in schrodinger.trajectory.protliginteractionfinder)	getVolumeTimeSeries() (in MSEnergyGroupAnalysis)
get_r_groups() (in Data)	getLigandID() (in StructuralInteractionFingerprintGenerator)	getVSliderMax() (in SliderPlot)
get_r_groups_per_atom() (in Data)	getLigandIDs() (in PhpProject)	getVSliderMin() (in SliderPlot)
get_random_structure() (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)	getLigandImage() (in FEPReportMaker)	getWeights() (in ChargeSelectorLineEdit)
get_range_specification() (in schrodinger.application.canvas.driverutils)	getLigandPropsKeywords() (in schrodinger.trajectory.automatic_analysis_generator)	getWeights() (in _ChargeSelectorPopUp)
get_rb_potential() (in schrodinger.trajectory.analyze_trajectories)	getLigandTitle() (in StructuralInteractionFingerprintGenerator)	getWeights() (in Ensemble)
get_rb_torsions_potential() (in schrodinger.trajectory.analyze_trajectories)	getLigandUniquePDBName() (in ProtLigInteractionFinder)	getWorkspaceEntry() (in NewEntryGroup)
get_reciprocal_lattice_vectors() (in schrodinger.application.matsci.nano.xtal)	getLinDepPlaneVectors() (in CrystalPlane)	getXCoord() (in PhpSite)
get_reference_data() (in schrodinger.application.matsci.shapes)	getline (in istream)	getXtalExtents() (in Surfaces)
get_release_name() (in schrodinger)	getline (in istream)	getXtalSuperCell() (in Surfaces)
get_rep_confs() (in schrodinger.application.macromodel.apps)	getLine() (in Lexer)	getXYZ() (in Structure)
get_replica_setting() (in schrodinger.application.desmond.config)	getLine() (in ANTLRStringStream)	getYCoord() (in PhpSite)
get_replica_setting() (in schrodinger.application.desmond.gconfig)	getLine() (in CharStream)	getZCoord() (in PhpSite)
get_residue_asl() (in schrodinger.application.bioluminate.protein)	getLine() (in ClassicToken)	getZmatrix() (in InternalCoords)
get_residue_asl() (in schrodinger.structutils.sitealign)	getLine() (in CommonToken)	getZmatText() (in JaguarInput)
get_residue_label() (in schrodinger.application.desmond.fep_edge_report_maker)	getLine() (in Token)	Gfactor_summary_data_set (in Report)
get_residue_name() (in Report)	getLine() (in BaseTree)	gid (in Task)
get_residue_sitename() (in schrodinger.application.desmond.struc)	getLine() (in CommonTree)	gid() (in Cms)
get_residues() (in ProteinReport)	getLine() (in Tree)	gid_refresh() (in Cms)
get_residues() (in Zmat)	getline() (in istream)	glibc() (in schrodinger.application.jaguar.output)
get_residues_asl() (in schrodinger.application.bioluminate.protein)	getline() (in istream)	glide (in schrodinger.application)
get_residues_by_connectivity() (in schrodinger.structure)	getLinkageDescription() (in CanvasFingerprintClusterCLI)	glide (in schrodinger.application.glide)
get_residues_unsorted() (in schrodinger.structure)	getLinkageGUI() (in CanvasFingerprintClusterGUI)	glide (in schrodinger.application.vsw.stages)
get_residues_within() (in schrodinger.application.bioluminate.protein)	getList() (in BitArray)	glide (in schrodinger.pipeline.stages)
get_resname() (in LigandReport)	getLJEnergy() (in Minimizer)	glide (in schrodinger.test.stu.outcomes.custom)
get_rest_density_img() (in FEPEdgeReportMaker)	getLocal() (in Stage)	glide_finish() (in GlideHTTPHandler)
get_rest_density_plot() (in FEPEdgeReportMaker)	GetLogger (in schrodinger.application.matsci.textlogger)	GLIDE_HTVS_KEY_1 (in schrodinger.structutils.sort)
get_rest_density_text() (in FEPEdgeReportMaker)	getlogin() (in schrodinger.application.desmond.util)	GLIDE_HTVS_KEY_2 (in schrodinger.structutils.sort)
get_rest_input() (in schrodinger.application.desmond.rest_inp)	getLongName() (in MM_CScheme)	GLIDE_MERGE (in schrodinger.pipeline.stages.glide)
get_rest_region() (in schrodinger.application.desmond.rest_inp)	getLongName() (in MM_ColorRamp)	glide_path (in schrodinger.pipeline.stages.glide)
get_restr() (in _AtomGroup)	getLoopMutation() (in Mutator)	glide_send_response() (in GlideHTTPHandler)
get_restr() (in schrodinger.application.desmond.mdkey)	getLowestCommonPartition() (in Hierarchy)	glide_shutdown_request() (in GlideHTTPServer)
get_restr2() (in schrodinger.application.desmond.mdkey)	getMaefilename() (in JaguarInput)	GLIDE_SP_KEY_1 (in schrodinger.structutils.sort)
get_restrain() (in Cms)	getMaeStructure() (in Results)	GLIDE_SP_KEY_2 (in schrodinger.structutils.sort)
get_results() (in ModelCheck)	getMasterjobHost() (in StartDialog1)	GLIDE_XP_KEY_1 (in schrodinger.structutils.sort)
get_rg_ct() (in Data)	getMasterjobHost() (in StartDialog2)	GLIDE_XP_KEY_2 (in schrodinger.structutils.sort)
get_rgb_from_color_index() (in schrodinger.structutils.color)	getMatchedSites() (in PhpProject)	glideanalysis (in schrodinger.application.glide)
get_rgb_from_color_name() (in schrodinger.structutils.color)	getMatchedSitesStrings() (in PhpProject)	GlideHTTPHandler (in schrodinger.application.glide.http_server)
get_rgroup_combgen() (in schrodinger.application.canvas.r_group)	getMatches() (in FEPScholarMapper)	GlideHTTPServer (in schrodinger.application.glide.http_server)
get_rgroup_DEE() (in schrodinger.application.canvas.r_group)	getMatches() (in Spec)	GlideJob (in schrodinger.application.glide.glide)
get_rgroup_MCS() (in schrodinger.application.canvas.r_group)	getMatchingAtomMap() (in SiteMatchLookup)	glidePrecisionDialog (in schrodinger.application.combiglide.combenumdock)
get_rgroup_SMARTS() (in schrodinger.application.canvas.r_group)	getMatrixTime() (in CanvasFingerprintCluster)	GlideSortStage (in schrodinger.pipeline.stages.glide)
get_rings() (in Data)	getMaxDistanceFromCentroid() (in CanvasFingerprintCluster)	GlideWorkspaceMarkers (in schrodinger.application.glide.gui)
get_rings_in_group() (in schrodinger.structutils.assignbondorders)	getMaximumAcceptorAngle() (in AtomQueryParams)	global_logfh (in schrodinger.pipeline.pipeline)
get_rms_gradient() (in schrodinger.structutils.minimize)	getMaximumAngle() (in PiCationParams)	GLY_COLOR (in Rama)
get_rotable_bonds() (in schrodinger.application.desmond.r_group_asl)	getMaximumDistance() (in AtomQueryParams)	GLYCINE() (in sketcherStyle)
get_rotatable_bonds() (in schrodinger.trajectory.automatic_analysis_generator)	getMaximumDistance() (in PiCationParams)	GMAGGLASS (in Icons)
get_rotated_vector() (in schrodinger.application.matsci.nano.util)	getMaxjob() (in StartDialog1)	GOLDEN (in schrodinger.application.matsci.shapes)
get_rotation_matrix() (in schrodinger.structutils.transform)	getMaxjob() (in StartDialog2)	GOOD_CONTACT (in schrodinger.application.desmond.mdpose.mdpose_analysis)
get_rotation_matrix_from_eulers() (in schrodinger.structutils.transform)	getMaxRes() (in StructuralInteractionFingerprintGenerator)	GPHDB_COMPOUNDFIELD (in schrodinger.application.vsw.vswinput)
get_rsh_exec() (in schrodinger.job.remote_command)	getMaxRetries() (in Stage)	grab() (in Workspace)
get_runtime_path() (in schrodinger.job.jobcontrol)	getMaxSimDecoyByActiveId() (in ActiveDecoyFingerprintAnalyzer)	grab_reorder_obj() (in Perturbations)
get_salt_bridges() (in _structure')	getMCSMatches() (in schrodinger.application.canvas.r_group)	gradient_criterion (in Minimizer)
get_sbt_tests() (in schrodinger.application.desmond.simulation_block_test)	getMeanMaxActiveActiveSim() (in ActiveDecoyFingerprintAnalyzer)	grammarFileName (in mexpLexer)
get_schrod_file_listing() (in schrodinger.application.licensing.licadmin)	getMeanMaxActiveDecoySim() (in ActiveDecoyFingerprintAnalyzer)	grammarFileName (in mexpParser)
get_schrodinger_temp_dir() (in schrodinger.utils.fileutils)	getMeanMaxDecoyDecoySim() (in ActiveDecoyFingerprintAnalyzer)	graphics3d (in schrodinger)
get_scisol_version() (in schrodinger)	getMeanSimDecoyByActiveId() (in ActiveDecoyFingerprintAnalyzer)	GRAPHICS_ATOM_MARKER_STYLE_GENERAL (in schrodinger.maestro.maestro)
get_script_center_url() (in schrodinger.utils.config)	getMemDiffs() (in schrodinger.test.stu.outcomes.jaguar)	GRAPHICS_ATOM_MARKER_STYLE_STAR (in schrodinger.maestro.maestro)
get_selected_st() (in Ensemble)	getMenu() (in Factory)	GRAPHICS_ICON_ARROWDOWN (in schrodinger.maestro.maestro)
get_server_processes() (in schrodinger.application.licensing.licadmin)	getMenuBar() (in Factory)	GRAPHICS_ICON_BREAK (in schrodinger.maestro.maestro)
get_set() (in Report)	getMergeDistanceList() (in CanvasFingerprintCluster)	GRAPHICS_ICON_CHECK (in schrodinger.maestro.maestro)
get_shape_object_by_name() (in schrodinger.application.matsci.shapes)	getMessage() (in RewriteCardinalityException)	GRAPHICS_ICON_DDRIVE (in schrodinger.maestro.maestro)
get_shared_file_listing() (in schrodinger.application.licensing.licadmin)	getMethod() (in TheoryTab)	GRAPHICS_ICON_EMAGGLASS (in schrodinger.maestro.maestro)
get_shortest_distance() (in schrodinger.structutils.measure)	getMetric() (in CanvasFingerprintSimilarity)	GRAPHICS_ICON_EQUALS (in schrodinger.maestro.maestro)
get_sidebar_dict() (in schrodinger.application.combiglide.combenumdock)	getMetricStyle() (in CanvasFingerprintSimilarity)	GRAPHICS_ICON_EYE (in schrodinger.maestro.maestro)
get_sidechain_att_atom() (in schrodinger.application.desmond.struc)	getMExpr() (in CV)	GRAPHICS_ICON_GMAGGLASS (in schrodinger.maestro.maestro)
get_sidechain_indices() (in local_residue)	getMExpr() (in CVAngle)	GRAPHICS_ICON_IMAGGLASS (in schrodinger.maestro.maestro)
get_sim_time_ns() (in FEPSimulationReport)	getMExpr() (in CVDihedral)	GRAPHICS_ICON_LOCK (in schrodinger.maestro.maestro)
get_simbox_output_filename() (in schrodinger.application.desmond.config)	getMExpr() (in CVDist)	GRAPHICS_ICON_LONEPAIR (in schrodinger.maestro.maestro)
get_simbox_output_filename() (in schrodinger.application.desmond.gconfig)	getMExpr() (in CVrgyr)	GRAPHICS_ICON_MAGGLASS (in schrodinger.maestro.maestro)
get_single_bond_length() (in schrodinger.structutils.assignbondorders)	getMExpr() (in CVrgyr_mass)	GRAPHICS_ICON_NONE (in schrodinger.maestro.maestro)
get_site_info() (in ModelCheck)	getMExpr() (in CVrmsd)	GRAPHICS_ICON_RSI (in schrodinger.maestro.maestro)
get_smiles() (in FEPEdgeData)	getMExpr() (in CVrmsd_symm)	GRAPHICS_ICON_SCANANGLE (in schrodinger.maestro.maestro)
get_smiles() (in LigandReport)	getMExpr() (in CVwhim)	GRAPHICS_ICON_SCANATOM (in schrodinger.maestro.maestro)
get_solute_st() (in Ensemble)	getMExpr() (in CVzdist)	GRAPHICS_ICON_SCANDIST (in schrodinger.maestro.maestro)
get_solvent_cap_coordinates() (in ModelSystem)	getMExpr() (in CVzdist0)	GRAPHICS_ICON_SCISSORS (in schrodinger.maestro.maestro)
get_solvent_cap_coords() (in DrawSolventPanel)	getMinimalDifference() (in _DesmondFrame)	GRAPHICS_ICON_SMAGGLASS (in schrodinger.maestro.maestro)
get_spec_dict() (in schrodinger.application.combiglide.utils)	getMinimumAcceptorAngle() (in AtomQueryParams)	GRAPHICS_ICON_SPRING (in schrodinger.maestro.maestro)
get_sssr() (in _structure')	getMinimumDonorAngle() (in AtomQueryParams)	GRAPHICS_ICON_TORSIONROTATE (in schrodinger.maestro.maestro)
get_st_from_file() (in schrodinger.trajectory.analyze_trajectories)	getMinMax() (in Box)	GRAPHICS_ICON_TRANSROT (in schrodinger.maestro.maestro)
get_startup_dir() (in schrodinger.utils.fileutils)	getMinMaxZCoord() (in Surface)	GRAPHICS_ICON_VMAGGLASS (in schrodinger.maestro.maestro)
get_stoichiometry_string() (in schrodinger.application.jaguar.utils)	getMinRes() (in StructuralInteractionFingerprintGenerator)	GRAPHICS_ICON_WMAGGLASS (in schrodinger.maestro.maestro)
get_structure() (in Structure)	getMinSimDecoyByActiveId() (in ActiveDecoyFingerprintAnalyzer)	GraphicsItemChange
get_structure_file_format() (in schrodinger.utils.fileutils)	getMissingSymbol() (in BaseRecognizer)	GraphicsItemFlag
get_structure_score() (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)	getMissingSymbol() (in Parser)	GraphicsItemFlags
get_structure_sequences() (in schrodinger.protein.sequence)	getMissingSymbol() (in TreeParser)	gray (in schrodinger.application.desmond.report_helper)
get_structure_with_contiguous_molecules() (in schrodinger.application.matsci.rxn_channel.rxn_channel)	getMissingType() (in MissingTokenException)	gray (in Color)
get_subst_from_mapping() (in schrodinger.application.desmond.fep_mapping)	getMmJagKeywords() (in BaseJaguarPanel)	GREATER (in schrodinger.application.bioluminate.propfilter)
get_subst_score() (in SubstCoreDatabase)	getMmJagKeywords() (in BaseTab)	GREATER_THAN (in Property)
get_summary() (in schrodinger.application.bioluminate.propka_parse)	getMmJagKeywords() (in InputTabBase)	GREATEREQUAL (in schrodinger.application.bioluminate.propfilter)
get_super_transformation_matrix() (in schrodinger.structutils.rmsd)	getMmJagKeywords() (in InputTabHB)	GREEN (in schrodinger.application.bioluminate.pml_menus)
get_surface_kwargs() (in schrodinger.application.matsci.nano.surfaces_interfaces_mod)	getMmJagKeywords() (in InputTabPka)	GREEN (in schrodinger.application.matsci.amorphous)
get_surfaces() (in schrodinger.application.bioluminate.pml_menus)	getMmJagKeywords() (in IrcTab)	green (in Color)
get_target_pressure() (in schrodinger.application.desmond.energygroup)	getMmJagKeywords() (in MoleculeTab)	GREY (in schrodinger.application.bioluminate.pml_menus)
get_temp_fname() (in schrodinger.application.desmond.fepdiff)	getMmJagKeywords() (in MoleculeTabBase)	GREY (in schrodinger.application.matsci.amorphous)
get_temp_from_cfg() (in schrodinger.trajectory.analyze_trajectories)	getMmJagKeywords() (in MoleculeTabPka)	GRID (in schrodinger.application.vsw.vswinput)
get_temp_location() (in schrodinger.maestro.maestro)	getMmJagKeywords() (in MultiStructureTab)	GRID (in schrodinger.pipeline.pipeio)
get_temperature() (in schrodinger.application.desmond.energygroup)	getMmJagKeywords() (in OptimizationTab)	Grid (in schrodinger.pipeline.pipeio)
get_temperature() (in FEPSimulationReport)	getMmJagKeywords() (in OutputTab)	grid() (in VolumeMapper)
get_template_from_tos() (in ChUtils)	getMmJagKeywords() (in BaseSubTab)	grid() (in schroPmwWrapper)
get_test_id() (in schrodinger.test.stu.testscripts)	getMmJagKeywords() (in ESPSubTab)	grid() (in GroundClass)
get_text_path() (in Perturbations)	getMmJagKeywords() (in MullikenSubTab)	grid() (in schroWidget)
get_time() (in Job)	getMmJagKeywords() (in MultipoleSubTab)	Grid3D (in schrodinger.trajectory.analysis)
get_time() (in schrodinger.pipeline.stage)	getMmJagKeywords() (in PolarizabilitySubTab)	GRID_DENSITY (in TheoryTab)
get_tol_override() (in schrodinger.test.stu.outcomes.jaguar)	getMmJagKeywords() (in PropertiesTabBase)	GRID_DENSITY_REV (in TheoryTab)
get_top_level_props() (in schrodinger.application.desmond.simulation_block_data)	getMmJagKeywords() (in RamanSubTab)	grid_property (in ColorBy)
get_total_proc() (in FEPScholarMsjGenerator)	getMmJagKeywords() (in SurfacesSubTab)	grid_size() (in Grid3D)
get_trait() (in DesmondTyper)	getMmJagKeywords() (in VibrationalSubTab)	gridbox (in schrodinger.graphics3d)
get_trait() (in McproTyper)	getMmJagKeywords() (in ScanTab)	GridBox (in schrodinger.graphics3d.gridbox)
get_trait() (in SysType)	getMmJagKeywords() (in ScfTab)	gridBrowse() (in SimpleEnumDockPanel)
get_trait() (in TyperBase)	getMmJagKeywords() (in ScfTabIGO)	Gridgen (in schrodinger.application.glide.glide)
get_trait() (in WatermapTyper)	getMmJagKeywords() (in SolvationTab)	GridgenStage (in schrodinger.pipeline.stages.glide)
get_translation_matrix() (in schrodinger.structutils.transform)	getMmJagKeywords() (in SolventTab)	GroundClass (in schrodinger.ui.widget.tkinterwidget)
get_translation_vector() (in WaterMapAnaJob)	getMmJagKeywords() (in TheoryTab)	Group (in schrodinger.graphics3d.common)
get_type() (in TempAtom)	getMmJagKeywords() (in TransitionStateTab)	group (in ProjectRow)
get_type() (in Bind)	getMmJagKeywords() (in ExcitedStateWidget)	Group (in schrodinger.ui.widget.pmwwidget)
get_type() (in FcnCall)	getMmJagKeywords() (in SpinExcitedStateController)	group() (in CanvasFingerprintCluster)
get_type() (in If)	getMmJagKeywords() (in SpinTreatmentWidget)	group_subtuples_by_key_and_value() (in schrodinger.application.matsci.nano.particle)
get_type() (in Iter)	getMobileStRMSD() (in SiteMatchLookup)	groupAromaticRings() (in AssignBondOrders)
get_type() (in Let)	getModel() (in MmpdbxReader)	GroupByConnectivity (in schrodinger.protein.findhets)
get_type() (in Lit)	getModel() (in Mode)	groupHidden() (in Primitive)
get_type() (in Node)	getModel() (in ModeSet)	groups (in Project)
get_type() (in Series)	getModel() (in NMA)	groups() (in AddNeighborGroups)
get_type() (in String)	getMolecularFormula() (in ItemRow)	groups() (in GroupByConnectivity)
get_type() (in Var)	getMolecule() (in _StructureAtom)	groupShown() (in Primitive)
get_type() (in schrodinger.infra.propedit)	getMoleculeAtoms() (in Structure)	Grow (in schrodinger.application.matsci.nano.sheet)
get_umbrella_mode_command_line() (in schrodinger.application.desmond.fep_util)	getMolQImage() (in sketcher)	grow_fragment() (in schrodinger.protein.helix)
get_unique_title() (in schrodinger.application.combiglide.combenumdock)	getMolQImage() (in sketcherScene)	grow_mult() (in schrodinger.structutils.build)
get_unit_cell_formula() (in schrodinger.application.matsci.nano.xtal)	getMolQImageWithConstraintsLabels() (in sketcherScene)	GROW_NAME_KEY (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)
get_unused_name() (in PymolInstance)	getMolQPicture() (in sketcher)	growFluoro() (in SimpleEnumDockPanel)
get_userdata_dir() (in schrodinger.utils.fileutils)	getMolQPicture() (in sketcherScene)	growFragmentForward() (in SimpleEnumDockPanel)
get_val() (in schrodinger.utils.sea)	getMolQPictureWithConstraintsLabels() (in sketcherScene)	GROWINDICIES (in Grow)
get_value() (in Map)	getMolSites() (in PhpProject)	growMethyl() (in SimpleEnumDockPanel)
get_vdw() (in Cms)	getMolSitesStrings() (in PhpProject)	growname (in _StructureAtom)
get_vdw_radius() (in Report)	getMovingAtoms() (in Structure)	guess_build_type_and_id() (in schrodinger.test.performance.reporter)
get_vector_atoms_from_internal_coords() (in Membrane_Model)	getMSJobKeywords() (in MatSciAnalysis)	GUESS_COLOR (in schrodinger.application.matsci.reordergui)
get_vector_magnitude() (in schrodinger.structutils.transform)	getMustMatch() (in PhpProject)	GUESS_HIGHLIGHT_COLOR (in schrodinger.application.matsci.reordergui)
get_velocity_array() (in _FepFrame)	getMutationFromChanges() (in Mutator)	guess_value_type() (in Atom)
get_visible_ws_asl() (in schrodinger.application.bioluminate.pml_menus)	getMutations() (in FEPScholarMapper)	guessAccepted() (in ReorderAtomFrame)
get_visible_ws_atoms() (in schrodinger.application.bioluminate.pml_menus)	getName() (in ItemRowWithTemplates)	GUESSCHOICES (in ParserWrapper)
get_weight() (in Perturbations)	getName() (in Stage)	guessMode() (in ReorderAtomFrame)
get_weight_symbol() (in Rama)	getName() (in MM_Color)	guessOrder() (in ReorderAtomFrame)
get_widget_image (in schrodinger.test)	getName() (in MM_Colormap)	guessRejected() (in ReorderAtomFrame)
get_word_list_from_file() (in schrodinger.application.matsci.nano.surfaces_interfaces_mod)	getNanoSheet() (in NanoSheet)	gui (in schrodinger.application.desmond)
get_workup_method() (in schrodinger.test.stu.workup)	getNB14Pairs() (in Minimizer)	gui (in schrodinger.application.glide)
get_x() (in TempAtom)	getNBEnergyComponents() (in Minimizer)	gui (in schrodinger.application.jaguar)
get_xy_plot() (in schrodinger.application.desmond.mplchart)	getNBEnergyForTwoAtomLists() (in Minimizer)	gui (in schrodinger.application.prime)
get_xy_plot_widget() (in schrodinger.application.desmond.mplchart)	getNearestImage() (in PBC)	gui() (in App)
get_xy_url() (in schrodinger.application.desmond.gchart)	getNearestImages() (in PBC)	GuiApp (in schrodinger.application.desmond.gui)
get_xyz_from_frame() (in schrodinger.trajectory.rdf)	getNeedRebuildColorSchemes() (in ColorSchemeManager)	guide (in schrodinger.application.desmond)
get_y() (in TempAtom)	getNeighboringRings() (in AssignBondOrders)	Guide (in schrodinger.application.desmond.guide)
get_z() (in TempAtom)	getNeighborPBCBond() (in PBCBond)	guide (in schrodinger.application.mcpro)
getAbsolutePath() (in PhpProject)	getNeighbors() (in StructureAtom)	Guide (in schrodinger.application.mcpro.guide)
getAcceptor() (in InteractionAtomPair)	getNeighbors() (in AssignBondOrders)	GuiMap (in schrodinger.application.desmond.mdkey)
getAcceptorAtomicNumbers() (in AtomQueryParams)	getNeighborsObj() (in AssignBondOrders)	gvblmp2() (in schrodinger.application.jaguar.output)
getAccuracyAndInitialGuessKeywords() (in ScfTab)	getNeighborTypes() (in Grow)	GXG_DATA (in Mutator)
getAction() (in Factory)	getNewCell() (in Scaffold)	GXG_DATA_PRIME (in Mutator)
getActiveProcCounts() (in JobDJ)	getNewCellStructure() (in AmorphousCellBuilder)	gzip_it() (in Analysis)
getActiveRankCsvRows() (in Calculator)	getNewExecuteDirectory() (in TestScript)	gzip_open() (in schrodinger.trajectory.prody.writenmd)
getActivity() (in PhpProject)	getNewSolution() (in SimulatedAnnealing)