[ Identifiers | To Do | Deprecations ]

Identifier Index

[ A B C D E F G H I J K L M N O P Q R S T U V W X Y Z _ ]

R

r (in MaestroArrow)	removeResidues() (in ProteinAlignment)	resize() (in SwigUInt64Vector)
r (in MaestroSphere)	removeRow() (in CoordinatesModel)	resize() (in SwigUnsignedIntVector)
r (in MaestroTorus)	removeRow() (in CriteriaListModel)	resize() (in SwigUnsignedIntVector2)
r (in PhpExclVolSphere)	removeRowNumbers() (in ResiduesModel)	resize() (in SwigVectorIntIntPair)
r_ (in schrodinger.protein.assignment)	removeRows() (in SubTabModel)	resize_restr_block() (in _AtomGroup)
r_clone (in schrodinger.application.desmond.fepana)	removeRows() (in BasisSetModel)	resize_restr_block() (in schrodinger.application.desmond.mdkey)
R_GAS_CONSTANT (in MSEnergyGroupAnalysis)	removeRows() (in WidgetTable)	RESIZE_THRESHOLD (in schrodinger.ui.widgettable)
r_group (in schrodinger.application.canvas)	removeSelectedRow() (in WidgetTable)	resize_window() (in schrodinger.application.desmond.util)
r_group_asl (in schrodinger.application.desmond)	removeSelectedRows() (in SubTabTableView)	resize_window2() (in schrodinger.application.desmond.util)
r_group_dee (in schrodinger.application.canvas)	removeSelectedRows() (in WidgetTable)	resizeCells() (in WidgetTable)
rad2deg (in schrodinger.protein.assignment)	removeSeq() (in BaseAlignment)	resizeEvent() (in _StructView)
RADIAN_CONVERSION_FACTOR (in schrodinger.infra.mm)	removeSeq() (in AbstractMsvWidget)	resizeEvent() (in AbstractAlignmentView)
radians (in schrodinger.protein.assignment)	removeSeq() (in ProteinAlignment)	resizeEvent() (in DendrogramView)
RADICALS_FORCE_OFF (in _mmutil')	removeSeqByIndex() (in BaseAlignment)	resizeEvent() (in MM_QDockWidget)
RADICALS_FORCE_OFF (in schrodinger.utils.mmutil)	removeSeqByIndex() (in ProteinAlignment)	resizeEvent() (in MM_QLineEdit)
RADICALS_FORCE_ON (in _mmutil')	removeSeqs() (in BaseAlignment)	resizeEvent() (in SHView)
RADICALS_FORCE_ON (in schrodinger.utils.mmutil)	removeSphere() (in PhpExclVol)	resizeEvent() (in sketcher)
Radiobutton (in schrodinger.ui.widget.tkinterwidget)	removeSpheres() (in PhaseSphereMarkers)	resizeEvent() (in sketcherGUIMultiColumnToolBar)
RadiobuttonCell (in schrodinger.ui.widgettable)	removeStruct() (in collectionViewerModel)	resizeEvent() (in sketcherView)
RadiobuttonColumn (in schrodinger.ui.widgettable)	removeStructurelessResidues() (in ProteinSequence)	ResizeMode
RadioSelect (in schrodinger.ui.widget.pmwwidget)	removeSubalignment() (in BaseAlignment)	ResizeMode
radius (in Solvent)	removeSubalignment() (in ProteinAlignment)	resizeMode() (in QHeaderView)
RADIUS (in NanoTube)	removeSubTabMarker() (in SubTabMixin)	resKey() (in InteractionReader)
radius (in MaestroArrow)	removeTab() (in MSVTabWidget)	resnum (in ProteinSequenceAnnotations)
radius (in MaestroSphere)	removeTerminalAtoms() (in _StructureFragmenter)	resnum (in Cut)
radius (in MaestroTorus)	removeTerminalGaps() (in BaseAlignment)	resnum (in _Residue)
RadiusOfGyration (in schrodinger.trajectory.analysis)	removeTerminalGaps() (in ProteinSequence)	resnum (in _StructureAtom)
RAISE (in schrodinger.protein.assignment)	removeTerminalGaps() (in ProteinAlignment)	Resnum (in PickResidueColumns)
raise_main_window() (in schrodinger.maestro.maestro)	removeTolMarkers() (in PhaseMarkers)	ResnumDelegate (in schrodinger.application.msv.gui.delegates)
raise_voluptuous_exception() (in schrodinger.application.jaguar.reactiq_validation)	removeToolBar() (in ViewerWindow)	resolution (in _VDAxis)
rama (in schrodinger.ui)	REMOVETOOSOON (in _licensing')	resolution (in _VDCoordinateFrame)
Rama (in schrodinger.ui.rama)	REMOVETOOSOON (in schrodinger.infra.licensing)	RESOLUTION_DEFAULT (in schrodinger.graphics3d.arrow)
Ramachandran (in schrodinger.trajectory.analysis)	RemoveWaters (in schrodinger.application.bioluminate.pml_menus)	RESOLUTION_DEFAULT (in schrodinger.graphics3d.sphere)
raman_activity_precision (in NormalMode)	removeXvolMarkers() (in PhaseMarkers)	RESOLUTION_DEFAULT_U (in schrodinger.graphics3d.torus)
raman_intensity_precision (in NormalMode)	removeXvolMarkersWithIDs() (in PhaseMarkers)	RESOLUTION_DEFAULT_V (in schrodinger.graphics3d.torus)
RAMAN_ROW (in schrodinger.application.jaguar.gui.tabs.properties_tab)	Rename (in schrodinger.application.bioluminate.pml_menus)	RESOLUTION_MAX (in schrodinger.graphics3d.arrow)
RamanSubTab (in schrodinger.application.jaguar.gui.tabs.properties_tab)	rename() (in NewEntry)	RESOLUTION_MAX (in schrodinger.graphics3d.sphere)
ramp_colors (in Mapping)	rename() (in ProjectSurface)	RESOLUTION_MAX (in schrodinger.graphics3d.torus)
rand() (in schrodinger.protein.assignment)	rename() (in Surface)	RESOLUTION_MIN (in schrodinger.graphics3d.arrow)
randn() (in schrodinger.protein.assignment)	rename_atom_property() (in schrodinger.application.desmond.struc)	RESOLUTION_MIN (in schrodinger.graphics3d.sphere)
RANDOM_ALL_TO_ON_THE_FLY_THRESH (in ChannelDefinitions)	rename_cms_title() (in Analysis)	RESOLUTION_MIN (in schrodinger.graphics3d.torus)
RANDOM_INT_BOUND (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)	rename_tab_dialog_ui (in schrodinger.application.msv.gui)	resolve_atomsel() (in FcnCall)
random_rotation() (in schrodinger.application.matsci.amorphous)	renameCollection() (in BaseInteractiveEnumeration)	resolve_atomsel() (in Node)
RANDOM_SEED (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)	renameColorScheme() (in ColorSchemeManager)	resolve_atomsel() (in schrodinger.application.desmond.enhsamp)
RANDOM_SEED (in Constants)	renameProperty() (in schrodinger.infra.propedit)	resolve_links() (in schrodinger.application.combiglide.combenumdock)
random_shuffle() (in schrodinger.application.desmond.fep_mapping)	renameTab() (in MSVTabWidget)	resolve_paths() (in schrodinger.application.glide.packages.driver)
random_string() (in schrodinger.application.desmond.util)	renameTab() (in TabLabelContextMenu)	resolveCoordsConflict() (in OptimizationAndScanMixin)
RANDOM_TYPES_CHOICES (in Constants)	renameTabRequested() (in MSVTabWidget)	resolveMaskValue() (in PhpSiteMask)
randomize_st() (in schrodinger.application.desmond.fepdiff)	rend() (in stringvector)	resolveMatchLimits() (in PhpSiteMask)
randomlyRotate() (in MonteCarloMolecule)	rend() (in SwigDoubleVector)	RESONANCE (in TheoryTab)
randomlyTranslate() (in MonteCarloMolecule)	rend() (in SwigDoubleVector3)	RESOURCE_HAS_FUTURE_START (in schrodinger.application.licensing.licadmin)
RandVelFrame (in schrodinger.application.desmond.gui)	rend() (in SwigIntVector)	resource_id() (in schrodinger.test.performance.reporter)
range() (in Bitset)	rend() (in SwigStringVector)	RESOURCE_OK (in schrodinger.application.licensing.licadmin)
ranges (in schrodinger.infra.propedit)	rend() (in SwigUInt64Vector)	RESOURCE_PROBLEMS (in schrodinger.application.licensing.licadmin)
RANK_SELECTION (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)	rend() (in SwigUnsignedIntVector)	resource_summary() (in schrodinger.application.licensing.licadmin)
RAW_AFEP (in DesmondTyper)	rend() (in SwigUnsignedIntVector2)	RESOURCE_UNAVAILABLE (in schrodinger.application.licensing.licadmin)
raw_alignment() (in Atomsel)	rend() (in SwigVectorIntIntPair)	resources() (in schrodinger.application.licensing.licadmin)
RAW_FEP (in DesmondTyper)	rend() (in SwigDoubleVector)	resources_from_list() (in schrodinger.application.licensing.licadmin)
RAW_FEP (in McproTyper)	rend() (in SwigDoubleVector3)	resources_from_path() (in schrodinger.application.licensing.licadmin)
raw_filename (in DockingJobFilenameMixin)	rend() (in SwigIntVector)	respaBondChanged() (in IntegrationTab)
RAW_REGULAR (in DesmondTyper)	rend() (in SwigStringVector)	responsive() (in JobAPI)
RAW_REGULAR (in McproTyper)	rend() (in SwigUInt64Vector)	ResStats (in Packing)
RAW_REGULAR (in WatermapTyper)	rend() (in SwigUnsignedIntVector)	REST_DEFAULT_NUM_CPUS (in schrodinger.application.desmond.fep_gui)
RAW_SCORE_KEY (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)	rend() (in SwigUnsignedIntVector2)	REST_DEFAULT_NUM_GPUS (in schrodinger.application.desmond.fep_gui)
raw_suffix (in DockingJobFilenameMixin)	rend() (in SwigVectorIntIntPair)	rest_inp (in schrodinger.application.desmond)
raw_val (in Atom)	rend() (in SwigDoubleVector)	REST_MARKER (in schrodinger.application.desmond.rest_inp)
raw_val (in List)	rend() (in SwigDoubleVector3)	rest_tab_ui (in schrodinger.application.desmond)
raw_val (in Map)	rend() (in SwigIntVector)	RESTART (in schrodinger.application.desmond.starter.ui.cmdline)
Ray (in schrodinger.application.bioluminate.pml_menus)	rend() (in SwigStringVector)	restart (in GlideLauncher)
rbegin() (in stringvector)	rend() (in SwigUInt64Vector)	restart (in JaguarInput)
rbegin() (in SwigDoubleVector)	rend() (in SwigUnsignedIntVector)	restart (in JaguarOutput)
rbegin() (in SwigDoubleVector3)	rend() (in SwigUnsignedIntVector2)	RESTART (in schrodinger.application.macromodel.paraUtils)
rbegin() (in SwigIntVector)	rend() (in SwigVectorIntIntPair)	RESTART (in schrodinger.utils.cmdline)
rbegin() (in SwigStringVector)	rend() (in SwigDoubleVector)	restart() (in RetryTimer)
rbegin() (in SwigUInt64Vector)	rend() (in SwigIntVector)	Restart() (in schrodinger.pipeline.pipeline)
rbegin() (in SwigUnsignedIntVector)	rend() (in SwigSizetVector)	restart() (in StageJob)
rbegin() (in SwigUnsignedIntVector2)	rend() (in SwigStringVector)	Restart() (in schrodinger.pipeline.stage)
rbegin() (in SwigVectorIntIntPair)	rend() (in SwigVectorDoubleVector)	restart() (in schrodinger.utils.maestro11)
rbegin() (in SwigDoubleVector)	rend() (in SwigVectorIntVector)	RESTART_DEFAULT_JOBNAME (in schrodinger.application.matsci.jobutils)
rbegin() (in SwigDoubleVector3)	rend() (in SwigVectorSizetVector)	restart_for_backend_error() (in JobErrorHandler)
rbegin() (in SwigIntVector)	rend() (in SwigVectorStringVector)	restart_for_backend_error() (in FepJob)
rbegin() (in SwigStringVector)	rend() (in DoubleDoubleList)	restart_name() (in schrodinger.application.jaguar.output)
rbegin() (in SwigUInt64Vector)	rend() (in DoubleList)	RESTART_PARAMETERS_FILENAME (in schrodinger.application.matsci.jobutils)
rbegin() (in SwigUnsignedIntVector)	rend() (in StringList)	RESTART_PROGRAM_NAME (in schrodinger.application.matsci.jobutils)
rbegin() (in SwigUnsignedIntVector2)	rend() (in SwigAtomList)	restart_re (in schrodinger.application.jaguar.output)
rbegin() (in SwigVectorIntIntPair)	rend() (in SwigAtomPairList)	restart_subjobs() (in StageBase)
rbegin() (in SwigDoubleVector)	rend() (in SwigAtomPairWithValueList)	restart_subjobs() (in FepLauncher)
rbegin() (in SwigDoubleVector3)	rend() (in SwigAtomQueryParamsList)	restart_subjobs() (in LambdaHopping)
rbegin() (in SwigIntVector)	rend() (in SwigDcNonPbcAtomIdxList)	restart_subjobs() (in Multisim)
rbegin() (in SwigStringVector)	rend() (in SwigDcPbcAtomList)	restart_subjobs() (in Simulate)
rbegin() (in SwigUInt64Vector)	rend() (in SwigPiCationList)	restart_suffix (in DockingDriver)
rbegin() (in SwigUnsignedIntVector)	rend() (in SwigPiPiInteractionList)	RESTARTING (in schrodinger.pipeline.pipeline)
rbegin() (in SwigUnsignedIntVector2)	rend() (in SwigRingList)	RESTFEPConfigDialog (in schrodinger.application.desmond.fep_gui)
rbegin() (in SwigVectorIntIntPair)	rend() (in SwigSaltBridgeList)	RestInput (in schrodinger.application.desmond.rest_inp)
rbegin() (in SwigDoubleVector)	rend() (in SwigDoubleVector)	restore() (in Rotamers)
rbegin() (in SwigIntVector)	rend() (in SwigDoubleVector3)	restore_cursor() (in schrodinger.application.bioluminate.pml_menus)
rbegin() (in SwigSizetVector)	rend() (in SwigIntVector)	restore_stages() (in Engine)
rbegin() (in SwigStringVector)	rend() (in SwigStringVector)	restore_workspace() (in EditDialog)
rbegin() (in SwigVectorDoubleVector)	rend() (in SwigUInt64Vector)	restore_zobs() (in ProtAssign)
rbegin() (in SwigVectorIntVector)	rend() (in SwigUnsignedIntVector)	restoreCurrentColorScheme() (in ColorSchemeManager)
rbegin() (in SwigVectorSizetVector)	rend() (in SwigUnsignedIntVector2)	restoreCursor() (in ItemRow)
rbegin() (in SwigVectorStringVector)	rend() (in SwigVectorIntIntPair)	restoreCursor() (in NewJobDirFrame)
rbegin() (in DoubleDoubleList)	rend() (in StringStringMap)	restoreCursor() (in CredentialsDialogShell)
rbegin() (in DoubleList)	RenderFlag	restoreIonCenterProps() (in Ionizer)
rbegin() (in StringList)	RenderFlags	restoreLabelOptions() (in WorkspaceLabeler)
rbegin() (in SwigAtomList)	renderSurface() (in SurfaceRender)	restoreMasterData() (in PhpProject)
rbegin() (in SwigAtomPairList)	renotifySelection() (in AbstractAlignmentView)	restorePreviouslyIncludedEntry() (in ReadEditMixin)
rbegin() (in SwigAtomPairWithValueList)	renumber_conformer() (in schrodinger.structutils.rmsd)	restoreSplitterState() (in MM_MaestroSettings)
rbegin() (in SwigAtomQueryParamsList)	renumberAtomLists() (in NanoTubeSheet)	RestoreTitlesStage (in schrodinger.pipeline.stages.gencodes)
rbegin() (in SwigDcNonPbcAtomIdxList)	renumberByMolecule() (in FixForPrime)	restr_grp_selector() (in schrodinger.application.desmond.mdkey)
rbegin() (in SwigDcPbcAtomList)	renumberBySymmetry() (in ConformerRmsdX)	Restrain (in schrodinger.application.desmond.cms)
rbegin() (in SwigPiCationList)	renumberBySymmetry() (in ConformerRmsd)	restraint() (in _FFIO)
rbegin() (in SwigPiPiInteractionList)	renumberWorkingStructures() (in ConformerRmsdX)	restraint_builtin_prop (in schrodinger.trajectory.ffstructure)
rbegin() (in SwigRingList)	renumberWorkingStructures() (in ConformerRmsd)	RestraintsTab (in schrodinger.application.desmond.gui)
rbegin() (in SwigSaltBridgeList)	reorder (in schrodinger.application.desmond.packages.msys)	restrictByChains() (in DataModelWithChart)
rbegin() (in SwigDoubleVector)	reorder (in schrodinger.application.matsci)	Restricted (in SpinTreatment)
rbegin() (in SwigDoubleVector3)	REORDER (in ParserWrapper)	RestrictSelection (in schrodinger.application.bioluminate.pml_menus)
rbegin() (in SwigIntVector)	Reorder() (in schrodinger.application.desmond.packages.msys.reorder)	RestrictSubMenu (in schrodinger.application.bioluminate.pml_menus)
rbegin() (in SwigStringVector)	reorder_atom (in schrodinger.application.desmond)	RestrictToInorganic (in schrodinger.application.bioluminate.pml_menus)
rbegin() (in SwigUInt64Vector)	reorder_atom() (in schrodinger.application.desmond.reorder_atom)	RestrictToOrganic (in schrodinger.application.bioluminate.pml_menus)
rbegin() (in SwigUnsignedIntVector)	reorder_atoms() (in schrodinger.application.desmond.fep_mapping)	RestrictToPolymer (in schrodinger.application.bioluminate.pml_menus)
rbegin() (in SwigUnsignedIntVector2)	reorder_atoms() (in schrodinger.structutils.build)	RestrictToSolvent (in schrodinger.application.bioluminate.pml_menus)
rbegin() (in SwigVectorIntIntPair)	reorder_improper() (in schrodinger.application.desmond.fepdiff)	RestrictToVisible (in schrodinger.application.bioluminate.pml_menus)
rbegin() (in StringStringMap)	reorder_protein_atoms_by_sequence() (in schrodinger.structutils.build)	restToggled() (in DesmondApp)
RCE (in schrodinger.application.macromodel.input)	reorder_solute() (in WaterMapInput)	result_server_option() (in schrodinger.tasks.jobtasks)
RCE_SPECS (in schrodinger.application.macromodel.input)	reorder_st() (in schrodinger.application.desmond.fep_mapping)	ResultReporter
rdf (in schrodinger.trajectory)	reorder_tuple() (in schrodinger.application.desmond.fepdiff)	Results (in DataPointLocator)
rdf_backend (in schrodinger.trajectory)	ReorderAtomFrame (in schrodinger.application.matsci.reordergui)	results (in schrodinger.application.jaguar)
RDFException (in schrodinger.trajectory.rdf)	ReorderAtomPanel (in schrodinger.application.matsci.reordergui)	Results (in schrodinger.application.matsci.jaguarworkflows)
re_comment (in _ParseRulesFile)	ReorderAtomsDialog (in schrodinger.application.matsci.reordergui)	results (in MopacLauncher)
re_d (in _ParseRulesFile)	reorderColorSchemes() (in ColorSchemeManager)	results (in MopacLauncher2012)
re_def (in _ParseRulesFile)	reordergui (in schrodinger.application.matsci)	results (in MopacLauncher71)
re_def_name (in _ParseRulesFile)	reordering (in RowOrder)	Results (in schrodinger.protein.reliability)
re_obl (in _ParseRulesFile)	reorderResidues() (in proteinHandler)	results2012 (in schrodinger.application.mopac)
re_ok (in _ParseRulesFile)	reorderRow() (in AnnotationProxyModel)	results71 (in schrodinger.application.mopac)
re_okm (in _ParseRulesFile)	reorderRow() (in DragAndDropReorderingProxy)	results_window (in schrodinger.application.bioluminate.pml_menus)
re_str (in schrodinger.infra.propedit)	reorderRow() (in PostReorderingProxyMixin)	ResultsWindow (in schrodinger.application.bioluminate.pml_menus)
REACTANT (in MultiStructureTab)	reorderRow() (in ViewModel)	RESVFOROTHERS (in _licensing')
REACTANT (in ParserWrapper)	REP_TYPE_KEY (in schrodinger.application.matsci.coarsegrain)	RESVFOROTHERS (in schrodinger.infra.licensing)
REACTANT_LIKE (in ParserWrapper)	repair_box_vector() (in schrodinger.application.desmond.repair_cms)	RETAIN_ALL (in schrodinger.infra.mm)
REACTANT_NAME_BASE (in CheckInput)	repair_cms (in schrodinger.application.desmond)	RETAIN_ONLY_SELECTED_MENU_ITEM (in schrodinger.application.combiglide.combenumdock)
REACTANT_PREFIX (in schrodinger.application.jaguar.gui.tabs.reaction_molecules_tab)	REPLACE (in ProjectDisposition)	RETAIN_ONLY_STRUCTURE_MENU_ITEM (in schrodinger.application.combiglide.combenumdock)
ReactantMolecule (in schrodinger.application.matsci.rxn_channel.rxn_channel)	REPLACE (in schrodinger.project)	retranslateUi() (in Ui_Form)
REACTANTPREFIX (in ReactionCoords)	replace() (in TokenRewriteStream)	retranslateUi() (in Ui_Form)
Reactants (in schrodinger.application.matsci.rxn_channel.rxn_channel)	replace_coords_with_zmat() (in schrodinger.application.matsci.zmutils)	retranslateUi() (in glidePrecisionDialog)
reaction_molecules_tab (in schrodinger.application.jaguar.gui.tabs)	replace_output_logger_stream() (in schrodinger.test.ioredirect)	retranslateUi() (in Ui_Widget)
reaction_molecules_tab_ui (in schrodinger.application.jaguar.gui.ui)	replace_slot() (in schrodinger.application.bioluminate.actions.factory)	retranslateUi() (in Ui_Dialog)
reaction_properties_tab (in schrodinger.application.jaguar.gui.tabs)	replaceAllElements() (in Sequence)	retranslateUi() (in Ui_Dialog)
reaction_properties_tab_ui (in schrodinger.application.jaguar.gui.ui)	replaceChildren() (in DebugTreeAdaptor)	retranslateUi() (in Ui_Widget)
reaction_tab (in schrodinger.application.jaguar.gui.tabs)	replaceChildren() (in BaseTree)	retranslateUi() (in Ui_Dialog)
reaction_tab_ui (in schrodinger.application.jaguar.gui.ui)	replaceChildren() (in CommonTreeAdaptor)	retranslateUi() (in Ui_Form)
REACTIONANGLETHRESH (in ReactionCoords)	replaceChildren() (in CommonTreeNodeStream)	retranslateUi() (in Ui_Form)
REACTIONBONDTHRESH (in ReactionCoords)	replaceChildren() (in Tree)	retranslateUi() (in Ui_Dialog)
ReactionCoords (in schrodinger.application.matsci.rxn_path)	replaceChildren() (in TreeAdaptor)	retranslateUi() (in Ui_MainWindow)
REACTIONDIHEDRALTHRESH (in ReactionCoords)	replaceChildren() (in TreeNodeStream)	retranslateUi() (in Ui_Widget)
ReactionMoleculesTab (in schrodinger.application.jaguar.gui.tabs.reaction_molecules_tab)	replaceIDsWithDots() (in AbstractMsvWidget)	retranslateUi() (in Ui_Form)
ReactionParticipant (in schrodinger.application.jaguar.gui.tabs.reaction_tab)	ReplaceOp (in schrodinger.application.desmond.antlr3.streams)	retranslateUi() (in Ui_Form)
reactionParticipantAdded() (in ReactionTab)	replaceResiduesWithGaps() (in BaseAlignment)	retranslateUi() (in Ui_Form)
reactionParticipantRemoved() (in ReactionTab)	replaceSeq() (in BaseAlignment)	retranslateUi() (in Ui_Form)
reactionParticipantStructChanged() (in ReactionTab)	replaceSeq() (in ProteinAlignment)	retranslateUi() (in Ui_Form)
ReactionPath (in schrodinger.application.matsci.rxn_path)	replaceSubalignment() (in BaseAlignment)	retranslateUi() (in Ui_Form)
ReactionPropertiesTab (in schrodinger.application.jaguar.gui.tabs.reaction_properties_tab)	replaceSubalignment() (in ProteinAlignment)	retranslateUi() (in Ui_Form)
ReactionTab (in schrodinger.application.jaguar.gui.tabs.reaction_tab)	replica_container (in schrodinger.application.desmond.replica_dE)	retranslateUi() (in Ui_Form)
reactiq (in schrodinger.test.stu.outcomes.custom)	replica_dE (in schrodinger.application.desmond)	retranslateUi() (in Ui_Form)
reactiq_input (in schrodinger.application.jaguar)	replica_energy (in schrodinger.application.desmond.replica_dE)	retranslateUi() (in Ui_Form)
reactiq_input_constants (in schrodinger.application.jaguar)	replica_exchange_review (in schrodinger.application.desmond)	retranslateUi() (in Ui_Form)
reactiq_keywords (in schrodinger.application.jaguar)	replica_name() (in schrodinger.application.desmond.report_helper)	retranslateUi() (in Ui_Form)
REACTIQ_KEYWORDS (in schrodinger.application.jaguar.reactiq_keywords)	replica_sid_generator (in schrodinger.application.desmond)	retranslateUi() (in Ui_Form)
REACTIQ_MAIN (in _licensing')	ReplicaExchange	retranslateUi() (in Ui_Form)
REACTIQ_MAIN (in schrodinger.infra.licensing)	replicas_monitor (in schrodinger.application.desmond.replica_dE)	retranslateUi() (in Ui_Form)
reactiq_validation (in schrodinger.application.jaguar)	replot() (in SliderPlot)	retranslateUi() (in Ui_Form)
ReactiqConservationError (in schrodinger.application.jaguar.reactiq_validation)	replotChart() (in MultiReportWithChart)	retranslateUi() (in Ui_Form)
ReactiqInput (in schrodinger.application.jaguar.reactiq_input)	repopulateSearchAlongCombo() (in TransitionStateMixin)	retranslateUi() (in Ui_Form)
ReactiqKeyword (in schrodinger.application.jaguar.reactiq_keywords)	Report (in schrodinger.protein.analysis)	retranslateUi() (in Ui_Form)
ReactiqKeywordConflictError (in schrodinger.application.jaguar.reactiq_validation)	report (in PerformanceTestCase)	retranslateUi() (in Ui_Form)
ReactiqKeywordError (in schrodinger.application.jaguar.reactiq_validation)	report() (in Calculator)	retranslateUi() (in Ui_Form)
ReactiqKeywordException (in schrodinger.application.jaguar.reactiq_validation)	report() (in FEPEdgeReportMaker)	retranslateUi() (in Ui_Form)
ReactiqKeywordFormatError (in schrodinger.application.jaguar.reactiq_validation)	report() (in FEPReportMaker)	retranslateUi() (in Ui_Form)
ReactiqKeywordValueError (in schrodinger.application.jaguar.reactiq_validation)	report() (in data_set)	retranslateUi() (in Ui_Form)
ReactiqKeywordValueTypeError (in schrodinger.application.jaguar.reactiq_validation)	report() (in schrodinger.protein.assignment)	retranslateUi() (in Ui_Form)
REACTIVEATOM (in ReactionPath)	report() (in Test)	retranslateUi() (in Ui_Widget)
reactWith() (in ReactantMolecule)	report() (in ResultReporter)	retranslateUi() (in Ui_Form)
read() (in PatchFinder)	report2d (in schrodinger.application)	retranslateUi() (in Ui_Form)
read() (in _ParseRulesFile)	Report2D (in schrodinger.application.report2d)	retranslateUi() (in Ui_Form)
read() (in SeqFile)	report_add_logo() (in schrodinger.application.desmond.report_helper)	retranslateUi() (in Ui_ColorEditor)
read() (in StkFile)	report_add_ms_logo() (in schrodinger.application.desmond.report_helper)	retranslateUi() (in Ui_GetSequencesDialog)
read() (in SystemBuilderInput)	report_data_points() (in data_set)	retranslateUi() (in Ui_Form)
read() (in ReadEditMixin)	report_helper (in schrodinger.application.desmond)	retranslateUi() (in Ui_MainWindow)
read() (in schrodinger.application.jaguar.input)	REPORT_LEVELS (in FEPEdgeReportMaker)	retranslateUi() (in Ui_Dialog)
read() (in ReactiqInput)	report_results() (in schrodinger.test.performance.reporter)	retranslateUi() (in Ui_Form)
read() (in BaseProteinAlignmentReader)	report_t() (in SimulatedAnnealing)	retranslateUi() (in Ui_Dialog)
read() (in ClustalAlignmentReader)	report_total_usage() (in schrodinger.application.licensing.lmgrd_log_parser)	retranslateUi() (in Ui_Form)
read() (in FastaAlignmentReader)	report_usage() (in schrodinger.application.licensing.lmgrd_log_parser)	retranslateUi() (in Ui_Form)
read() (in istream)	reportCpuTime() (in CombinedDriver)	retranslateUi() (in Ui_Dialog)
read() (in istream)	reportCpuTime() (in DockingDriver)	retranslateUi() (in Ui_Dialog)
read() (in istream)	Reporter	retranslateUi() (in Ui_Form)
read() (in schrodinger.job.jobcontrol)	reporter (in schrodinger.test.performance)	retranslateUi() (in Ui_Dialog)
read() (in MaestroReader)	reportError() (in DebugParser)	retranslateUi() (in Ui_Dialog)
read() (in Structure)	reportError() (in BaseRecognizer)	retranslateUi() (in Ui_Dialog)
read() (in ProjectSurface)	reportError() (in Lexer)	RETRIABLE_FAILURE (in JobStatus)
read() (in Surface)	reportError() (in mexpLexer)	RETRIES (in schrodinger.application.desmond.starter.ui.cmdline)
read() (in istream)	reportError() (in mexpParser)	RETRIES (in schrodinger.utils.cmdline)
read_all_ct() (in schrodinger.application.desmond.struc)	reportFinalResults() (in FEPReportMaker)	retrieve() (in TestClient)
read_atomtype() (in Packing)	ReportFrame (in schrodinger.application.bioluminate.protein_report_widget)	retrieve_ent() (in schrodinger.protein.getpdb)
read_cfg() (in FEPSimulationReport)	reportinfo() (in ExecutableTest)	retrieve_frame() (in Source)
read_cluster_file() (in WaterMapAnaJob)	reportLigandsDetails() (in FEPReportMaker)	retrieve_license_file() (in schrodinger.application.licensing.netsuiteapi)
read_cms() (in schrodinger.application.desmond.packages.topo)	reportParameters() (in Pipeline)	retrieve_pdb() (in schrodinger.protein.getpdb)
read_cms() (in FEPSimulationReport)	reportParameters() (in Stage)	retry_http_basic_auth() (in ProxyBasicAuthHandler)
read_cms() (in schrodinger.trajectory.cmsstructure)	reportProteinDetails() (in FEPReportMaker)	retry_http_digest_auth() (in ProxyDigestAuthHandler)
read_constraints() (in schrodinger.application.glide.glide)	reportReplicaExchanges() (in FEPReportMaker)	retry_interval() (in RetryTimer)
read_constraints_file() (in PIPERConstraint)	reportReplicaPairEnergies() (in FEPReportMaker)	RETRY_INTERVAL_BASE (in RetryTimer)
read_csv() (in EnsembleSelection)	reportSet() (in ProteinReportCheck)	retryFailure() (in RobustSubmissionJob)
read_csv() (in schrodinger.test.canvas_utils)	reportSimulationDetails() (in FEPReportMaker)	retryFailure() (in JobControlJob)
read_ct() (in schrodinger.structure)	reportValidation() (in TaskRunner)	RetryTimer (in schrodinger.application.desmond.cmj)
read_data_from_CT() (in ModelCheck)	reposition() (in _ScrolledDouble)	return_codes (in schrodinger.infra.mm)
read_data_from_log_file() (in schrodinger.application.desmond.replica_exchange_review)	repr_failure() (in ExecutableTest)	return_codes (in schrodinger.infra.mmgpgpu)
read_dE_file() (in schrodinger.application.desmond.fepana)	REPRESENTATIVE (in CanvasFingerprintClusterGUI)	return_codes (in schrodinger.infra.mmjob)
read_dE_file() (in schrodinger.test.stu.outcomes.desmond_workups)	rept_file_ext (in Calculator)	return_codes (in schrodinger.infra.mmproj)
read_dE_Replicas() (in replica_container)	REPULSION (in PIPERConstraint)	return_codes (in schrodinger.infra.mmreflect)
read_density_from_eaf() (in schrodinger.application.matsci.desmondutils)	request (in schrodinger.application.desmond.ana)	return_codes (in schrodinger.infra.mmsurf)
read_exp_dg() (in EnsembleSelection)	REQUEST_TIMEOUT (in schrodinger.job.jobapi)	return_if_url_fails (in schrodinger.utils.documentation)
read_FEP_REST_energetics() (in FEPReportMaker)	requestCpus() (in Pipeline)	ReturnCode (in schrodinger.infra.mmcheck)
read_FEPSimulation() (in FEPReportMaker)	requestHelpInfoSignal() (in sketcherScene)	retype() (in Structure)
read_fragbox() (in Packing)	requestUndoStackClear() (in AbstractStructureModel)	retype() (in _StructureAtom)
read_fragment() (in Packing)	require_argument() (in schrodinger.job.hunt_stub)	REVERSE_INTERPOLATION (in ParserWrapper)
read_frame() (in _FepTrajectory)	require_display (in schrodinger.test.test_markers)	reverse_iter() (in LinkedList)
read_idx_file() (in schrodinger.trajectory.cmsstructure)	require_product() (in schrodinger.test.test_markers)	revert() (in EditDialog)
read_keys() (in schrodinger.utils.ligfilter)	requireApiKey() (in TestUtility)	revert() (in MMlic3AutoExitOverride)
read_keywords_file() (in schrodinger.application.glide.glide)	required_datanames (in Lattice)	revert_to_original() (in Rama)
read_license_file() (in schrodinger.application.licensing.flexlm)	REQUIRED_GRID_EXTS (in schrodinger.application.glide.packages.startup)	revert_to_saved() (in Rama)
read_LigandInfo() (in FEPReportMaker)	REQUIRED_MAJOR_VERSION (in schrodinger.application.licensing.licadmin)	revertCollection() (in BaseInteractiveEnumeration)
read_meta_cfg() (in schrodinger.application.desmond.meta)	REQUIRED_MINOR_VERSION (in schrodinger.application.licensing.licadmin)	revertCombLib() (in BaseInteractiveEnumeration)
read_mode (in CMSReader)	requiredProduct() (in Stage)	revertInitialRunParams() (in WriteInputs)
read_mode (in MaestroReader)	requiredProductRuntime() (in Stage)	reviseDatabase() (in PhpProject)
read_mode (in MaestroTextReader)	requirement (in LocalhostJob)	reviseIonizedGroup() (in Ionizer)
read_only (in ProjectRow)	requirement (in RequirementsJob)	REVOLUTION (in ReactionCoords)
read_output (in schrodinger.application.mcpro)	RequirementsJob (in schrodinger.job.queue)	REVOLUTIONTHRESH (in ReactionCoords)
read_pidfile() (in schrodinger.job.jserver_client)	requires_energy() (in _KeywordProcessor)	rewind() (in DebugEventListener)
read_prob() (in Packing)	requires_structure_model() (in schrodinger.application.msv.io.structure_model)	rewind() (in DebugEventSocketProxy)
read_prop_by_title() (in schrodinger.test.stu.outcomes.correlate_to_reference_file)	reroot() (in schrodinger.application.desmond.reorder_atom)	rewind() (in DebugTokenStream)
read_ProteinInfo() (in FEPReportMaker)	res (in schrodinger.protein.analysis)	rewind() (in ANTLRStringStream)
read_pw() (in schrodinger.test.canvas_utils)	res (in schrodinger.protein.analysis_params)	rewind() (in CommonTokenStream)
read_readme() (in TestScript)	res1 (in DisulfideBond)	rewind() (in IntStream)
read_REST_exchanges() (in FEPReportMaker)	res2 (in DisulfideBond)	rewind() (in CommonTreeNodeStream)
read_stats() (in Packing)	res_can_be_capped() (in schrodinger.protein.captermini)	rewrite() (in ChmCSVTools)
read_text() (in SystemBuilderInput)	RES_FONT_TEXT (in schrodinger.application.msv.gui.delegates)	rewriteByIndex() (in ChmCSVTools)
read_traj() (in schrodinger.application.desmond.packages.traj)	RES_RE (in ModelCheck)	rewriteByName() (in ChmCSVTools)
read_trj_idx_file() (in schrodinger.trajectory.analyze_trajectories)	res_str() (in schrodinger.trajectory.proteininteractionsfinder)	RewriteCardinalityException (in schrodinger.application.desmond.antlr3.tree)
read_unique_field() (in schrodinger.pipeline.pipeutils)	RES_TO_IGNORE (in SaltBridgeFinder)	RewriteEarlyExitException (in schrodinger.application.desmond.antlr3.tree)
read_yaml() (in schrodinger.application.glide.glide)	res_type (in schrodinger.protein.analysis)	RewriteEmptyStreamException (in schrodinger.application.desmond.antlr3.tree)
read_zmat() (in Zmat)	res_type (in schrodinger.protein.analysis_params)	RewriteOperation (in schrodinger.application.desmond.antlr3.streams)
readActionSelected() (in GuiApp)	RES_TYPE_COLORS (in schrodinger.application.msv.gui.color)	RewriteRuleElementStream (in schrodinger.application.desmond.antlr3.tree)
readAgain() (in Job)	RES_TYPES (in Patch)	RewriteRuleNodeStream (in schrodinger.application.desmond.antlr3.tree)
readAndRun() (in PreAnalyzer)	RESCALE (in schrodinger.application.desmond.fep_edge_report_maker)	RewriteRuleSubtreeStream (in schrodinger.application.desmond.antlr3.tree)
readColorRampFile() (in MM_ColorRamp)	RESCALE (in schrodinger.application.desmond.fep_scholar_util)	RewriteRuleTokenStream (in schrodinger.application.desmond.antlr3.tree)
readColorSchemeFile() (in ColorSchemeManager)	rescale_ff() (in schrodinger.application.desmond.remd)	rgb (in schrodinger.application.bioluminate.pml_menus)
readCommand() (in GuiApp)	rescale_ff_solute_tempering() (in schrodinger.application.desmond.remd)	rgb (in schrodinger.application.phase.constants)
ReadCrdCoordinates() (in schrodinger.application.desmond.packages.msys)	resCapped() (in CapTermini)	rgb_float (in Color)
readData() (in schrodinger.infra.propedit)	rescode (in Residue)	RGroupException (in schrodinger.application.canvas.r_group)
readDb() (in JoiningRules)	RescodeAligner (in schrodinger.application.msv.domain.align)	RGroupFinder (in schrodinger.application.canvas.r_group)
ReadDialog (in schrodinger.ui.appframework)	RescodeDelegate (in schrodinger.application.msv.gui.delegates)	RGroupStructureToolTip (in schrodinger.application.matsci.builderwidgets)
ReadEditMixin (in schrodinger.application.jaguar.gui.base_panel)	ResData (in schrodinger.application.bioluminate.patch_utils.patch_finder)	rhl1() (in HighSymmetryKPath)
Reader (in SeqFile)	ResData (in schrodinger.application.desmond.fep_edge_data)	rhl2() (in HighSymmetryKPath)
Reader (in StkFile)	RESELECT_CURRENT_TEMPLATE (in schrodinger.application.matsci.builderwidgets)	RIBBON_RAINBOW_COLORS (in schrodinger.application.bioluminate.pml_menus)
readFile() (in Adduct)	reserve() (in stringvector)	RIBBON_SCHEME (in ShowCartoon)
readFile() (in JoiningRules)	reserve() (in SwigDoubleVector)	RIBBON_SCHEME (in ShowCartoonOrRibbon)
readFile() (in Substrate)	reserve() (in SwigDoubleVector3)	RIBBON_SCHEME (in ShowRibbon)
readFile() (in Pipeline)	reserve() (in SwigIntVector)	RIBBON_STYLE (in schrodinger.application.bioluminate.pml_menus)
ReadFileDialog (in schrodinger.application.jaguar.gui.filedialog)	reserve() (in SwigStringVector)	right() (in WidgetTable)
readFilterCriteria() (in LigfilterFrame)	reserve() (in SwigUInt64Vector)	RIGHT_ANGLE (in CheckInput)
readFragmentLibrary() (in Ionizer)	reserve() (in SwigUnsignedIntVector)	RIGHT_CLICK_CALLBACK (in schrodinger.maestro.maestro)
readFromIndex() (in StructureFileReader)	reserve() (in SwigUnsignedIntVector2)	right_click_callback_add() (in schrodinger.maestro.maestro)
readFromOffset() (in MaestroReader)	reserve() (in SwigVectorIntIntPair)	right_click_callback_remove() (in schrodinger.maestro.maestro)
readFromText() (in FastaAlignmentReader)	reserve() (in SwigDoubleVector)	right_click_handler() (in schrodinger.application.phase.phase_markers)
readJobsFromDatabase() (in NewJobDirFrame)	reserve() (in SwigDoubleVector3)	right_shift (in schrodinger.protein.assignment)
README2TEST (in schrodinger.test.stu.testscripts)	reserve() (in SwigIntVector)	rightButton() (in sketcherScene)
READMESyntaxError (in schrodinger.test.stu.testscripts)	reserve() (in SwigStringVector)	rigidify_geo_vars() (in Zmat)
readNewFormat() (in Pipeline)	reserve() (in SwigUInt64Vector)	ring (in TextualStructure)
readNewFormatStage() (in Pipeline)	reserve() (in SwigUnsignedIntVector)	ring() (in Structure)
readNewFormatVariable() (in Pipeline)	reserve() (in SwigUnsignedIntVector2)	ring_atoms() (in SchrodStruc)
readNext() (in StructureFileReader)	reserve() (in SwigVectorIntIntPair)	ring_atoms() (in Struc)
ReadPDBCoordinates() (in schrodinger.application.desmond.packages.msys)	reserve() (in SwigDoubleVector)	RING_MUTATION (in schrodinger.application.desmond.fep_gui)
readRulesFromFile() (in MM_CScheme)	reserve() (in SwigDoubleVector3)	ringbondcount() (in AnnotatedSystem)
readSequences() (in MMSequenceConverter)	reserve() (in SwigIntVector)	rings() (in AnnotatedSystem)
readSpecFile() (in Ionizer)	reserve() (in SwigStringVector)	ringspear (in schrodinger.structutils)
readStateDict() (in SubjobState)	reserve() (in SwigUInt64Vector)	rint (in schrodinger.protein.assignment)
readStereoChemistry() (in sketcherBond)	reserve() (in SwigUnsignedIntVector)	rmKwargs() (in Property)
readTemplateStructure() (in SketcherBox)	reserve() (in SwigUnsignedIntVector2)	RMS_DISPLACEMENT (in schrodinger.application.matsci.mecp_mod)
readValueList() (in SubSetStage)	reserve() (in SwigVectorIntIntPair)	RMS_FORCE (in schrodinger.application.matsci.mecp_mod)
READY (in Status)	reserve() (in SwigDoubleVector)	RMSD (in schrodinger.application.desmond.mdpose.mdpose_analysis)
readyToRun() (in StageJob)	reserve() (in SwigIntVector)	rmsd (in schrodinger.application.jaguar)
REAL (in schrodinger.application.jaguar.validation)	reserve() (in SwigSizetVector)	rmsd (in schrodinger.application.vsw.stages)
real_to_int() (in schrodinger.application.desmond.gconfig)	reserve() (in SwigStringVector)	rmsd (in schrodinger.pipeline.stages)
RealSpaceFit (in schrodinger.protein._reliability)	reserve() (in SwigVectorDoubleVector)	rmsd (in schrodinger.structutils)
reassignHets() (in FixForPrime)	reserve() (in SwigVectorIntVector)	RMSD (in schrodinger.trajectory.analysis)
reassignResNums() (in FixForPrime)	reserve() (in SwigVectorSizetVector)	rmsd() (in schrodinger.test.stu.outcomes.structure_comparisons)
rebuild_scripts_menu() (in schrodinger.maestro.maestro)	reserve() (in SwigVectorStringVector)	rmsd2d (in schrodinger.trajectory)
rebuild_workflows_menu() (in schrodinger.maestro.maestro)	reserve() (in DoubleDoubleList)	rmsd_comb() (in EnsembleSelection)
recalc() (in _StructureChainIterator)	reserve() (in DoubleList)	rmsd_in_place() (in schrodinger.test.stu.outcomes.structure_comparisons)
recalc() (in _StructureMoleculeIterator)	reserve() (in StringList)	RMSDCalculator (in schrodinger.trajectory.rmsd2d)
recalc() (in _StructureRingIterator)	reserve() (in SwigAtomList)	RMSDMultiprocessing (in schrodinger.trajectory.rmsd2d)
recap_cap (in schrodinger.infra.mm)	reserve() (in SwigAtomPairList)	RmsdStage (in schrodinger.pipeline.stages.rmsd)
RECAP_ERR (in schrodinger.infra.mm)	reserve() (in SwigAtomPairWithValueList)	RMSDSyntax (in schrodinger.application.desmond.enhanced_sampling.FcnTypes)
recap_maps (in schrodinger.infra.mm)	reserve() (in SwigAtomQueryParamsList)	RMSDThreading (in schrodinger.trajectory.rmsd2d)
RECAP_OK (in schrodinger.infra.mm)	reserve() (in SwigDcNonPbcAtomIdxList)	RMSF (in schrodinger.trajectory.analysis)
RECAP_PATTERNS (in schrodinger.structutils.createfragments)	reserve() (in SwigDcPbcAtomList)	RMSF_PROPERTY (in schrodinger.application.desmond.mdpose.mdpose_average_structure)
recap_prepare (in schrodinger.infra.mm)	reserve() (in SwigPiCationList)	RobustSubmissionJob (in schrodinger.application.matsci.jaguarworkflows)
RECAP_PROP_PREFIX (in schrodinger.structutils.createfragments)	reserve() (in SwigPiPiInteractionList)	rock_data (in schrodinger.application.bioluminate.pml_menus)
recap_reset (in schrodinger.infra.mm)	reserve() (in SwigRingList)	rock_workspace() (in schrodinger.application.bioluminate.pml_menus)
recap_uncap (in schrodinger.infra.mm)	reserve() (in SwigSaltBridgeList)	RockData (in schrodinger.application.bioluminate.pml_menus)
receivers() (in MM_Project)	reserve() (in SwigDoubleVector)	ROLE_ACTIVE (in schrodinger.infra.phase)
receivers() (in RowModel)	reserve() (in SwigDoubleVector3)	ROLE_HYPO (in schrodinger.infra.phase)
receivers() (in DendrogramGraphicNode)	reserve() (in SwigIntVector)	ROLE_INACTIVE (in schrodinger.infra.phase)
receivers() (in DendrogramGraphicTree)	reserve() (in SwigStringVector)	ROLE_REF (in schrodinger.infra.phase)
receivers() (in DendrogramScene)	reserve() (in SwigUInt64Vector)	ROLE_TEST (in schrodinger.infra.phase)
receivers() (in DendrogramView)	reserve() (in SwigUnsignedIntVector)	ROLE_TRAIN (in schrodinger.infra.phase)
receivers() (in MM_HyperLinkProperty)	reserve() (in SwigUnsignedIntVector2)	rollback() (in TokenRewriteStream)
receivers() (in MM_QDockWidget)	reserve() (in SwigVectorIntIntPair)	rollback() (in CfgAtom)
receivers() (in MM_QLineEdit)	RESERVED_JAGUAR_KEYS (in schrodinger.application.matsci.mecp_mod)	rollback() (in Key)
receivers() (in MM_UICompactPropertySelector)	reset() (in QAbstractItemModel)	rolmp2() (in schrodinger.application.jaguar.textparser)
receivers() (in MM_UIComponent)	reset() (in QAbstractListModel)	rosen() (in schrodinger.application.matsci.mecp_mod)
receivers() (in MM_UIForm)	reset() (in QAbstractProxyModel)	Rot_bonds (in TermKeywords)
receivers() (in MM_UIVBoxLayout)	reset() (in QAbstractTableModel)	rotamers (in schrodinger.protein)
receivers() (in MaestroHub)	reset() (in QIdentityProxyModel)	Rotamers (in schrodinger.protein.rotamers)
receivers() (in WorkspaceHub)	reset() (in QSortFilterProxyModel)	rotamers (in Rotamers)
receivers() (in SHView)	reset() (in QStringListModel)	rotatable_changeable (in ProtAssign)
receivers() (in sketcher)	reset() (in QStandardItemModel)	ROTATE (in Metropolizer)
receivers() (in sketcherGUIMultiColumnToolBar)	reset() (in FrameworkModel)	rotate_double_bonds() (in schrodinger.application.matsci.nano.util)
receivers() (in sketcherScene)	reset() (in TableView)	rotate_structure() (in schrodinger.structutils.transform)
receivers() (in sketcherView)	reset() (in PresetAction)	rotateNanoSheet() (in NanoSheet)
RECENT_TEMPLATE_FILE (in schrodinger.application.matsci.builderwidgets)	reset() (in ConnectionStorage)	rotateProteinToMembrane() (in Membrane_Model)
RecentCarbonColorSubMenu (in schrodinger.application.bioluminate.pml_menus)	reset() (in BaseRecognizer)	rotateTube() (in NanoTube)
RecentColorSubMenu (in schrodinger.application.bioluminate.pml_menus)	reset() (in Lexer)	rotation_points_add() (in schrodinger.maestro.maestro)
recentered() (in DendrogramNode)	reset() (in Parser)	ROTATION_POINTS_CALLBACK (in schrodinger.maestro.maestro)
RecentHydrogenColorSubMenu (in schrodinger.application.bioluminate.pml_menus)	reset() (in ANTLRStringStream)	rotation_points_remove() (in schrodinger.maestro.maestro)
RecentObjectColorSubMenu (in schrodinger.application.bioluminate.pml_menus)	reset() (in CommonTokenStream)	rotational_strength_precision (in NormalMode)
recep_file (in GridgenJob)	reset() (in CommonTreeNodeStream)	ROUGH_CUT_DISTANCE (in schrodinger.structutils.ringspear)
RECEP_PROP (in schrodinger.application.glide.packages.driver)	reset() (in RewriteRuleElementStream)	ROULETTE_WHEEL_SELECTION (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)
RECEPTOR (in PIPERConstraint)	reset() (in TreeParser)	round() (in WriteInputs)
receptor_b_factor (in FEPEdgeData)	reset() (in Engine)	row (in WidgetTable)
receptor_chain_names (in FEPEdgeData)	reset() (in Queue)	row_charge (in ProjEntry)
receptor_charge (in FEPEdgeData)	reset() (in RetryTimer)	row_number (in ProjectRow)
receptor_residue_sequence_list (in FEPEdgeData)	reset() (in _DesmondProt)	RowActionItem (in schrodinger.application.bioluminate.bwidgets)
receptor_residue_sequence_tags (in FEPEdgeData)	reset() (in _McproProt)	RowColorScheme (in schrodinger.application.msv.gui.color)
receptor_residues_interaction_ligand1 (in FEPEdgeData)	reset() (in _ProtItem)	rowCount() (in FrameworkModel)
receptor_residues_interaction_ligand2 (in FEPEdgeData)	reset() (in GuiApp)	rowCount() (in CriteriaListModel)
receptor_sid_rmsd_backbone_lambda0 (in FEPEdgeData)	reset() (in InputGroup)	rowCount() (in DataModel)
receptor_sid_rmsd_backbone_lambda1 (in FEPEdgeData)	reset() (in RestraintsTab)	rowCount() (in PathModel)
receptor_sid_rmsd_ligand_lambda0 (in FEPEdgeData)	reset() (in _BaseAdvancedDialog)	rowCount() (in ResiduesModel)
receptor_sid_rmsd_ligand_lambda1 (in FEPEdgeData)	reset() (in Guide)	rowCount() (in StrucListModel)
receptor_sid_rmsf_backbone_lambda0 (in FEPEdgeData)	reset() (in SystemBuilderInput)	rowCount() (in AtomGroupModel)
receptor_sid_rmsf_backbone_lambda1 (in FEPEdgeData)	reset() (in Counter)	rowCount() (in PosResModel)
receptor_st (in FEPEdgeData)	reset() (in BaseJaguarPanel)	rowCount() (in TableModel)
receptor_title (in FEPEdgeData)	reset() (in InputEntriesModel)	rowCount() (in InputEntriesModel)
receptor_total_atom (in FEPEdgeData)	reset() (in ProjEntry)	rowCount() (in CoordinatesModel)
receptor_total_heavy (in FEPEdgeData)	reset() (in ProjEntryPka)	rowCount() (in SubTabModel)
receptor_total_residues (in FEPEdgeData)	reset() (in BaseTab)	rowCount() (in AnnotationProxyModel)
receptor_total_residues_in_chains (in FEPEdgeData)	reset() (in CoordinatesModel)	rowCount() (in BaseAdjacentAlignmentProxyModel)
reciprocal (in schrodinger.protein.assignment)	reset() (in BaseSubTab)	rowCount() (in DragAndDropReorderingProxy)
reciprocal_bohr_to_angstrom() (in schrodinger.application.matsci.mecp_mod)	reset() (in InputTabBase)	rowCount() (in RowWrapProxyModel)
RecognitionException (in schrodinger.application.desmond.antlr3.exceptions)	reset() (in InputTabHB)	rowCount() (in TopModel)
recognitionException() (in DebugEventListener)	reset() (in InputTabWithSubTabs)	rowCount() (in ChooseLigandModel)
recognitionException() (in DebugEventSocketProxy)	reset() (in MoleculeTabPka)	rowCount() (in CriteriaListModel)
recognizers (in schrodinger.application.desmond.antlr3)	reset() (in MultiStructureTab)	rowCount() (in PatternModel)
RecognizerSharedState (in schrodinger.application.desmond.antlr3.recognizers)	reset() (in ReactionPropertiesTab)	rowCountChanged() (in AlignmentInfoView)
recolorPlot() (in HomologyRama)	reset() (in ReactionTab)	rowGetExpanded() (in Table)
recombine_solutions() (in hbond_cluster)	reset() (in ScanTabNextGeom)	rowGetVisible() (in Table)
recombineInputLigands() (in DockingStage)	reset() (in ScfTabConsistentOrbitals)	rowHeight() (in SHView)
recombineInputLigands() (in LigPrepStage)	reset() (in SubTabModel)	RowIterator (in schrodinger.ui.widgettable)
recombineInputLigands() (in ConfSearchStage)	reset() (in ReactiqKeyword)	RowModel (in schrodinger)
recombineInputLigands() (in QikPropStage)	reset() (in ItemRow)	RowOrder (in schrodinger.application.msv.gui.viewmodel)
recombineInputLigands() (in SemiEmpStage)	reset() (in ItemRowWithTemplates)	rowPos() (in _Cell)
RecombineStage (in schrodinger.pipeline.stages.gencodes)	reset() (in SketcherBox)	rowPos() (in _Row)
reconfigureDockWidget() (in MM_QDockWidget)	reset() (in BasisSetSelector)	RowProxy (in schrodinger.utils.pymol)
record() (in RecordDebugEventListener)	reset() (in ChargePropertySelector)	rowsAboutToBeRemoved() (in SHView)
record() (in TraceDebugEventListener)	reset() (in NeighborTreatment)	rowSetExpanded() (in Table)
record_current_indices() (in ProtAssign)	reset() (in DimerSpeciesSelector)	rowSetVisible() (in Table)
record_error() (in _Evalor)	reset() (in MonomerSpeciesSelector)	rowsForEid() (in SubTabModel)
record_error() (in _Evalor)	reset() (in NewJobDirFrame)	rowsInserted() (in SHView)
RecordDebugEventListener (in schrodinger.application.desmond.antlr3.debug)	reset() (in CompactSolventSelector)	rowsRemoved() (in SHView)
recover() (in BaseRecognizer)	reset() (in EmbeddedSolventWidget)	RowType (in schrodinger.application.msv.gui.viewconstants)
recover() (in Lexer)	reset() (in MultiStageArea)	rowWrap() (in AbstractMsvWidget)
recover_macro() (in CfgAtom)	reset() (in StageFrame)	rowWrap() (in ViewModel)
recover_macro() (in Key)	reset() (in ReorderAtomFrame)	RowWrapPolicy
recoverFromMismatchedSet() (in BaseRecognizer)	reset() (in StructureFrame)	RowWrapProxyModel (in schrodinger.application.msv.gui.viewmodel)
recoverFromMismatchedToken() (in BaseRecognizer)	reset() (in StructurePic)	rrho() (in ComUtil)
recoverFromScratch() (in TestScript)	reset() (in DrawDdgPanel)	rsh_errors_re (in schrodinger.job.remote_command)
Rectangle (in schrodinger.application.matsci.nano.tube)	reset() (in DrawFepPanel)	rsh_exec (in schrodinger.job.remote_command)
recursivelySort() (in Internals)	reset() (in DrawLrmPanel)	rsh_max_retries (in schrodinger.job.remote_command)
RED (in schrodinger.application.bioluminate.pml_menus)	reset() (in DrawMcPanel)	rsh_src (in schrodinger.job.remote_command)
RED (in schrodinger.application.matsci.amorphous)	reset() (in DrawMiniPanel)	rsh_test() (in schrodinger.job.remote_command)
redefineLatticeVecs() (in NanoTubeSheet)	reset() (in ModelSystem)	rsh_timeout (in schrodinger.job.remote_command)
redo() (in Command)	reset() (in DrawSolventPanel)	rsh_warning_issued (in schrodinger.job.remote_command)
redo() (in MSVPanel)	reset() (in QColorButton)	RSI (in Icons)
redo() (in AbstractMsvWidget)	reset() (in FeatureSelector)	rsqrScramble (in PhpQSARModel)
redraw() (in ClusterStatisticsPlotDialog)	reset() (in HypothesesListWidget)	RT (in schrodinger.application.ligprep.ionizer)
redraw() (in DendrogramPlotDialog)	reset() (in AnalyzeEnergyWidget)	RT_COLOR_LABEL_END (in schrodinger.application.bioluminate.pml_menus)
redraw() (in DistanceMatrixPlotDialog)	reset() (in RowModel)	RT_COLOR_LABEL_START (in schrodinger.application.bioluminate.pml_menus)
redraw() (in InputEntriesProxyModel)	reset() (in HuntCache)	RT_LN_10 (in schrodinger.application.ligprep.ionizer)
redraw() (in schrodinger.maestro.maestro)	reset() (in ModelCheck)	RT_TO_MAESTRO_COLORS (in schrodinger.application.bioluminate.pml_menus)
redraw_request() (in schrodinger.maestro.maestro)	reset() (in StructuralInteractionFingerprintGenerator)	RULE (in DesmondTyper)
redraw_sphere() (in DrawSolventPanel)	reset() (in TaskRunner)	RULE (in McproTyper)
reduce() (in Frame)	reset() (in AbstractTask)	RULE (in TyperBase)
reduced_mass_precision (in NormalMode)	reset_colors() (in schrodinger.application.combiglide.connection_storage)	RULE (in WatermapTyper)
reduced_set() (in Zmat)	reset_protein() (in _ChopCap)	rulePostProcessing() (in DebugTreeAdaptor)
reduceToSingleOperationPerIndex() (in TokenRewriteStream)	reset_protein() (in _Neut)	rulePostProcessing() (in BaseTreeAdaptor)
REDUCTION (in schrodinger.application.matsci.optoelectronics)	reset_tag() (in Sea)	rulePostProcessing() (in TreeAdaptor)
REDUDANT_SIGNATURES (in _licensing')	reset_tddft_excitation_energies() (in schrodinger.application.jaguar.textparser)	RULER_TICK_MARK (in schrodinger.application.msv.gui.viewconstants)
REDUDANT_SIGNATURES (in schrodinger.infra.licensing)	RESET_TO_DEFAULT_CUSTOM_DIR (in schrodinger.application.matsci.builderwidgets)	RulerDelegate (in schrodinger.application.msv.gui.delegates)
redundancy_tolerance (in water_changeable)	reset_workspace_transformations() (in schrodinger.maestro.maestro)	RuleReturnScope (in schrodinger.application.desmond.antlr3.recognizers)
redundant_server() (in License)	resetAcceptedRow() (in FullProxyModel)	RulerScheme (in schrodinger.application.msv.gui.color)
reexpand() (in SHView)	resetAll() (in ReactiqInput)	run (in schrodinger.test.stu)
ref_keys (in SiteMatchLookup)	resetAllColorSchemeRules() (in ColorSchemeManager)	run() (in PatchFinderRunner)
REF_LICENSE_CHECK_FILE (in schrodinger.test.stu.constants)	resetAllFeatures() (in FeatureMatchCombo)	run() (in PreAnalyzer)
refAtomFromCompAtom() (in ReorderAtomFrame)	resetAllRequested() (in TaskRunner)	run() (in SimulatedAnnealing)
refcount (in _StructureDeleter)	resetAtomGroupTable() (in AtomGroupFrame)	run() (in Queue)
REFERENCE (in schrodinger.application.matsci.nano.interface_mod)	resetCaches() (in TopModel)	run() (in ProteinCheckThread)
REFERENCE (in schrodinger.application.matsci.reordergui)	resetCallNumber() (in EnergyAndGradients)	run() (in Contact)
REFERENCE_FILTERS (in SequenceFileDialog)	resetColorSchemes() (in ColorSchemeManager)	run() (in ContactCmd)
referenceFragChanged() (in _Pert)	resetCountCache() (in NonNestedProxy)	run() (in MDPoseAnalysis)
ReferenceFrame (in schrodinger.application.matsci.reordergui)	resetData() (in CriteriaListModel)	run() (in RMSD)
ReferenceListWidget (in schrodinger.application.matsci.reordergui)	resetEnsClass() (in EnsembleTab)	run() (in Tanimoto)
refill_queue() (in Queue)	resetFiniteDiffCall() (in BFGS)	run() (in MDPoseGlideJob)
refine_structure() (in schrodinger.application.desmond.mdpose.mdpose_average_structure)	resetfp() (in CanvasFingerprintGeneratorGUI)	run() (in MDPoseStrainJob)
refinePrime() (in Refiner)	resetFromModel() (in AtomGroupFrame)	run() (in MDSimulation)
Refiner (in schrodinger.application.bioluminate.protein)	resetFromModel() (in InteractionTab)	run() (in RestInput)
refresh() (in _MdcBase)	resetFromModel() (in MdcMiscTab)	run() (in AnalysisJob)
refresh() (in LicenseResource)	resetFromModel() (in RestraintsTab)	run() (in FepanaJob)
refresh() (in schrodinger.application.licensing.licadmin)	resetFromModel() (in _BaseAdvancedDialog)	run() (in MetadynamicsAnalysisJob)
refreshFragList() (in _Pert)	resetGroup() (in Preferences)	run() (in SeaJob)
refreshMarkers() (in CoordinateTab)	resetInputContext() (in DendrogramView)	run() (in TimeSeriesAnalysisJob)
refreshTable() (in Project)	resetInputContext() (in MM_QDockWidget)	run() (in WaterMapAnaJob)
reg_checking() (in schrodinger.application.desmond.cmj)	resetInputContext() (in MM_QLineEdit)	run() (in Starter)
reg_xcheck() (in schrodinger.application.desmond.mdkey)	resetInputContext() (in SHView)	run() (in SystemBuilderInput)
reg_xcheck() (in schrodinger.utils.sea)	resetInputContext() (in sketcher)	run() (in TestSuite)
regenerate_markers() (in schrodinger.maestro.maestro)	resetInputContext() (in sketcherGUIMultiColumnToolBar)	run() (in CombinedDriver)
regeneratePic() (in _StructViewItem)	resetInputContext() (in sketcherView)	run() (in DockingDriver)
regeneratePic() (in _zoomViewItem)	resetInternalData() (in RowModel)	run() (in Glide)
regeneratePicture() (in ReactionParticipant)	resetKey() (in ReactiqInput)	run() (in GridgenJob)
REGEXS (in schrodinger.application.bioluminate.propka_parse)	resetLabelOptions() (in WorkspaceLabeler)	run() (in JobDJRunner)
REGION_LABELS (in schrodinger.application.bioluminate.patch_utils.patch_finder)	resetMap() (in ReorderAtomFrame)	run() (in JobRunner)
RegionInfo (in schrodinger.application.bioluminate.pml_menus)	resetMaxIter() (in MinimizationTab)	run() (in JobarrayRunner)
register_plugin() (in schrodinger.application.desmond.packages.msys.molfile)	resetMaxIter() (in MinimizerFrame)	run() (in GlideStartup)
registerItem() (in Hierarchy)	resetMode() (in DrawSolventPanel)	run() (in JaguarInput)
regularized_structure (in Ligand)	resetOrdering() (in DragAndDropReorderingProxy)	run() (in schrodinger.application.licensing.licadmin)
Reinitialize (in schrodinger.application.bioluminate.pml_menus)	resetPanel() (in _App)	run() (in MopacLauncher)
REJECT (in schrodinger.application.jaguar.gui.basis_selector)	resetParams() (in ParamContainer)	run() (in MopacLauncher2012)
reject() (in ValueSelectionDialog)	resetParentProperties() (in StructureGenome)	run() (in MopacLauncher71)
reject() (in DEE_Backtracking)	resetPosResTable() (in RestraintsTab)	run() (in StructureLauncher)
reject() (in _BaseAdvancedDialog)	resetSelected() (in PhaseSphereMarkers)	run() (in AbstractAligner)
reject() (in ReorderAtomsDialog)	resetSlots() (in ComplexBuilder)	run() (in BasicAligner)
reject() (in EditFeatureDialog)	resetStructure() (in JaguarInput)	run() (in RescodeAligner)
rejected() (in AddDefinitionDialog)	resetTable() (in NewJobDirFrame)	run() (in _CommonProblemsFixer)
RelaxFrame (in schrodinger.application.desmond.gui)	resetThermoTemp() (in EnsembleTab)	run() (in PicturePrinter)
release() (in DebugTokenStream)	resetUndoStack() (in AbstractMsvWidget)	run() (in WaterMapInput)
release() (in ANTLRStringStream)	resid() (in Residue)	run() (in Engine)
release() (in CommonTokenStream)	resID_to_asl() (in schrodinger.protein._reliability)	run() (in Volumizer)
release() (in IntStream)	resID_to_atoms() (in schrodinger.protein._reliability)	run() (in App)
release() (in CommonTreeNodeStream)	Residue (in schrodinger.application.desmond.packages.msys)	run() (in BaseJob)
release() (in StageBase)	residue (in schrodinger.application.msv.domain)	run() (in JobDJ)
release() (in Concluder)	Residue (in schrodinger.application.msv.domain.residue)	run() (in Pipeline)
releaseOwnership() (in Structure)	residue (in Sequence)	run() (in Stage)
reliability (in schrodinger.protein)	residue (in Structure)	run() (in FrameLoader)
reload (in JaguarInput)	residue (in TextualStructure)	run() (in RMSDCalculator)
RELOAD_STRUCTURE (in EditDialog)	residue (in _Chain)	run() (in TestJob)
reloadTemplateList() (in ItemRowWithTemplates)	residue (in _Molecule)	run_align() (in schrodinger.application.ska)
relpath() (in schrodinger.application.desmond.util)	Residue (in PickConstraintResidueColumns)	run_analysis() (in steric_clash_data_set)
REMAINDER (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)	Residue (in PickResidueColumns)	run_apbs() (in schrodinger.application.desmond.fep_net_charge)
remainder (in schrodinger.protein.assignment)	residue() (in Atom)	run_bennett() (in schrodinger.application.desmond.fepana)
REMAINDER_FILE_EXT (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)	residue() (in System)	run_bennett_orig() (in schrodinger.application.desmond.fepana)
remap_members() (in Ensemble)	residue_altloc_map (in Mmpdbx)	run_check() (in schrodinger.protein.reliability)
REMD (in schrodinger.application.desmond.config)	RESIDUE_CALCULATIONS (in PropertyCalculator)	run_cleanup() (in schrodinger.application.mopac.utils)
remd (in schrodinger.application.desmond)	residue_charge (in ColorBy)	run_comparison() (in schrodinger.test.stu.workup)
REMD() (in DEFAULT_SETTING)	residue_hydrophobicity (in ColorBy)	run_desmond_ff_builder() (in schrodinger.application.desmond.fepdiff)
remediate (in schrodinger.protein)	residue_indices (in Consensus)	run_hmc() (in BondRotator)
remediate_ct() (in schrodinger.protein.remediate)	residue_interaction (in schrodinger.application.prime)	run_installation_check() (in schrodinger.utils.installation_check)
REMOTE (in schrodinger.test.stu.sysinfo)	residue_is_nonpolar() (in schrodinger.application.bioluminate.protein)	RUN_JOBS (in schrodinger.application.macromodel.paraUtils)
remote_command (in schrodinger.job)	residue_is_polar() (in schrodinger.application.bioluminate.protein)	run_kwargs (in JaguarInput)
remote_command() (in schrodinger.job.remote_command)	RESIDUE_MAP_1_TO_3_LETTER (in schrodinger.structure)	run_lmdiag() (in schrodinger.application.licensing.licadmin)
remote_mmshare_dir() (in schrodinger.utils.fileutils)	RESIDUE_MAP_3_TO_1_LETTER (in schrodinger.structure)	run_lmstat() (in schrodinger.application.licensing.licadmin)
remote_scripts_dir() (in schrodinger.utils.fileutils)	residue_occupancy (in schrodinger.infra.structure)	run_maestro_cmd() (in schrodinger.application.desmond.mdpose.mdpose_analysis)
remotehost (in ResultReporter)	residue_position (in ColorBy)	run_mcs() (in schrodinger.test.canvas_utils)
REMOVE (in schrodinger.application.mopac.utils)	RESIDUE_ROTOR_COUNT (in schrodinger.application.bioluminate.protein)	run_mcs_pw() (in schrodinger.test.canvas_utils)
remove() (in SlidableLine)	residue_score (in schrodinger.application.desmond.mdpose.mdpose_neutralize)	run_mop_file() (in MopacAPI)
remove() (in JobOutput)	residue_type (in ColorBy)	run_phase_database_job() (in schrodinger.pipeline.stages.phase)
remove() (in _MdcBase)	residue_zscores() (in Packing)	run_postmortem() (in schrodinger.test.stu.run)
remove() (in Atom)	ResidueDelegate (in schrodinger.application.msv.gui.delegates)	run_postmortem() (in schrodinger.utils.installation_check)
remove() (in Bond)	residueDeletionRequested() (in AbstractAlignmentView)	run_propka (in schrodinger.application.bioluminate)
remove() (in Chain)	ResidueDictionary (in schrodinger.application.bioluminate.patch_utils.patch_finder)	run_propka() (in schrodinger.application.bioluminate.run_propka)
remove() (in Ct)	residueDisplayChanged() (in WorkspaceHub)	run_propka() (in ProtAssign)
remove() (in Residue)	ResidueFormat (in schrodinger.application.msv.gui.viewconstants)	run_protein_reliability() (in schrodinger.application.desmond.feputils)
remove() (in Term)	residueFormatChanged() (in ProxyMixin)	run_quick_check() (in schrodinger.protein.reliability)
remove() (in TermTable)	residueFormatChanged() (in SequenceAlignmentModel)	run_requested() (in EditDialog)
remove() (in Sequence)	ResidueGroups (in schrodinger.ui.residueselector)	run_rga() (in schrodinger.application.desmond.fep_mapping)
remove() (in Group)	ResidueID (in schrodinger.infra.structure)	run_ska() (in schrodinger.infra._ska)
remove() (in LinkedList)	ResidueRow (in schrodinger.ui.picking)	run_structure() (in MopacAPI)
remove() (in RunningJobs)	residues (in Consensus)	run_system_builder() (in schrodinger.application.matsci.desmondutils)
remove() (in _Callback)	residues (in ResidueSelection)	run_test_jobs() (in schrodinger.utils.installation_check)
remove() (in _Column)	residues() (in Chain)	run_workflows() (in schrodinger.application.matsci.jaguarworkflows)
remove() (in Preferences)	residues() (in System)	runAddJob() (in DBManageStage)
remove_basename_ext() (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)	residues_centroid_changed() (in PickResiduesChangedMixin)	runAlignment() (in AbstractMsvWidget)
remove_changeables_from_hbonders() (in ProtAssign)	residues_changed() (in PickResiduesChangedMixin)	runCanvasKPLS() (in CanvasKPLS)
remove_drift() (in schrodinger.application.desmond.packages.msys.thermalize)	residuesAdded() (in BaseAlignment)	runCluFile() (in CluUtil)
remove_dummy_atoms() (in Membrane_Model)	residuesChanged() (in Sequence)	runClustalAlignment() (in schrodinger.application.msv.jobs.clustal)
remove_dupes() (in schrodinger.structutils.smilesfilter)	residuesChanged() (in WorkspaceHub)	runEditedInput() (in ReadEditMixin)
remove_extra_rotable_atoms() (in schrodinger.application.desmond.r_group_asl)	residuesDeleted() (in Sequence)	runGlide() (in GlideSystemTest)
remove_fatal_atom_properties() (in schrodinger.application.matsci.desmondutils)	ResidueSelection (in schrodinger.application.msv.domain.alignment)	runIt() (in CanvasKPLS)
remove_file() (in schrodinger.application.desmond.util)	residueSelectionChanged() (in AlignmentSelectionModel)	runIt() (in ClassEvaluator)
remove_hypo_if_present() (in schrodinger.application.phase.hypothesis)	residueSelectionChanged() (in WorkspaceHub)	runIt() (in GeneticOptimization)
remove_input_file_paths() (in ReactiqInput)	residueselector (in schrodinger.ui)	runIt() (in JaguarJobs)
remove_last_atom_highlight() (in FEPEdgeReportMaker)	ResiduesModel (in schrodinger.application.desmond.fep_gui)	runIt() (in MECP)
REMOVE_LINGER (in _licensing')	residuesRemoved() (in BaseAlignment)	runIt() (in Interface)
REMOVE_LINGER (in schrodinger.infra.licensing)	residuesSelected (in StyleProxyModel)	runIt() (in Nanoparticle)
remove_object() (in schrodinger.maestro.maestro)	residuesSelected() (in BaseAlignment)	runIt() (in Surface)
remove_option() (in SingleDashOptionParser)	residuesSelected() (in AbstractAlignmentView)	runIt() (in Interfaces)
remove_output_file() (in schrodinger.application.glide.packages.driver)	residuesSelected() (in AlignmentSelectionModel)	runIt() (in Surfaces)
remove_pbc() (in schrodinger.application.matsci.nano.tube)	residuesSelected() (in ProxyMixin)	runIt() (in SurfacesInterfaces)
remove_plugin() (in schrodinger.application.desmond.config)	residuesSelected() (in SequenceAlignmentModel)	runIt() (in ReactionPath)
remove_plugin() (in schrodinger.application.desmond.mdkey)	residuetools (in schrodinger.application.mcpro)	runJob() (in EditDialog)
remove_stereo_annotation() (in schrodinger.structutils.smiles)	ResidueTools (in schrodinger.application.mcpro.residuetools)	runJobDJ() (in Stage)
remove_tag() (in Sea)	ResidueType (in schrodinger.application.msv.domain.residue)	runJobs() (in EnergyAndGradients)
remove_temp_dir() (in schrodinger.application.desmond.mplchart)	residueVisibilityChanged() (in BaseAlignment)	runJobs() (in JaguarJobs)
remove_unconn_core_atoms() (in FEPScholarMapper)	residueWasClicked() (in sketcherScene)	runJobs() (in TestUtility)
remove_zero_order_bonds() (in ProtAssign)	Resize() (in schrodinger.analysis.visanalysis.volumedatautils)	runMain() (in BaseFunctionTask)
removeAction() (in Factory)	resize() (in stringvector)	RunMode (in schrodinger.tasks.jobtasks)
removeAllFeatures() (in PhaseMarkers)	resize() (in Bitset)	Runner (in schrodinger.test.stu.run)
removeAllFeaturesForEntry() (in PhaseMarkers)	resize() (in SwigDoubleVector)	runners (in schrodinger.tasks)
removeAllGaps() (in BaseAlignment)	resize() (in SwigDoubleVector3)	RUNNING (in JobStatus)
removeAllGaps() (in Sequence)	resize() (in SwigIntVector)	RUNNING (in schrodinger.pipeline.pipeline)
removeAllGaps() (in ProteinAlignment)	resize() (in SwigStringVector)	RUNNING (in Status)
removeAllRefCtMarkers() (in PhaseMarkers)	resize() (in SwigUInt64Vector)	RunningJobs (in schrodinger.job.queue)
removeAllRows() (in WidgetTable)	resize() (in SwigUnsignedIntVector)	runpKa() (in PropertyCalculator)
removeAllSeqs() (in BaseAlignment)	resize() (in SwigUnsignedIntVector2)	runPrimeLoopPrediction() (in Refiner)
removeAllSeqs() (in ProteinAlignment)	resize() (in SwigVectorIntIntPair)	runPrimeMinimization() (in Refiner)
removeAllTolMarkers() (in PhaseMarkers)	resize() (in SwigDoubleVector)	runPrimeResidue() (in Refiner)
removeAllXvolMarkers() (in PhaseMarkers)	resize() (in SwigDoubleVector3)	runPrimeSidechain() (in Refiner)
removeAminoAcids() (in schrodinger.trajectory.automatic_analysis_generator)	resize() (in SwigIntVector)	runPrimeSidechainBB() (in Refiner)
removeAndRenumber() (in Nanoparticle)	resize() (in SwigStringVector)	runPrimeSidechainCBeta() (in Refiner)
removeBadOptions() (in schrodinger.application.bioluminate.workspacelabeler)	resize() (in SwigUInt64Vector)	runPythonMinimize() (in Refiner)
removeColorsForMissingPoints() (in SliderPlot)	resize() (in SwigUnsignedIntVector)	runRefinement() (in Refiner)
removeCoordinate() (in CoordinatesModel)	resize() (in SwigUnsignedIntVector2)	runSingleStruc() (in AnalyzeEnergyWidget)
removed() (in DictDiffer)	resize() (in SwigVectorIntIntPair)	runsLocally() (in BaseJob)
removeFeature() (in PhaseMarkers)	resize() (in SwigDoubleVector)	runsLocally() (in JobControlJob)
removeFFProperties() (in ItemRow)	resize() (in SwigDoubleVector3)	runsLocally() (in TestJCJob)
removeFromSequence() (in Sequence)	resize() (in SwigIntVector)	runsRemotely() (in TestScript)
removeGaps() (in BaseAlignment)	resize() (in SwigStringVector)	runStructureAlignment() (in ProteinAlignmentMsvWidget)
removeGaps() (in Sequence)	resize() (in SwigUInt64Vector)	runStructureAlignment() (in schrodinger.application.msv.jobs.structure_alignment)
removeGaps() (in ProteinAlignment)	resize() (in SwigUnsignedIntVector)	runSubjob() (in GridgenJob)
RemoveHydrogens (in schrodinger.application.bioluminate.pml_menus)	resize() (in SwigUnsignedIntVector2)	runSubjobs() (in DockingDriver)
removeHydrogens() (in NanoTube)	resize() (in SwigVectorIntIntPair)	runSubjobs() (in JobDJRunner)
removeIgnoredClashes() (in BuilderWithClashDetection)	resize() (in SwigDoubleVector)	runSuperposition() (in ReactionCoords)
removeIgnorePair() (in ConnectionStorage)	resize() (in SwigIntVector)	runTabValidation() (in BaseJaguarPanel)
removeJaguarMarker() (in BaseSubTab)	resize() (in SwigSizetVector)	runtest() (in PerceptualDiffTest)
removeJaguarMarker() (in InputTabWithSubTabs)	resize() (in SwigStringVector)	runtest() (in ExecutableTest)
removeJaguarMarker() (in SubTabModel)	resize() (in SwigVectorDoubleVector)	runtest() (in MakefileTest)
removeJaguarMarker() (in AtomSelectionDelegate)	resize() (in SwigVectorIntVector)	RuntimeParametersError (in schrodinger.job.launchapi)
removeJaguarMarker() (in ChargeConstraintsTableView)	resize() (in SwigVectorSizetVector)	RuntimeParametersKeyError (in schrodinger.job.launchapi)
removeJaguarMarkerForRow() (in SubTabModel)	resize() (in SwigVectorStringVector)	runTransmutations() (in Alchemist)
removeJaguarMarkerForRow() (in ChargeConstraintsModel)	resize() (in DoubleDoubleList)	runTransmutations() (in StructureAlchemist)
removeKey() (in Definition)	resize() (in DoubleList)	runValidation() (in TaskRunner)
removeMissingPoints() (in SliderPlot)	resize() (in StringList)	runWorkup() (in TestScript)
removeOneRow() (in AtomGroupModel)	resize() (in SwigAtomList)	runXCluFile() (in CluUtil)
removeOneRow() (in PosResModel)	resize() (in SwigAtomQueryParamsList)	rxn_channel (in schrodinger.application.matsci)
removeOrientDummyAtoms() (in schrodinger.application.mcpro.zmat)	resize() (in SwigDcNonPbcAtomIdxList)	rxn_channel (in schrodinger.application.matsci.rxn_channel)
removeParticipant() (in ReactionMoleculesTab)	resize() (in SwigDcPbcAtomList)	rxn_coord_precision (in JaguarResults)
removeParticipant() (in ReactionTab)	resize() (in SwigRingList)	RXN_KEY (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)
RemovePC (in schrodinger.application.bioluminate.pml_menus)	resize() (in _Column)	rxn_path (in schrodinger.application.matsci)
removePkaMarkers() (in InputEntriesModelPka)	resize() (in SwigDoubleVector)	RXN_REPRESENTATION_KEY (in Products)
removeProperties() (in StructureGenome)	resize() (in SwigDoubleVector3)	RXNCOORD (in ReactionPath)
removeRefCtMarker() (in PhaseMarkers)	resize() (in SwigIntVector)	RXNINDEX (in ReactionPath)
removeResidues() (in BaseAlignment)	resize() (in SwigStringVector)