[ 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)	removeAminoAcids() (in schrodinger.trajectory.automatic_analysis_generator)	rest_tab_ui (in schrodinger.application.desmond)
r (in MaestroSphere)	removeBadOptions() (in schrodinger.application.bioluminate.workspacelabeler)	restart (in JaguarInput)
r_ (in schrodinger.protein.assignment)	removeCallback() (in JobInputFrame)	restart (in JaguarOutput)
r_clone (in schrodinger.application.desmond.fepana)	removeColorsForMissingPoints() (in SliderPlot)	RESTART (in schrodinger.application.macromodel.paraUtils)
r_group (in schrodinger.application.canvas)	removeCoordinate() (in CoordinatesModel)	RESTART (in schrodinger.utils.cmdline)
r_group_asl (in schrodinger.application.desmond)	removed() (in DictDiffer)	restart() (in RetryTimer)
r_group_dee (in schrodinger.application.canvas)	removeDescriptor() (in DescriptorsUI)	Restart() (in schrodinger.pipeline.pipeline)
rad2deg (in schrodinger.protein.assignment)	removeFFProperties() (in ItemRow)	restart() (in StageJob)
RADIAN_CONVERSION_FACTOR (in schrodinger.infra.mm)	RemoveHydrogens (in schrodinger.application.bioluminate.pml_menus)	Restart() (in schrodinger.pipeline.stage)
radians (in schrodinger.protein.assignment)	removeHydrogens() (in NanoTube)	restart_name() (in schrodinger.application.jaguar.output)
RADICALS_FORCE_OFF (in _mmutil')	removeIgnorePair() (in ConnectionStorage)	restart_re (in schrodinger.application.jaguar.output)
RADICALS_FORCE_OFF (in schrodinger.utils.mmutil)	removeKey() (in Definition)	restart_subjobs() (in StageBase)
RADICALS_FORCE_ON (in _mmutil')	removeMissingPoints() (in SliderPlot)	restart_subjobs() (in Simulate)
RADICALS_FORCE_ON (in schrodinger.utils.mmutil)	removeOneRow() (in AtomGroupModel)	RESTARTING (in schrodinger.pipeline.pipeline)
Radiobutton (in schrodinger.ui.widget.tkinterwidget)	removeOneRow() (in PosResModel)	RestartWorkflow (in schrodinger.application.desmond.extend_fep)
RadiobuttonCell (in schrodinger.ui.widgettable)	removeOrientDummyAtoms() (in schrodinger.application.mcpro.zmat)	RESTFEPConfigDialog (in schrodinger.application.desmond.fep_gui)
RadiobuttonColumn (in schrodinger.ui.widgettable)	removeParticipant() (in ReactionMoleculesTab)	RestInput (in schrodinger.application.desmond.rest_inp)
RadioSelect (in schrodinger.ui.widget.pmwwidget)	removeParticipant() (in ReactionTab)	restore() (in Rotamers)
radius (in Solvent)	RemovePC (in schrodinger.application.bioluminate.pml_menus)	restore_cursor() (in schrodinger.application.bioluminate.pml_menus)
RADIUS (in NanoTube)	removePkaMarkers() (in SelectedEntriesModelPka)	restore_stages() (in Engine)
radius (in MaestroArrow)	removeProp() (in QikPropUI)	restore_workspace() (in EditDialog)
radius (in MaestroSphere)	removeRow() (in CoordinatesModel)	restore_zobs() (in ProtAssign)
RadiusOfGyration (in schrodinger.trajectory.analysis)	removeRow() (in CriteriaListModel)	restoreCursor() (in ItemRow)
RAISE (in schrodinger.protein.assignment)	removeRowNumbers() (in ResiduesModel)	restoreCursor() (in AppFramework)
raise_main_window() (in schrodinger.maestro.maestro)	removeRows() (in WidgetTable)	restoreIonCenterProps() (in Ionizer)
rama (in schrodinger.ui)	removeSelectedRow() (in WidgetTable)	restoreLabelOptions() (in WorkspaceLabeler)
Rama (in schrodinger.ui.rama)	removeSelectedRows() (in WidgetTable)	restorePreviouslyIncludedEntry() (in ReadEditMixin)
Ramachandran (in schrodinger.trajectory.analysis)	removeStruct() (in collectionViewerModel)	RestoreTitlesStage (in schrodinger.pipeline.stages.gencodes)
RAMAN_ROW (in schrodinger.application.jaguar.gui.tabs.properties_tab)	removeTerminalAtoms() (in _StructureFragmenter)	restr_grp_selector() (in schrodinger.application.desmond.mdkey)
RamanSubTab (in schrodinger.application.jaguar.gui.tabs.properties_tab)	removeToolBar() (in ViewerWindow)	Restrain (in schrodinger.application.desmond.cms)
ramp_colors (in Mapping)	RemoveWaters (in schrodinger.application.bioluminate.pml_menus)	restraint() (in _FFIO)
rand() (in schrodinger.protein.assignment)	Rename (in schrodinger.application.bioluminate.pml_menus)	restraint_builtin_prop (in schrodinger.trajectory.ffstructure)
randn() (in schrodinger.protein.assignment)	rename() (in NewEntry)	RestraintsTab (in schrodinger.application.desmond.gui)
RANDOM_ALL_TO_ON_THE_FLY_THRESH (in ChannelDefinitions)	rename_atom_property() (in schrodinger.application.desmond.struc)	restrictByChains() (in DataModelWithChart)
RANDOM_SEED (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)	rename_cms_title() (in Analysis)	RestrictSelection (in schrodinger.application.bioluminate.pml_menus)
RANDOM_SEED (in Constants)	renameCollection() (in SimpleEnumDockPanel)	RestrictSubMenu (in schrodinger.application.bioluminate.pml_menus)
random_shuffle() (in schrodinger.application.desmond.fep_mapping)	renameProperty() (in schrodinger.infra.propedit)	RestrictToInorganic (in schrodinger.application.bioluminate.pml_menus)
random_string() (in schrodinger.application.desmond.util)	rend() (in SwigDoubleVector)	RestrictToOrganic (in schrodinger.application.bioluminate.pml_menus)
RANDOM_TYPES_CHOICES (in Constants)	rend() (in SwigDoubleVector3)	RestrictToPolymer (in schrodinger.application.bioluminate.pml_menus)
randomize_st() (in schrodinger.application.desmond.fepdiff)	rend() (in SwigIntVector)	RestrictToSolvent (in schrodinger.application.bioluminate.pml_menus)
RandVelFrame (in schrodinger.application.desmond.gui)	rend() (in SwigStringVector)	RestrictToVisible (in schrodinger.application.bioluminate.pml_menus)
range() (in Bitset)	rend() (in SwigUInt64Vector)	restToggled() (in DesmondApp)
ranges (in schrodinger.infra.propedit)	rend() (in SwigUnsignedIntVector)	RESULT_URL (in schrodinger.test.performance)
RANK_SELECTION (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)	rend() (in SwigUnsignedIntVector2)	ResultReporter
RAW_AFEP (in DesmondTyper)	rend() (in SwigVectorIntIntPair)	Results (in DataPointLocator)
RAW_FEP (in DesmondTyper)	rend() (in SwigDoubleVector)	Results (in schrodinger.application.matsci.jaguarworkflows)
RAW_FEP (in McproTyper)	rend() (in SwigDoubleVector3)	RESULTS (in schrodinger.test.stu.outcomes.workup_desmond')
RAW_REGULAR (in DesmondTyper)	rend() (in SwigIntVector)	results_window (in schrodinger.application.bioluminate.pml_menus)
RAW_REGULAR (in McproTyper)	rend() (in SwigStringVector)	ResultsWindow (in schrodinger.application.bioluminate.pml_menus)
RAW_REGULAR (in WatermapTyper)	rend() (in SwigUInt64Vector)	RETAIN_ALL (in schrodinger.infra.mm)
RAW_SCORE_KEY (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)	rend() (in SwigUnsignedIntVector)	RETAIN_ONLY_SELECTED_MENU_ITEM (in schrodinger.application.combiglide.combenumdock)
raw_val (in Atom)	rend() (in SwigUnsignedIntVector2)	RETAIN_ONLY_STRUCTURE_MENU_ITEM (in schrodinger.application.combiglide.combenumdock)
raw_val (in List)	rend() (in SwigVectorIntIntPair)	retranslateUi() (in Ui_Form)
raw_val (in Map)	rend() (in SwigAtomList)	retranslateUi() (in Ui_Form)
Ray (in schrodinger.application.bioluminate.pml_menus)	rend() (in SwigAtomPairLists)	retranslateUi() (in glidePrecisionDialog)
rbegin() (in SwigDoubleVector)	rend() (in SwigAtomQueryParamsList)	retranslateUi() (in Ui_Widget)
rbegin() (in SwigDoubleVector3)	rend() (in SwigPiCationLists)	retranslateUi() (in Ui_Dialog)
rbegin() (in SwigIntVector)	rend() (in SwigPiPiLists)	retranslateUi() (in Ui_Dialog)
rbegin() (in SwigStringVector)	rend() (in SwigRingList)	retranslateUi() (in Ui_Widget)
rbegin() (in SwigUInt64Vector)	render (in schrodinger.application.lid.lid2d)	retranslateUi() (in Ui_Dialog)
rbegin() (in SwigUnsignedIntVector)	render_2d_image() (in schrodinger.application.lid.ligand_interaction_diagram)	retranslateUi() (in Ui_Form)
rbegin() (in SwigUnsignedIntVector2)	render_model (in schrodinger.application.lid.lid2d.render)	retranslateUi() (in Ui_Form)
rbegin() (in SwigVectorIntIntPair)	renderer (in schrodinger.application.lid.lid2d.render)	retranslateUi() (in Ui_Dialog)
rbegin() (in SwigDoubleVector)	RenderFlag	retranslateUi() (in Ui_MainWindow)
rbegin() (in SwigDoubleVector3)	RenderFlags	retranslateUi() (in Ui_Widget)
rbegin() (in SwigIntVector)	renderSurface() (in SurfaceRender)	retranslateUi() (in Ui_Form)
rbegin() (in SwigStringVector)	renumber_structures (in ConformerRmsd)	retranslateUi() (in Ui_Form)
rbegin() (in SwigUInt64Vector)	renumberAtomLists() (in NanoTubeSheet)	retranslateUi() (in Ui_Form)
rbegin() (in SwigUnsignedIntVector)	renumberByMolecule() (in FixForPrime)	retranslateUi() (in Ui_Form)
rbegin() (in SwigUnsignedIntVector2)	reorder (in schrodinger.application.matsci)	retranslateUi() (in Ui_Form)
rbegin() (in SwigVectorIntIntPair)	reorder_atom (in schrodinger.application.desmond)	retranslateUi() (in Ui_Form)
rbegin() (in SwigAtomList)	reorder_atom() (in schrodinger.application.desmond.reorder_atom)	retranslateUi() (in Ui_Form)
rbegin() (in SwigAtomPairLists)	reorder_atoms() (in schrodinger.application.desmond.fep_mapping)	retranslateUi() (in Ui_Form)
rbegin() (in SwigAtomQueryParamsList)	reorder_atoms() (in schrodinger.structutils.build)	retranslateUi() (in Ui_Form)
rbegin() (in SwigPiCationLists)	reorder_improper() (in schrodinger.application.desmond.fepdiff)	retranslateUi() (in Ui_Form)
rbegin() (in SwigPiPiLists)	reorder_protein_atoms_by_sequence() (in schrodinger.structutils.build)	retranslateUi() (in Ui_Form)
rbegin() (in SwigRingList)	reorder_solute() (in WaterMapInput)	retranslateUi() (in Ui_Form)
RCE (in schrodinger.application.macromodel.input)	reorder_st() (in schrodinger.application.desmond.fep_mapping)	retranslateUi() (in Ui_Form)
RCE_SPECS (in schrodinger.application.macromodel.input)	reorder_tuple() (in schrodinger.application.desmond.fepdiff)	retranslateUi() (in Ui_Form)
rdf (in schrodinger.trajectory)	ReorderAtomFrame (in schrodinger.application.matsci.reordergui)	retranslateUi() (in Ui_Form)
rdf_backend (in schrodinger.trajectory)	ReorderAtomPanel (in schrodinger.application.matsci.reordergui)	retranslateUi() (in Ui_Form)
RDFException (in schrodinger.trajectory.rdf)	ReorderAtomsDialog (in schrodinger.application.matsci.reordergui)	retranslateUi() (in Ui_Form)
re_comment (in _ParseRulesFile)	reordergui (in schrodinger.application.matsci)	retranslateUi() (in Ui_Form)
re_d (in _ParseRulesFile)	reorderResidues() (in proteinHandler)	retranslateUi() (in Ui_Form)
re_def (in _ParseRulesFile)	repair_box_vector() (in schrodinger.application.desmond.repair_cms)	retranslateUi() (in Ui_Form)
re_def_name (in _ParseRulesFile)	repair_cms (in schrodinger.application.desmond)	retranslateUi() (in Ui_Form)
re_obl (in _ParseRulesFile)	REPLACE (in schrodinger.project)	retranslateUi() (in Ui_Widget)
re_ok (in _ParseRulesFile)	replace() (in TokenRewriteStream)	retranslateUi() (in Ui_Form)
re_okm (in _ParseRulesFile)	replace_output_logger_stream() (in schrodinger.test.ioredirect)	retranslateUi() (in Ui_Form)
re_str (in schrodinger.infra.propedit)	replace_slot() (in schrodinger.application.bioluminate.actions.factory)	retranslateUi() (in Ui_Form)
REACTANT (in MultiStructureTab)	replaceChildren() (in DebugTreeAdaptor)	retranslateUi() (in Ui_Dialog)
REACTANT_NAME_BASE (in CheckInput)	replaceChildren() (in BaseTree)	retranslateUi() (in Ui_Form)
REACTANT_PREFIX (in schrodinger.application.jaguar.gui.tabs.reaction_molecules_tab)	replaceChildren() (in CommonTreeAdaptor)	retranslateUi() (in Ui_Form)
ReactantMolecule (in schrodinger.application.matsci.rxn_channel.rxn_channel)	replaceChildren() (in CommonTreeNodeStream)	retranslateUi() (in Ui_Form)
Reactants (in schrodinger.application.matsci.rxn_channel.rxn_channel)	replaceChildren() (in Tree)	retranslateUi() (in Ui_Dialog)
REACTION (in schrodinger.application.jaguar.gui.task_names)	replaceChildren() (in TreeAdaptor)	retranslateUi() (in Ui_Dialog)
REACTION_COORD (in schrodinger.application.jaguar.gui.task_names)	replaceChildren() (in TreeNodeStream)	retranslateUi() (in Ui_Form)
reaction_molecules_tab (in schrodinger.application.jaguar.gui.tabs)	REPLACECOMMA (in schrodinger.application.moldescriptors.impl)	RETRIABLE_FAILURE (in JobStatus)
reaction_molecules_tab_ui (in schrodinger.application.jaguar.gui.ui)	ReplaceOp (in schrodinger.application.desmond.antlr3.streams)	RETRIES (in schrodinger.utils.cmdline)
reaction_properties_tab (in schrodinger.application.jaguar.gui.tabs)	replica_container (in schrodinger.application.desmond.replica_dE)	retrieve() (in TestClient)
reaction_properties_tab_ui (in schrodinger.application.jaguar.gui.ui)	replica_dE (in schrodinger.application.desmond)	retrieve_ent() (in schrodinger.protein.getpdb)
reaction_tab (in schrodinger.application.jaguar.gui.tabs)	replica_energy (in schrodinger.application.desmond.replica_dE)	retrieve_pdb() (in schrodinger.protein.getpdb)
reaction_tab_ui (in schrodinger.application.jaguar.gui.ui)	REPLICA_EXCHANGE (in schrodinger.application.desmond.gui)	retry_http_basic_auth() (in ProxyBasicAuthHandler)
ReactionMoleculesTab (in schrodinger.application.jaguar.gui.tabs.reaction_molecules_tab)	replica_exchange_review (in schrodinger.application.desmond)	retry_http_digest_auth() (in ProxyDigestAuthHandler)
ReactionParticipant (in schrodinger.application.jaguar.gui.tabs.reaction_tab)	replica_name (in schrodinger.application.desmond.report_helper)	retry_interval() (in RetryTimer)
reactionParticipantAdded() (in ReactionTab)	replica_sid_generator (in schrodinger.application.desmond)	RETRY_INTERVAL_BASE (in RetryTimer)
reactionParticipantRemoved() (in ReactionTab)	ReplicaExchange	retryFailure() (in RobustSubmissionJob)
reactionParticipantStructChanged() (in ReactionTab)	replicas_monitor (in schrodinger.application.desmond.replica_dE)	retryFailure() (in JobControlJob)
ReactionPropertiesTab (in schrodinger.application.jaguar.gui.tabs.reaction_properties_tab)	replot() (in SliderPlot)	RetryTimer (in schrodinger.application.desmond.cmj)
ReactionTab (in schrodinger.application.jaguar.gui.tabs.reaction_tab)	replotChart() (in MultiReportWithChart)	return_codes (in schrodinger.infra.mm)
reactWith() (in ReactantMolecule)	repopulateSearchAlongCombo() (in TransitionStateTab)	return_codes (in schrodinger.infra.mmgpgpu)
read() (in _ParseRulesFile)	Report (in schrodinger.protein.analysis)	return_codes (in schrodinger.infra.mmreflect)
read() (in SystemBuilderInput)	report() (in Calculator)	return_codes (in schrodinger.infra.mmsurf)
read() (in ReadEditMixin)	report() (in FEPReportMaker)	ReturnCode (in schrodinger.infra.mmcheck)
read() (in schrodinger.application.jaguar.input)	report() (in data_set)	retype() (in Structure)
read() (in istream)	report() (in schrodinger.protein.assignment)	retype() (in _StructureAtom)
read() (in istream)	report() (in ResultReporter)	reverse_iter() (in LinkedList)
read() (in schrodinger.job.jobcontrol)	report2d (in schrodinger.application)	revert() (in EditDialog)
read() (in MaestroReader)	Report2D (in schrodinger.application.report2d)	revert_to_original() (in Rama)
read() (in Structure)	report_add_logo() (in schrodinger.application.desmond.report_helper)	revert_to_saved() (in Rama)
read_all_ct() (in schrodinger.application.desmond.struc)	report_add_ms_logo() (in schrodinger.application.desmond.report_helper)	revertCollection() (in SimpleEnumDockPanel)
read_anni_fep_cms() (in schrodinger.application.desmond.struc)	report_data_points() (in data_set)	revertCombLib() (in SimpleEnumDockPanel)
read_cfg() (in FEPSimulationReport)	report_helper (in schrodinger.application.desmond)	revertInitialRunParams() (in WriteInputs)
read_cluster_file() (in WaterMapAnaJob)	report_results() (in schrodinger.test.performance)	reviseIonizedGroup() (in Ionizer)
read_cms() (in FEPSimulationReport)	report_status() (in TestJob)	rewind() (in DebugEventListener)
read_cms() (in schrodinger.trajectory.cmsstructure)	report_t() (in SimulatedAnnealing)	rewind() (in DebugEventSocketProxy)
read_constraints() (in schrodinger.application.glide.glide)	Reporter	rewind() (in DebugTokenStream)
read_csv() (in EnsembleSelection)	reportError() (in DebugParser)	rewind() (in ANTLRStringStream)
read_ct() (in schrodinger.structure)	reportError() (in BaseRecognizer)	rewind() (in CommonTokenStream)
read_data_from_log_file() (in schrodinger.application.desmond.replica_exchange_review)	reportError() (in Lexer)	rewind() (in IntStream)
read_dE_file() (in schrodinger.application.desmond.fepana)	reportError() (in mexpLexer)	rewind() (in CommonTreeNodeStream)
read_dE_Replicas() (in replica_container)	reportError() (in mexpParser)	rewrite() (in ChmCSVTools)
read_exp_dg() (in EnsembleSelection)	reportFinalResults() (in FEPReportMaker)	rewriteByIndex() (in ChmCSVTools)
read_fep_cms() (in schrodinger.application.desmond.struc)	ReportFrame (in schrodinger.application.bioluminate.protein_report_widget)	rewriteByName() (in ChmCSVTools)
read_FEP_REST_energetics() (in FEPReportMaker)	reportLigandsDetails() (in FEPReportMaker)	RewriteCardinalityException (in schrodinger.application.desmond.antlr3.tree)
read_FEPSimulation() (in FEPReportMaker)	reportParameters() (in Pipeline)	RewriteEarlyExitException (in schrodinger.application.desmond.antlr3.tree)
read_frame() (in _FepTrajectory)	reportParameters() (in Stage)	RewriteEmptyStreamException (in schrodinger.application.desmond.antlr3.tree)
read_keys() (in schrodinger.utils.ligfilter)	reportProteinDetails() (in FEPReportMaker)	RewriteOperation (in schrodinger.application.desmond.antlr3.streams)
read_keywords_file() (in schrodinger.application.glide.glide)	reportReplicaExchanges() (in FEPReportMaker)	RewriteRuleElementStream (in schrodinger.application.desmond.antlr3.tree)
read_LigandInfo() (in FEPReportMaker)	reportReplicaPairEnergies() (in FEPReportMaker)	RewriteRuleNodeStream (in schrodinger.application.desmond.antlr3.tree)
read_meta_cfg() (in schrodinger.application.desmond.meta)	reportSet() (in ProteinReportCheck)	RewriteRuleSubtreeStream (in schrodinger.application.desmond.antlr3.tree)
read_mode (in CMSReader)	reportSimulationDetails() (in FEPReportMaker)	RewriteRuleTokenStream (in schrodinger.application.desmond.antlr3.tree)
read_mode (in MaestroReader)	reposition() (in _ScrolledDouble)	rgb (in schrodinger.application.bioluminate.pml_menus)
read_mode (in MaestroTextReader)	REPOSITORY (in schrodinger.test.stu.outcomes.desmond)	rgb (in Color)
read_only (in ProjectRow)	rept_file_ext (in Calculator)	rgb_float (in Color)
read_output (in schrodinger.application.mcpro)	request (in schrodinger.application.desmond.ana)	RGroupException (in schrodinger.application.canvas.r_group)
read_ProteinInfo() (in FEPReportMaker)	requestCpus() (in Pipeline)	RGroupFinder (in schrodinger.application.canvas.r_group)
read_readme() (in TestScript)	require_argument() (in schrodinger.job.hunt_stub)	RGroupStructureToolTip (in schrodinger.application.matsci.builderwidgets)
read_REST_exchanges() (in FEPReportMaker)	require_display() (in schrodinger.test.test_markers)	RIBBON_RAINBOW_COLORS (in schrodinger.application.bioluminate.pml_menus)
read_text() (in SystemBuilderInput)	requireApiKey() (in TestUtility)	RIBBON_SCHEME (in ShowCartoon)
read_trj_idx_file() (in schrodinger.trajectory.analyze_trajectories)	requiredProduct() (in Stage)	RIBBON_SCHEME (in ShowCartoonOrRibbon)
read_unique_field() (in schrodinger.pipeline.pipeutils)	requiredProductRuntime() (in Stage)	RIBBON_SCHEME (in ShowRibbon)
read_yaml() (in schrodinger.application.glide.glide)	requirement (in LocalhostJob)	RIBBON_STYLE (in schrodinger.application.bioluminate.pml_menus)
read_zmat() (in Zmat)	requirement (in RequirementsJob)	right() (in WidgetTable)
readAgain() (in Job)	RequirementsJob (in schrodinger.job.queue)	RIGHT_CLICK_CALLBACK (in schrodinger.maestro.maestro)
readCommand() (in GuiApp)	requires_energy() (in _KeywordProcessor)	right_click_callback_add() (in schrodinger.maestro.maestro)
readData() (in schrodinger.infra.propedit)	reroot() (in schrodinger.application.desmond.reorder_atom)	right_click_callback_remove() (in schrodinger.maestro.maestro)
readDb() (in JoiningRules)	res (in schrodinger.protein.analysis)	RIGHT_DOCK_AREA (in schrodinger.ui.qt.appframework)
ReadDialog (in schrodinger.ui.appframework)	res_can_be_capped() (in schrodinger.protein.captermini)	right_shift (in schrodinger.protein.assignment)
ReadDialog (in schrodinger.ui.qt.appframework)	RES_MARKER (in schrodinger.application.desmond.fep_protein_prep)	RIGID_COORD_SCAN (in schrodinger.application.jaguar.gui.task_names)
ReadEditMixin (in schrodinger.application.jaguar.gui.base_panel)	RES_TO_IGNORE (in SaltBridgeFinder)	rigidify_geo_vars() (in Zmat)
readFile() (in Adduct)	rescale_ff() (in schrodinger.application.desmond.remd)	ring (in TextualStructure)
readFile() (in JoiningRules)	rescale_ff_solute_tempering() (in schrodinger.application.desmond.remd)	ring() (in Structure)
readFile() (in Substrate)	RESELECT_CURRENT_TEMPLATE (in schrodinger.application.matsci.builderwidgets)	ring_centroid() (in schrodinger.structutils.interactions.pi)
readFile() (in Pipeline)	reserve() (in SwigDoubleVector)	RING_MUTATION (in schrodinger.application.desmond.fep_gui)
ReadFileDialog (in schrodinger.application.jaguar.gui.filedialog)	reserve() (in SwigDoubleVector3)	rint (in schrodinger.protein.assignment)
readFilterCriteria() (in LigfilterFrame)	reserve() (in SwigIntVector)	RM1 (in schrodinger.application.mopac)
readFragmentLibrary() (in Ionizer)	reserve() (in SwigStringVector)	RMSD (in schrodinger.application.desmond.mdpose.mdpose_analysis)
readFromIndex() (in ProjectReader)	reserve() (in SwigUInt64Vector)	rmsd (in schrodinger.application.vsw.stages)
readFromIndex() (in StructureFileReader)	reserve() (in SwigUnsignedIntVector)	rmsd (in schrodinger.pipeline.stages)
readFromOffset() (in MaestroReader)	reserve() (in SwigUnsignedIntVector2)	rmsd (in schrodinger.structutils)
README2TEST (in schrodinger.test.stu.testscripts)	reserve() (in SwigVectorIntIntPair)	RMSD (in schrodinger.trajectory.analysis)
READMESyntaxError (in schrodinger.test.stu.testscripts)	reserve() (in SwigDoubleVector)	rmsd() (in schrodinger.test.stu.outcomes.structure_comparisons)
readNewFormat() (in Pipeline)	reserve() (in SwigDoubleVector3)	rmsd2d (in schrodinger.trajectory)
readNewFormatStage() (in Pipeline)	reserve() (in SwigIntVector)	rmsd_comb() (in EnsembleSelection)
readNewFormatVariable() (in Pipeline)	reserve() (in SwigStringVector)	rmsd_in_place() (in schrodinger.test.stu.outcomes.structure_comparisons)
readNext() (in ProjectReader)	reserve() (in SwigUInt64Vector)	RMSDCalculator (in schrodinger.trajectory.rmsd2d)
readNext() (in StructureFileReader)	reserve() (in SwigUnsignedIntVector)	RMSDMultiprocessing (in schrodinger.trajectory.rmsd2d)
readPkl() (in Backend)	reserve() (in SwigUnsignedIntVector2)	RmsdStage (in schrodinger.pipeline.stages.rmsd)
readSpecFile() (in Ionizer)	reserve() (in SwigVectorIntIntPair)	RMSDSyntax (in schrodinger.application.desmond.enhanced_sampling.FcnTypes)
readStereoChemistry() (in sketcherBond)	reserve() (in SwigAtomList)	RMSDThreading (in schrodinger.trajectory.rmsd2d)
readTemplateStructure() (in SketcherBox)	reserve() (in SwigAtomPairLists)	RMSF (in schrodinger.trajectory.analysis)
readValueList() (in SubSetStage)	reserve() (in SwigAtomQueryParamsList)	RMSF_PROPERTY (in schrodinger.application.desmond.mdpose.mdpose_average_structure)
readyToRun() (in StageJob)	reserve() (in SwigPiCationLists)	RobustSubmissionJob (in schrodinger.application.matsci.jaguarworkflows)
REAL_RE (in schrodinger.test.stu.outcomes.desmond)	reserve() (in SwigPiPiLists)	rock_data (in schrodinger.application.bioluminate.pml_menus)
real_to_int() (in schrodinger.application.desmond.gconfig)	reserve() (in SwigRingList)	rock_workspace() (in schrodinger.application.bioluminate.pml_menus)
reassignHets() (in FixForPrime)	reset() (in FrameworkModel)	RockData (in schrodinger.application.bioluminate.pml_menus)
reassignResNums() (in FixForPrime)	reset() (in TableView)	rollback() (in TokenRewriteStream)
rebuild_scripts_menu() (in schrodinger.maestro.maestro)	reset() (in PresetAction)	rollback() (in CfgAtom)
rebuild_workflows_menu() (in schrodinger.maestro.maestro)	reset() (in ConnectionStorage)	rollback() (in Key)
recalc() (in _StructureChainIterator)	reset() (in BaseRecognizer)	rolmp2() (in schrodinger.application.jaguar.output)
recalc() (in _StructureMoleculeIterator)	reset() (in Lexer)	rot_vect() (in schrodinger.application.lid.lid2d.utils)
recalc() (in _StructureRingIterator)	reset() (in Parser)	rotamers (in schrodinger.protein)
recap_cap (in schrodinger.infra.mm)	reset() (in ANTLRStringStream)	Rotamers (in schrodinger.protein.rotamers)
RECAP_ERR (in schrodinger.infra.mm)	reset() (in CommonTokenStream)	rotamers (in Rotamers)
recap_maps (in schrodinger.infra.mm)	reset() (in CommonTreeNodeStream)	rotatable_changeable (in ProtAssign)
RECAP_OK (in schrodinger.infra.mm)	reset() (in RewriteRuleElementStream)	rotate (in schrodinger.application.lid.lid2d)
RECAP_PATTERNS (in schrodinger.structutils.createfragments)	reset() (in TreeParser)	rotate_all_bonds_and_save() (in schrodinger.application.lid.lid2d.rotate)
recap_prepare (in schrodinger.infra.mm)	reset() (in Engine)	rotate_all_bonds_and_save_path_sorted() (in schrodinger.application.lid.lid2d.rotate)
RECAP_PROP_PREFIX (in schrodinger.structutils.createfragments)	reset() (in Queue)	rotate_bond_test_and_return_best() (in schrodinger.application.lid.lid2d.rotate)
recap_reset (in schrodinger.infra.mm)	reset() (in RetryTimer)	rotate_bonds_in_order_and_save() (in schrodinger.application.lid.lid2d.rotate)
recap_uncap (in schrodinger.infra.mm)	reset() (in _DesmondProt)	rotate_double_bonds() (in schrodinger.application.matsci.nano.util)
receivers() (in sketcher)	reset() (in _McproProt)	rotate_icon() (in JobStatusToolButton)
receivers() (in sketcherGUIMultiColumnToolBar)	reset() (in _ProtItem)	rotate_structure() (in schrodinger.structutils.transform)
receivers() (in sketcherScene)	reset() (in InputGroup)	rotateNanoSheet() (in NanoSheet)
receivers() (in sketcherView)	reset() (in Guide)	rotateProteinToMembrane() (in Membrane_Model)
RECENT_TEMPLATE_FILE (in schrodinger.application.matsci.builderwidgets)	reset() (in SystemBuilderInput)	rotateTube() (in NanoTube)
RecentCarbonColorSubMenu (in schrodinger.application.bioluminate.pml_menus)	reset() (in Counter)	rotation_points_add() (in schrodinger.maestro.maestro)
RecentColorSubMenu (in schrodinger.application.bioluminate.pml_menus)	reset() (in BasePanel)	rotation_points_remove() (in schrodinger.maestro.maestro)
RecentHydrogenColorSubMenu (in schrodinger.application.bioluminate.pml_menus)	reset() (in ProjEntry)	rotational_strength_precision (in NormalMode)
RecentObjectColorSubMenu (in schrodinger.application.bioluminate.pml_menus)	reset() (in SelectedEntriesModel)	rotVector() (in schrodinger.application.lid.lid2d.utils)
receptor_atom_flags (in schrodinger.structutils.interactions.pi)	reset() (in ProjEntryPka)	ROULETTE_WHEEL_SELECTION (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)
receptor_atom_flags (in schrodinger.structutils.interactions)	reset() (in BaseTab)	round() (in WriteInputs)
reciprocal (in schrodinger.protein.assignment)	reset() (in CoordinatesModel)	row (in WidgetTable)
RecognitionException (in schrodinger.application.desmond.antlr3.exceptions)	reset() (in InputTabBase)	row_charge (in ProjEntry)
recognitionException() (in DebugEventListener)	reset() (in InputTabHB)	RowActionItem (in schrodinger.application.bioluminate.bwidgets)
recognitionException() (in DebugEventSocketProxy)	reset() (in MoleculeTabPka)	rowCount() (in FrameworkModel)
recognizers (in schrodinger.application.desmond.antlr3)	reset() (in MultiStructureTab)	rowCount() (in CriteriaListModel)
RecognizerSharedState (in schrodinger.application.desmond.antlr3.recognizers)	reset() (in ReactionPropertiesTab)	rowCount() (in DataModel)
recolorPlot() (in HomologyRama)	reset() (in ReactionTab)	rowCount() (in PathModel)
recombine_solutions() (in hbond_cluster)	reset() (in ScfTabConsistentOrbitals)	rowCount() (in ResiduesModel)
recombineInputLigands() (in DockingStage)	reset() (in ItemRow)	rowCount() (in StrucListModel)
recombineInputLigands() (in LigPrepStage)	reset() (in SketcherBox)	rowCount() (in AtomGroupModel)
recombineInputLigands() (in ConfSearchStage)	reset() (in CompactSolventSelector)	rowCount() (in PosResModel)
recombineInputLigands() (in QikPropStage)	reset() (in EmbeddedSolventWidget)	rowCount() (in TableModel)
recombineInputLigands() (in SemiEmpStage)	reset() (in ReorderAtomFrame)	rowCount() (in SelectedEntriesModel)
RecombineStage (in schrodinger.pipeline.stages.gencodes)	reset() (in StructureFrame)	rowCount() (in CoordinatesModel)
record() (in RecordDebugEventListener)	reset() (in StructurePic)	rowCount() (in ChooseLigandModel)
record() (in TraceDebugEventListener)	reset() (in DrawDdgPanel)	rowCount() (in ChooseLigandModel)
record_current_indices() (in ProtAssign)	reset() (in DrawFepPanel)	rowCount() (in CriteriaListModel)
record_error() (in _Evalor)	reset() (in DrawLrmPanel)	rowCount() (in PatternModel)
record_error() (in _Evalor)	reset() (in DrawMcPanel)	rowCount() (in MultiHostTableModel)
RecordDebugEventListener (in schrodinger.application.desmond.antlr3.debug)	reset() (in DrawMiniPanel)	rowGetExpanded() (in Table)
recover() (in BaseRecognizer)	reset() (in ModelSystem)	rowGetVisible() (in Table)
recover() (in Lexer)	reset() (in DrawSolventPanel)	RowIterator (in schrodinger.ui.widgettable)
recover_macro() (in CfgAtom)	reset() (in AnalyzeEnergyWidget)	rowPos() (in _Cell)
recover_macro() (in Key)	reset() (in HuntCache)	rowPos() (in _Row)
recoverFromMismatchedSet() (in BaseRecognizer)	reset() (in StructuralInteractionFingerprintGenerator)	RowProxy (in schrodinger.utils.pymol)
recoverFromMismatchedToken() (in BaseRecognizer)	reset_colors() (in schrodinger.application.combiglide.connection_storage)	rowSetExpanded() (in Table)
recoverFromScratch() (in TestScript)	reset_protein() (in _ChopCap)	rowSetVisible() (in Table)
Rectangle (in schrodinger.application.matsci.nano.tube)	reset_protein() (in _Neut)	rrho() (in ComUtil)
rectangle_overlaps_sphere() (in schrodinger.application.lid.lid2d.utils)	reset_sizes_clicked() (in SaveFileDialog)	rsh_errors_re (in schrodinger.job.remote_command)
rectangles_overlap() (in schrodinger.application.lid.lid2d.utils)	reset_tag() (in Sea)	rsh_exec (in schrodinger.job.remote_command)
rectArea2D() (in schrodinger.application.lid.lid2d.utils)	RESET_TO_DEFAULT_CUSTOM_DIR (in schrodinger.application.matsci.builderwidgets)	rsh_max_retries (in schrodinger.job.remote_command)
RED (in schrodinger.application.bioluminate.pml_menus)	reset_workspace_transformations() (in schrodinger.maestro.maestro)	rsh_src (in schrodinger.job.remote_command)
red (in schrodinger.application.lid.lid2d.rotate)	resetAcceptedRow() (in FullProxyModel)	rsh_test() (in schrodinger.job.remote_command)
red (in schrodinger.application.lid.ligand_interaction_diagram)	resetApp() (in schrodinger.application.lid.ligand_interaction_diagram_gui)	rsh_timeout (in schrodinger.job.remote_command)
redefineLatticeVecs() (in NanoTubeSheet)	resetAtomGroupTable() (in AtomGroupFrame)	rsh_warning_issued (in schrodinger.job.remote_command)
redraw() (in ClusterStatisticsPlotDialog)	resetData() (in CriteriaListModel)	RSI (in Icons)
redraw() (in DendrogramPlotDialog)	resetEnsClass() (in EnsembleTab)	rsq() (in schrodinger.test.stu.outcomes.desmond)
redraw() (in DistanceMatrixPlotDialog)	resetfp() (in CanvasFingerprintGeneratorGUI)	RT (in schrodinger.application.ligprep.ionizer)
redraw() (in SelectedEntriesProxyModel)	resetFromModel() (in AtomGroupFrame)	RT_COLOR_LABEL_END (in schrodinger.application.bioluminate.pml_menus)
redraw() (in schrodinger.maestro.maestro)	resetFromModel() (in InteractionTab)	RT_COLOR_LABEL_START (in schrodinger.application.bioluminate.pml_menus)
redraw_request() (in schrodinger.maestro.maestro)	resetFromModel() (in MdcMiscTab)	RT_LN_10 (in schrodinger.application.ligprep.ionizer)
redraw_sphere() (in DrawSolventPanel)	resetFromModel() (in RestraintsTab)	RT_TO_MAESTRO_COLORS (in schrodinger.application.bioluminate.pml_menus)
reduced_mass_precision (in NormalMode)	resetFromModel() (in _BaseAdvancedDialog)	RULE (in DesmondTyper)
reduced_set() (in Zmat)	resetGroup() (in Preferences)	RULE (in McproTyper)
reduceToSingleOperationPerIndex() (in TokenRewriteStream)	resetInputContext() (in sketcher)	RULE (in WatermapTyper)
redundancy_tolerance (in water_changeable)	resetInputContext() (in sketcherGUIMultiColumnToolBar)	rulePostProcessing() (in DebugTreeAdaptor)
REEX (in schrodinger.test.stu.outcomes.desmond)	resetInputContext() (in sketcherView)	rulePostProcessing() (in BaseTreeAdaptor)
ref_keys (in SiteMatchLookup)	resetLabelOptions() (in WorkspaceLabeler)	rulePostProcessing() (in TreeAdaptor)
REF_LICENSE_CHECK_FILE (in schrodinger.test.stu.constants)	resetLists() (in DescriptorsUI)	RuleReturnScope (in schrodinger.application.desmond.antlr3.recognizers)
REF_MARKER (in schrodinger.application.desmond.fep_protein_prep)	resetLists() (in QikPropUI)	run (in schrodinger.test.stu)
refAtomFromCompAtom() (in ReorderAtomFrame)	resetMap() (in ReorderAtomFrame)	run() (in SimulatedAnnealing)
refcount (in _StructureDeleter)	resetMaxIter() (in MinimizationTab)	run() (in Queue)
REFERENCE (in schrodinger.application.matsci.reordergui)	resetMaxIter() (in MinimizerFrame)	run() (in Workflow)
REFERENCE_FILTERS (in SequenceFileDialog)	resetMode() (in DrawSolventPanel)	run() (in Workflow)
referenceFragChanged() (in _Pert)	resetPanel() (in _App)	run() (in Contact)
ReferenceFrame (in schrodinger.application.matsci.reordergui)	resetPanel() (in GuiApp)	run() (in ContactCmd)
ReferenceListWidget (in schrodinger.application.matsci.reordergui)	resetPanel() (in App)	run() (in MDPoseAnalysis)
refill_queue() (in Queue)	resetParentProperties() (in StructureGenome)	run() (in RMSD)
refine_structure() (in schrodinger.application.desmond.mdpose.mdpose_average_structure)	resetPosResTable() (in RestraintsTab)	run() (in Tanimoto)
refinePrime() (in Refiner)	resetSlots() (in ComplexBuilder)	run() (in MDPoseGlideJob)
Refiner (in schrodinger.application.bioluminate.protein)	resetStructure() (in JaguarInput)	run() (in MDPoseStrainJob)
refresh() (in _MdcBase)	resetThermoTemp() (in EnsembleTab)	run() (in MDSimulation)
refreshFragList() (in _Pert)	residue (in Sequence)	run() (in RestInput)
refreshTable() (in Project)	residue (in Structure)	run() (in AnalysisJob)
reg_checking() (in schrodinger.application.desmond.cmj)	residue (in TextualStructure)	run() (in FepanaJob)
reg_xcheck() (in schrodinger.application.desmond.mdkey)	residue (in _Chain)	run() (in MetadynamicsAnalysisJob)
reg_xcheck() (in schrodinger.utils.sea)	residue (in _Molecule)	run() (in SeaJob)
regenerate_markers() (in schrodinger.maestro.maestro)	RESIDUE_CALCULATIONS (in PropertyCalculator)	run() (in TimeSeriesAnalysisJob)
regeneratePic() (in _StructViewItem)	residue_indices (in Consensus)	run() (in WaterMapAnaJob)
regeneratePic() (in _zoomViewItem)	residue_interaction (in schrodinger.application.prime)	run() (in SystemBuilderInput)
regeneratePicture() (in ReactionParticipant)	residue_is_nonpolar() (in schrodinger.application.bioluminate.protein)	run() (in TestSuite)
REGEXS (in schrodinger.application.bioluminate.propka_parse)	residue_is_polar() (in schrodinger.application.bioluminate.protein)	run() (in JaguarInput)
RegionInfo (in schrodinger.application.bioluminate.pml_menus)	residue_outside_of_image() (in schrodinger.application.lid.lid2d.overlap)	run() (in schrodinger.application.lid.ligand_interaction_diagram_test)
registerItem() (in Scheme)	residue_overlaps_hbond_or_pipi() (in schrodinger.application.lid.lid2d.overlap)	run() (in schrodinger.application.mopac)
regularized_structure (in Ligand)	residue_overlaps_ligand_or_label() (in schrodinger.application.lid.lid2d.overlap)	run() (in _CommonProblemsFixer)
Reinitialize (in schrodinger.application.bioluminate.pml_menus)	RESIDUE_ROTOR_COUNT (in schrodinger.application.bioluminate.protein)	run() (in PicturePrinter)
REJECT (in schrodinger.application.jaguar.gui.basis_selector)	residue_score (in schrodinger.application.desmond.mdpose.mdpose_neutralize)	run() (in WaterMapInput)
reject() (in ValueSelectionDialog)	residues (in Consensus)	run() (in App)
reject() (in DEE_Backtracking)	ResiduesModel (in schrodinger.application.desmond.fep_gui)	run() (in BaseJob)
reject() (in _BaseAdvancedDialog)	residuetools (in schrodinger.application.mcpro)	run() (in JobDJ)
reject() (in ReorderAtomsDialog)	ResidueTools (in schrodinger.application.mcpro.residuetools)	run() (in ThreadedJob)
rejected() (in AddDefinitionDialog)	residueUID() (in schrodinger.application.lid.lid2d.schroutils)	run() (in Pipeline)
relative_to_ligand_scale (in schrodinger.application.lid.ligand_interaction_diagram)	Resize() (in schrodinger.analysis.visanalysis.volumedatautils)	run() (in Stage)
RELAXED_COORD_SCAN (in schrodinger.application.jaguar.gui.task_names)	resize() (in Bitset)	run() (in FrameLoader)
RelaxFrame (in schrodinger.application.desmond.gui)	resize() (in SwigDoubleVector)	run() (in RMSDCalculator)
release() (in DebugTokenStream)	resize() (in SwigDoubleVector3)	run_align() (in schrodinger.application.ska)
release() (in ANTLRStringStream)	resize() (in SwigIntVector)	run_analysis() (in steric_clash_data_set)
release() (in CommonTokenStream)	resize() (in SwigStringVector)	run_apbs() (in schrodinger.application.desmond.fep_net_charge)
release() (in IntStream)	resize() (in SwigUInt64Vector)	run_bennett() (in schrodinger.application.desmond.fepana)
release() (in CommonTreeNodeStream)	resize() (in SwigUnsignedIntVector)	run_bennett() (in replica_container)
release() (in StageBase)	resize() (in SwigUnsignedIntVector2)	run_comparison() (in schrodinger.test.stu.workup)
release() (in Concluder)	resize() (in SwigVectorIntIntPair)	run_desmond_ff_builder() (in schrodinger.application.desmond.fepdiff)
releaseOwnership() (in Structure)	resize() (in SwigDoubleVector)	RUN_JOBS (in schrodinger.application.macromodel.paraUtils)
reload (in JaguarInput)	resize() (in SwigDoubleVector3)	run_kwargs (in JaguarInput)
reload() (in schrodinger.application.lid.ligand_interaction_diagram_gui)	resize() (in SwigIntVector)	run_maestro_cmd() (in schrodinger.application.desmond.mdpose.mdpose_analysis)
RELOAD_STRUCTURE (in EditDialog)	resize() (in SwigStringVector)	run_mutation_generator() (in ProteinMutationGenerator)
relpath() (in schrodinger.application.desmond.util)	resize() (in SwigUInt64Vector)	run_propka (in schrodinger.application.bioluminate)
remainder (in schrodinger.protein.assignment)	resize() (in SwigUnsignedIntVector)	run_propka() (in schrodinger.application.bioluminate.run_propka)
remap_members() (in Ensemble)	resize() (in SwigUnsignedIntVector2)	run_propka() (in ProtAssign)
REMD (in schrodinger.application.desmond.config)	resize() (in SwigVectorIntIntPair)	run_protein_prep() (in ProteinFepMapper)
remd (in schrodinger.application.desmond)	resize() (in SwigAtomList)	run_requested() (in EditDialog)
REMD() (in DEFAULT_SETTING)	resize() (in SwigAtomPairLists)	run_rga() (in schrodinger.application.desmond.fep_mapping)
remediate (in schrodinger.protein)	resize() (in SwigAtomQueryParamsList)	run_ska() (in schrodinger.infra._ska)
remediate_ct() (in schrodinger.protein.remediate)	resize() (in SwigPiCationLists)	run_workflows() (in schrodinger.application.matsci.jaguarworkflows)
REMOTE (in schrodinger.test.stu.sysinfo)	resize() (in SwigPiPiLists)	runAll() (in schrodinger.application.lid.ligand_interaction_diagram_test)
remote_command (in schrodinger.job)	resize() (in SwigRingList)	runBennett() (in schrodinger.test.stu.outcomes.desmond)
remote_command() (in schrodinger.job.remote_command)	resize() (in _Column)	runCluFile() (in CluUtil)
REMOTE_MMSHARE_EXEC (in Startup)	resize_restr_block() (in _AtomGroup)	runCommand() (in AppFramework)
remotehost (in ResultReporter)	resize_restr_block() (in schrodinger.application.desmond.mdkey)	runEditedInput() (in ReadEditMixin)
REMOVE (in schrodinger.application.mopac)	RESIZE_THRESHOLD (in schrodinger.ui.widgettable)	runIt() (in GeneticOptimization)
remove() (in SlidableLine)	resize_window() (in schrodinger.application.desmond.util)	runJob() (in EditDialog)
remove() (in JobOutput)	resize_window2() (in schrodinger.application.desmond.util)	runJobDJ() (in Stage)
remove() (in _MdcBase)	resizeCells() (in WidgetTable)	runJobs() (in TestUtility)
remove() (in FirstSecondaryStructure)	resizeEvent() (in _StructView)	runMasterjob() (in Backend)
remove() (in SecondSecondaryStructure)	resizeEvent() (in sketcher)	Runner (in schrodinger.test.stu.run)
remove() (in Group)	resizeEvent() (in sketcherGUIMultiColumnToolBar)	RUNNING (in JobStatus)
remove() (in LinkedList)	resizeEvent() (in sketcherView)	RUNNING (in schrodinger.pipeline.pipeline)
remove() (in RunningJobs)	ResizeMode	RunningJobs (in schrodinger.job.queue)
remove() (in _Callback)	resKey() (in InteractionReader)	runpKa() (in PropertyCalculator)
remove() (in _Column)	resnum (in Cut)	runPrimeLoopPrediction() (in Refiner)
remove() (in Preferences)	resnum (in _Residue)	runPrimeMinimization() (in Refiner)
remove_changeables_from_hbonders() (in ProtAssign)	resnum (in _StructureAtom)	runPrimeResidue() (in Refiner)
remove_dummy_atoms() (in Membrane_Model)	resolution (in _VDAxis)	runPrimeSidechain() (in Refiner)
remove_dupes() (in schrodinger.structutils.smilesfilter)	resolution (in _VDCoordinateFrame)	runPrimeSidechainBB() (in Refiner)
remove_extra_rotable_atoms() (in schrodinger.application.desmond.r_group_asl)	RESOLUTION_DEFAULT (in schrodinger.graphics3d.arrow)	runPrimeSidechainCBeta() (in Refiner)
remove_file() (in schrodinger.application.desmond.util)	RESOLUTION_DEFAULT (in schrodinger.graphics3d.sphere)	runPythonMinimize() (in Refiner)
remove_hypo_if_present() (in schrodinger.application.phase.hypothesis)	RESOLUTION_MAX (in schrodinger.graphics3d.arrow)	runRefinement() (in Refiner)
remove_object() (in schrodinger.maestro.maestro)	RESOLUTION_MAX (in schrodinger.graphics3d.sphere)	runSingleStruc() (in AnalyzeEnergyWidget)
remove_option() (in SingleDashOptionParser)	RESOLUTION_MIN (in schrodinger.graphics3d.arrow)	runsLocally() (in BaseJob)
remove_plugin() (in schrodinger.application.desmond.config)	RESOLUTION_MIN (in schrodinger.graphics3d.sphere)	runsLocally() (in JobControlJob)
remove_plugin() (in schrodinger.application.desmond.mdkey)	resolve_atomsel() (in FcnCall)	runSubjobs() (in Backend)
remove_stereo_annotation() (in schrodinger.structutils.smiles)	resolve_atomsel() (in Node)	runTabValidation() (in BasePanel)
remove_tag() (in Sea)	resolve_atomsel() (in schrodinger.application.desmond.enhsamp)	runTransmutations() (in Alchemist)
remove_temp_dir() (in schrodinger.application.desmond.mplchart)	resolve_links() (in schrodinger.application.combiglide.combenumdock)	runTransmutations() (in ElementAlchemist)
remove_zero_order_bonds() (in ProtAssign)	resolveCoordsConflict() (in OptimizationAndScanMixin)	runWorkup() (in TestScript)
removeAction() (in Factory)	RESONANCE (in TheoryTab)	runXCluFile() (in CluUtil)
removeAllCallbacks() (in JobInputFrame)	respaBondChanged() (in IntegrationTab)	rxn_channel (in schrodinger.application.matsci)
removeAllDescriptors() (in DescriptorsUI)	rest_inp (in schrodinger.application.desmond)	rxn_channel (in schrodinger.application.matsci.rxn_channel)
removeAllProps() (in QikPropUI)	REST_MARKER (in schrodinger.application.desmond.fep_protein_prep)	rxn_coord_precision (in JaguarResults)
removeAllRows() (in WidgetTable)	REST_MARKER (in schrodinger.application.desmond.rest_inp)	RXN_REPRESENTATION_KEY (in Products)