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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 _ ]

A

a (in schrodinger.application.desmond.mdkey)	addScript() (in Runner)	appendLigand() (in Complex)
A_KEY (in Crystal)	addScriptArgs() (in Launcher)	appendNewCollection() (in SimpleEnumDockPanel)
A_PARAM (in ParserWrapper)	addSegmentPlaneIntersectionsToTemplate() (in ConvexPolyhedron)	appendReceptor() (in Complex)
AA_1_LETTER_MAP (in schrodinger.application.bioluminate.protein)	addSeries() (in Plotter)	appendStruct() (in collectionViewerModel)
AA_3_LETTER_MAP (in schrodinger.application.bioluminate.protein)	addServerArg() (in TestRunnerParser)	appframework (in schrodinger.ui)
aacg (in schrodinger.application)	addSettings() (in WriteInputs)	AppFramework (in schrodinger.ui.appframework)
Aacg_SiteMap_Multijob (in schrodinger.application.desmond.stage)	addSite() (in _FFIO)	AppJobInputFrame (in schrodinger.ui.appframework)
ABAB (in Constants)	addSites() (in _FFIO)	application (in schrodinger)
ABC_VALUE (in schrodinger.application.matsci.nano.particle)	addSkipArg() (in TestRunnerParser)	APPLICATION_NAME (in Startup)
ABCD (in Constants)	addSpaceGroupPBC() (in Scaffold)	APPLICATION_NAME (in UI)
ABCMeta	addStage() (in MultiStageArea)	apply() (in GaussianFilter)
accept() (in ActiveDatabaseDialog)	addStage() (in LinearWriter)	apply() (in _Rotamer)
accept() (in PropFilterDialog)	addStage() (in Writer)	apply() (in ColorScheme)
accept() (in ValueSelectionDialog)	addStretchfbhw() (in _FFIO)	apply() (in Superimposer)
accept() (in DEE_Backtracking)	addStretchfbhws() (in _FFIO)	apply() (in List)
accept() (in EditDialog)	addString() (in sketcher)	apply() (in Map)
accept() (in SolventDialog)	addStructToCollection() (in _zoomViewItem)	apply() (in Sea)
accept() (in ReorderAtomsDialog)	addStructure() (in sketcher)	apply_color_scheme() (in schrodinger.structutils.color)
accept() (in ChooseLigandDialog)	addSubMenu() (in Factory)	apply_dihedral() (in Rama)
accept_reject_parse() (in schrodinger.application.desmond.replica_exchange_review)	addSubTabMarker() (in SubTabMixin)	apply_exclusion() (in schrodinger.application.desmond.r_group_asl)
accepted (in EditDialog)	addSubTabs() (in InputTabWithSubTabs)	apply_jaguar_atom_naming() (in schrodinger.application.jaguar.gui.utils)
ACCEPTED_FRAMEWORK_COLOR (in FullProxyModel)	addSurfaceToProject() (in ProjectSurface)	apply_uniform_operator_weights() (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)
ACCEPTOR_POS (in StructuralInteractionFingerprintGenerator)	addTempHydrogens() (in ReactantMolecule)	applyContextDependentDefaults() (in Dock)
AcceptorConstraint (in schrodinger.application.glide.glide)	addTempInputFile() (in Launcher)	applyContextDependentDefaults() (in GlideJob)
ACCURACY (in schrodinger.application.matsci.optoelectronics)	addTestIDArg() (in TestRunnerParser)	applyCurrentCollection() (in SimpleEnumDockPanel)
ACCURACY_LEVELS (in ScfTab)	addTestLimitations() (in TestRunnerParser)	applyCurrentSelection() (in SimpleEnumDockPanel)
ACCURATE (in QualitySlider)	addTextToSet() (in AsetFrame)	applyEnergyFilter() (in DEE_EnergyMatrix)
ACIDIC_RESIDUES (in schrodinger.application.bioluminate.protein)	addToAuxListbox() (in PropertySelector)	applyGoldsteinSingles() (in DEE_EnergyMatrix)
ACIDIC_RESIDUES (in schrodinger.structutils)	addToolBars() (in ViewerWindow)	applyGroupSelections() (in MutationSelectorFrame)
ack() (in DebugEventSocketProxy)	addTorsionRestraint() (in Minimizer)	ApplyJoiningRules (in schrodinger.application.combiglide.packages.chutils)
actinide_series (in schrodinger.application.prime.primefix)	addToWorkspace() (in ParticipantView)	applyRampToColorSchemeRules() (in ColorSchemeManager)
ACTION_NAME (in schrodinger.application.bioluminate.actions.factory)	addToWorkspace() (in ReactionParticipant)	applyRule() (in MM_CSchemeRule)
ActionEvent	Adduct (in schrodinger.application.combiglide.packages.chutils)	applyScheme() (in ColorSchemeManager)
actionEvent() (in DendrogramView)	AdductAttachment (in schrodinger.application.combiglide.packages.chutils)	applyScheme() (in MM_CScheme)
actionEvent() (in sketcher)	adducts (in Adduct)	applySchemeDescriptive() (in ColorSchemeManager)
actionEvent() (in sketcherGUIMultiColumnToolBar)	addUndoRedoToolBar() (in ViewerWindow)	applySettings() (in FEPConfigDialog)
actionEvent() (in sketcherView)	addVar() (in LinearWriter)	applySettings() (in AdvOptionsFrame)
ActionMenu (in schrodinger.application.bioluminate.pml_menus)	addVar() (in Writer)	applySettings() (in DesmondGuiConfigDialog)
actions (in schrodinger.application.bioluminate)	addVdwtype() (in _FFIO)	applySettings() (in _BaseMarker)
activate() (in StartDialogBase)	addVdwtypes() (in _FFIO)	applyStyle() (in Structure)
activate() (in BaseTab)	addVdwtypescombined() (in _FFIO)	applyStyle() (in _Chain)
activate() (in BaseSubTab)	addVdwtypescombineds() (in _FFIO)	applyStyle() (in _Molecule)
activate() (in BasisSetSubTab)	addVerbosityArgs() (in TestRunnerParser)	applyStyle() (in _Residue)
activate() (in InputTabWithSubTabs)	addVirtual() (in _FFIO)	applyStyle() (in _Ring)
activate() (in WriteDialog)	addVirtuals() (in _FFIO)	applyToStructure() (in PBC)
ACTIVE (in schrodinger.job.queue)	adf() (in ComUtil)	approximateVolume() (in Scaffold)
active_jobs() (in JobDJ)	adjust() (in Structure)	apps (in schrodinger.application.macromodel)
ActiveDatabaseDialog (in schrodinger.application.bioluminate.antibody.management)	adjust_phi() (in Rama)	aquamarine (in Color)
ActiveDatabaseTable (in schrodinger.application.bioluminate.antibody.management)	adjust_psi() (in Rama)	ar_type (in BitArray)
ActiveDecoyFingerprintAnalyzer (in schrodinger.analysis.enrichment)	adjust_symbol_size() (in Rama)	ARCHIMEDEAN (in schrodinger.application.matsci.shapes)
activeSubTab() (in InputTabWithSubTabs)	adjustACellClashVDWScale() (in AmorphousCellBuilder)	archive_wm() (in schrodinger.application.watermap.utils)
activeSubTabName() (in InputTabWithSubTabs)	adjustACellDensity() (in AmorphousCellBuilder)	ArchivedProjectException (in schrodinger.project)
adapt_dummy_types() (in Zmat)	adjustDum() (in schrodinger.application.mcpro.perturbations)	are_sts_the_same() (in schrodinger.structutils.createfragments)
adaptor (in mexpParser)	ADME_P450 (in _licensing')	AREA (in schrodinger.application.matsci.shapes)
ADD (in schrodinger.application.bioluminate.actions.icons)	ADME_P450 (in schrodinger.infra.licensing)	AreaPerLipid (in schrodinger.trajectory.lipid_analysis)
add() (in RewriteRuleElementStream)	ADME_PERM (in _licensing')	areAtomsOrtho() (in AssignBondOrders)
add() (in JobOutput)	ADME_PERM (in schrodinger.infra.licensing)	areBound() (in Structure)
add() (in EnergyComponent)	ADSORPTION (in schrodinger.application.matsci.nano.interface_mod)	areCOsPara() (in AssignBondOrders)
add() (in IndexDict)	adv_callback() (in _BaseGroup)	ARG (in schrodinger.application.desmond.antlr3.treewizard)
add() (in TupleDict)	advance (in SwigPyIterator)	argc (in schrodinger.application.desmond.gchart)
add() (in _MdcBase)	advance (in SwigPyIterator)	argv() (in schrodinger.utils.unicodesupport)
add() (in GlideWorkspaceMarkers)	advance() (in SwigPyIterator)	ark (in schrodinger.infra)
add() (in Group)	advance() (in SwigPyIterator)	ark_str() (in FEPReport)
add() (in LinkedList)	advance() (in SwigPyIterator)	ARMCHAIR (in Constants)
add() (in RunningJobs)	advance() (in SwigPyIterator)	ARMCHAIR_BY_ONE_BASE (in Grow)
add() (in _Callback)	advance() (in SwigPyIterator)	AROMATIC_H_DONOR (in _structure')
add() (in ColorScheme)	advanceSelection() (in ReferenceFrame)	AROMATIC_H_DONOR (in schrodinger.infra.structure)
add() (in SurfaceDict)	advice (in LicenseError)	AROMATIC_POS (in StructuralInteractionFingerprintGenerator)
add() (in ButtonBox)	AdvLabel (in schrodinger.application.desmond.cwidget)	AROMATIC_RESIDUE (in StructuralInteractionFingerprintGenerator)
add() (in NoteBook)	AdvLabel (in schrodinger.application.desmond.fep_gui)	AROMATIC_RESIDUES (in schrodinger.application.bioluminate.protein)
add() (in PanedWidget)	AdvOptionsFrame (in schrodinger.application.desmond.gui)	AROMATIC_RESIDUES (in schrodinger.structutils)
add() (in RadioSelect)	after_upper_edge() (in schrodinger.application.matsci.nano.xtal)	AROMATIC_RESIDUES (in StructuralInteractionFingerprintGenerator)
add_and_parse_SMILES() (in schrodinger.application.desmond.report_helper)	afterStep() (in PhpProject)	Around (in schrodinger.application.bioluminate.pml_menus)
add_atom() (in PertReorder)	AFTERSUPERPOSITION (in ParserWrapper)	AroundExpandSubMenu (in schrodinger.application.bioluminate.pml_menus)
add_atoms_onto_tree() (in schrodinger.application.desmond.reorder_atom)	AGGREGATE_CALCULATIONS (in PropertyCalculator)	array (in schrodinger.protein.membrane)
add_attachment_points() (in Data)	AHEAD (in PBCBond)	Array_Prop (in schrodinger.application.desmond.simulation_block_data)
add_attribute_aliases() (in schrodinger.application.jaguar.output)	AHEAD_BASE_TRIPLES (in schrodinger.application.matsci.nano.xtal)	ArrayCoordinates() (in _VDAxis)
add_bonds_in_rings() (in Data)	AHEAD_TRIPLES (in schrodinger.application.matsci.nano.xtal)	ArrayCoordinates() (in _VDCoordinateFrame)
add_child() (in Node)	ahomo_prop (in MopacResults71)	ArrayCoordinates() (in VolumeData)
add_code() (in ReturnCode)	ai (in _FFAngle)	ArraySyntax (in schrodinger.application.desmond.enhanced_sampling.FcnTypes)
add_common_context_items() (in schrodinger.application.bioluminate.pml_menus)	ai (in _FFBond)	arrow (in schrodinger.graphics3d)
add_core() (in Data)	ai (in _FFConstraint)	Arrow (in schrodinger.graphics3d.arrow)
add_core_bonds() (in Data)	ai (in _FFDihedral)	ARROW_GROUP (in schrodinger.application.desmond.maestro)
add_core_ct() (in Data)	ai (in _FFExclusion)	ARROW_GROUP_refcount (in schrodinger.application.desmond.maestro)
add_ct_data() (in schrodinger.application.canvas.r_group)	ai (in _FFPair)	ARROW_OPACITY (in schrodinger.trajectory.prody.test_arrow)
add_ct_offset() (in Data)	ai (in _FFRestraint)	ARROW_RADII (in PhaseFeatureMixin)
add_cubic_chorus_box_props() (in schrodinger.application.matsci.desmondutils)	ai (in _FFVirtual)	ArrowCore (in schrodinger.graphics3d.arrow)
add_error() (in LicenseResource)	aj (in _FFAngle)	ARROWDOWN (in Icons)
add_error() (in ServerInfo)	aj (in _FFBond)	ASCENDING (in schrodinger.structutils.sort)
add_functional_rings() (in Data)	aj (in _FFConstraint)	asDock() (in SimplifiedSequenceViewer)
add_histo() (in schrodinger.application.desmond.event_analysis.pl_image_tools)	aj (in _FFDihedral)	asea_copy() (in schrodinger.utils.sea)
add_host_lists() (in schrodinger.pipeline.pipeline)	aj (in _FFExclusion)	aset() (in ComUtil)
add_hydrogens() (in SchrodStruc)	aj (in _FFPair)	AsetFrame (in schrodinger.ui.macromodel)
add_hydrogens() (in schrodinger.structutils.build)	aj (in _FFVirtual)	asFrame() (in SimplifiedSequenceViewer)
add_jaguar_files_to_jc_backend() (in schrodinger.application.matsci.jaguarworkflows)	ak (in _FFAngle)	asGrid() (in ImportWidget)
add_job_launch_log() (in schrodinger.maestro.maestro)	ak (in _FFConstraint)	askdirectory() (in schrodinger.ui.widget.tkinterwidget)
add_jobcontrol_diagnostic_options() (in schrodinger.utils.cmdline)	ak (in _FFDihedral)	askopenfilename() (in schrodinger.ui.widget.tkinterwidget)
add_jobcontrol_options() (in schrodinger.utils.cmdline)	ak (in _FFVirtual)	askopenfilenames() (in schrodinger.ui.widget.tkinterwidget)
add_keyword_parser_argument() (in schrodinger.application.matsci.jobutils)	al (in _FFConstraint)	askOverwrite() (in AppFramework)
add_labeled_pbc_bond() (in schrodinger.application.matsci.nano.xtal)	al (in _FFDihedral)	askOverwriteIfNecessary() (in AppFramework)
add_lig_solvent_cap() (in Zmat)	al (in _FFVirtual)	asksaveasfilename() (in schrodinger.ui.widget.tkinterwidget)
add_methyl_ring() (in schrodinger.application.canvas.r_group)	Alchemist (in schrodinger.application.matsci.enumeration)	askUsernamePassword() (in ProxyPasswordManager)
add_methyl_standard() (in schrodinger.application.canvas.r_group)	alie_analysis() (in schrodinger.application.jaguar.output)	asl (in schrodinger.application.desmond.fepana)
add_moldescriptors_options() (in schrodinger.application.moldescriptors)	alie_analysis_precision (in JaguarResults)	ASL (in schrodinger.utils.ligfilter)
add_multi_job_finalizer() (in schrodinger.job.queue)	alie_precision (in JaguarAtomicResults)	asl() (in NewEntry)
add_notes() (in ModelCheck)	align() (in StructAlign)	asl_expr() (in _AtomSelection)
add_options() (in CmdlineParser)	align_structure() (in schrodinger.application.desmond.mdpose.mdpose_average_structure)	ASL_IONS (in Consensus)
add_output() (in Env)	ALIGN_TOOLBAR (in ViewerWindow)	ASL_IONS (in ConsensusToolBar)
add_output() (in LicenseError)	alignCenterCollect() (in MultiWalledNanoTube)	ASL_LIGAND (in Consensus)
add_overlapEnergyTable() (in FEPReportMaker)	AlignCore (in schrodinger.application.desmond.stage)	ASL_LIGAND (in ConsensusToolBar)
add_package_dir_to_path() (in schrodinger.application.utils)	ALIGNED_COLOR (in schrodinger.structutils.sitealign)	ASL_NAME_SEARCH_SPEEDUP (in _mmutil')
add_para_job_options() (in schrodinger.application.macromodel.paraUtils)	ALIGNED_STYLE (in schrodinger.structutils.sitealign)	ASL_NAME_SEARCH_SPEEDUP (in schrodinger.utils.mmutil)
add_plugin() (in schrodinger.application.desmond.config)	alignLigands() (in PhpProject)	ASL_WATER (in Consensus)
add_plugin() (in schrodinger.application.desmond.mdkey)	ALIGNMENT_ACTIONS (in schrodinger.application.bioluminate.actions.configs)	ASL_WATER (in ConsensusToolBar)
add_point() (in data_set)	ALIGNMENT_KEYS (in schrodinger.application.matsci.nano.particle)	AslCriterion (in schrodinger.utils.ligfilter)
add_point() (in primex_steric_clash_data_set)	alignPolyhedron() (in ConvexPolyhedron)	AslLigandSearcher (in schrodinger.structutils.analyze)
add_position() (in Data)	alignSites() (in BindingSiteAligner)	ASLObject (in schrodinger.application.desmond.enhsamp)
add_property_value() (in Data)	alignStructure() (in StructAlign)	aslselect_atom() (in schrodinger.application.desmond.cms)
add_prot_solvent_cap() (in Zmat)	ALIPHATIC_RESIDUES (in schrodinger.structutils)	AslValidator (in schrodinger.application.desmond.cmj)
add_r_group() (in Data)	alkali_metals (in schrodinger.application.prime.primefix)	AsMenu (in schrodinger.application.bioluminate.pml_menus)
add_r_groups_to_atom() (in Data)	alkaline_earth_metals (in schrodinger.application.prime.primefix)	asp_prop (in MopacResults71)
add_replicas_dF_table() (in FEPReportMaker)	ALL (in schrodinger.application.desmond.starter.ui.cmdline)	asp_tot_prop (in MopacResults71)
add_rest_region() (in schrodinger.application.desmond.rest_inp)	ALL (in schrodinger.application.glide.glide)	aspectScale() (in schrodinger.application.desmond.report_helper)
add_rg_ct() (in Data)	ALL (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)	assemble_bulk_results() (in schrodinger.trajectory.analyze_trajectories)
add_rings() (in Data)	ALL (in ParserWrapper)	assemble_energy_results() (in schrodinger.trajectory.analyze_trajectories)
add_set() (in ModelCheck)	ALL (in schrodinger.utils.cmdline)	assemble_interaction_energy_results() (in schrodinger.trajectory.analyze_trajectories)
add_signature() (in Feature)	all_basisnames() (in schrodinger.application.jaguar.jaguar_keyword_utils)	assert_build_id_matches() (in schrodinger.test.stu.common)
add_signatures() (in License)	ALL_CONSTRAINTS_BUTTON (in OptimizationTab)	assert_no_major_problems() (in schrodinger.test.structurecheck)
add_smiles() (in schrodinger.structutils.smilesfilter)	all_dftnames() (in schrodinger.application.jaguar.jaguar_keyword_utils)	assertAtomMapsEqual() (in schrodinger.test.canvas_utils)
add_spacer() (in schrodinger.application.desmond.report_helper)	all_jobs() (in JobDJ)	assertConformersAlmostEqual() (in StructureAssertionsTestCase)
add_standard_options() (in schrodinger.utils.cmdline)	all_keywords() (in schrodinger.application.jaguar.jaguar_keyword_utils)	assertConformersAlmostEqual() (in schrodinger.test.custom_assertions)
add_static() (in Env)	ALL_LINES (in schrodinger.test.stu.outcomes.compare_csv)	assertCSVFilesMatch() (in schrodinger.test.canvas_utils)
add_step() (in Guide)	all_meaningful_keywords() (in schrodinger.application.jaguar.jaguar_keyword_utils)	assertCSVFilesMatchByLine() (in schrodinger.test.canvas_utils)
add_step() (in Guide)	all_metals (in schrodinger.application.prime.primefix)	assertEqual() (in schrodinger.test.canvas_utils)
add_subjob_files() (in schrodinger.application.jaguar.utils)	all_multicomb() (in schrodinger.application.desmond.autopartition)	assertProteinHealth() (in ProteinReportCheck)
add_table() (in schrodinger.application.desmond.report_helper)	ALL_OLD_MARKER_PROPS (in schrodinger.application.matsci.builderwidgets)	assertPWFilesMatch() (in schrodinger.test.canvas_utils)
add_tag() (in Sea)	ALL_PL_INTERACTIONS (in schrodinger.application.desmond.fep_edge_report_maker)	assertSame() (in _LicenseInfo)
add_temp_hydrogen() (in schrodinger.application.matsci.rxn_path)	all_properties() (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)	assertSameNumberOfAtoms() (in StructureAssertionsTestCase)
add_to_data() (in schrodinger.application.canvas.r_group)	ALL_PROPERTIES_TERM (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)	assertSameNumberOfAtoms() (in schrodinger.test.custom_assertions)
add_var() (in binding)	ALL_PROTEINS (in schrodinger.application.bioluminate.actions.icons)	assertSameStructure() (in StructureAssertionsTestCase)
add_vtable() (in schrodinger.application.desmond.report_helper)	ALL_RANDOM_CHANNELS (in Constants)	assertSameStructure() (in schrodinger.test.custom_assertions)
add_zmatrix_lines() (in schrodinger.application.matsci.zmutils)	ALL_RESIDUES (in schrodinger.application.bioluminate.protein)	assign (in SwigDoubleVector)
addActionItem() (in RowActionItem)	ALL_RESIDUES (in PrimeConfig)	assign (in SwigDoubleVector3)
addActions() (in Factory)	all_rows (in EntryGroup)	assign (in SwigIntVector)
addAlignmentAxesToTemplate() (in ConvexPolyhedron)	all_rows (in Project)	assign (in SwigStringVector)
addAlignToolBar() (in ViewerWindow)	ALL_SEARCH_ALONG (in TransitionStateTab)	assign (in SwigUInt64Vector)
addAngle() (in _FFIO)	ALL_SHAPES (in schrodinger.application.matsci.nano.particle)	assign (in SwigUnsignedIntVector)
addAnglefbhw() (in _FFIO)	ALL_SMARTS (in Constants)	assign (in SwigUnsignedIntVector2)
addAnglefbhws() (in _FFIO)	ALL_SOLVENT_KEYVALUES (in schrodinger.application.jaguar.gui.tabs.solvation_tab)	assign (in SwigVectorIntIntPair)
addAnglemap() (in _FEPIO)	ALL_SOLVENTS (in schrodinger.application.jaguar.gui.tabs.solvation_tab)	assign (in SwigDoubleVector)
addAnglemaps() (in _FEPIO)	all_stage_family() (in schrodinger.application.desmond.stage)	assign (in SwigDoubleVector3)
addAngleRestraint() (in Minimizer)	ALL_STRUCS (in MultiStructureTab)	assign (in SwigIntVector)
addAngles() (in _FFIO)	ALL_TYPES (in Constants)	assign (in SwigStringVector)
addAnnotationAction() (in SimplifiedSequenceViewer)	ALL_TYPES (in schrodinger.utils.preferences)	assign (in SwigUInt64Vector)
addAntibodyNumberingToolBar() (in ViewerWindow)	allCoordinatesDeleted (in CoordinateTab)	assign (in SwigUnsignedIntVector)
addAtom() (in Structure)	allFacesIntersected() (in ConvexPolyhedron)	assign (in SwigUnsignedIntVector2)
addAtomGroupRow() (in AtomGroupFrame)	ALLINDICIES (in Grow)	assign (in SwigVectorIntIntPair)
addAtommap() (in _FEPIO)	allLigandNames() (in sketcherLID)	assign() (in SwigDoubleVector)
addAtommaps() (in _FEPIO)	allocate() (in Queue)	assign() (in SwigDoubleVector3)
addAtoms() (in Structure)	ALLOW_ADSORPTION_ONTO (in Constants)	assign() (in SwigIntVector)
addAtomsToSet() (in AsetFrame)	ALLOW_ADSORPTION_ONTO_METAVAR (in Constants)	assign() (in SwigStringVector)
addAttachmentPoint() (in AtomMappingData)	ALLOW_FRAGMENTS (in schrodinger.application.matsci.nano.particle)	assign() (in SwigUInt64Vector)
addAutoGpuCbToLayout() (in FEPConfigDialog)	ALLOW_FRAGMENTS (in schrodinger.application.matsci.nano.slab)	assign() (in SwigUnsignedIntVector)
addAutoGpuCbToLayout() (in DesmondGuiConfigDialog)	ALLOWED_COLOR (in Rama)	assign() (in SwigUnsignedIntVector2)
addBidentateLigand() (in ComplexBuilder)	allowed_function_modules (in schrodinger.infra.propedit)	assign() (in SwigVectorIntIntPair)
addBond() (in _FFIO)	allowed_function_names (in schrodinger.infra.propedit)	assign() (in DoubleDoubleList)
addBond() (in Structure)	allowed_functions (in schrodinger.infra.propedit)	assign() (in DoubleList)
addBond() (in _StructureAtom)	ALLOWED_ISOMERS (in schrodinger.application.matsci.buildcomplex)	assign() (in StringList)
addBondmap() (in _FEPIO)	allowed_operators (in schrodinger.infra.propedit)	assign() (in SwigAtomList)
addBondmaps() (in _FEPIO)	ALLOWS_NEGATIVE_SCORES (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)	assign() (in SwigAtomPairList)
addBonds() (in _FFIO)	allTransmutationsCompleted() (in Alchemist)	assign() (in SwigAtomPairWithValueList)
addBonds() (in Structure)	allTransmutationsCompleted() (in ElementAlchemist)	assign() (in SwigAtomQueryParamsList)
addc() (in ComUtil)	allTransmutationsCompleted() (in VacancyAlchemist)	assign() (in SwigDcNonPbcAtomIdxList)
addcascademenu() (in MainMenuBar)	ALOGP_INTERVAL (in schrodinger.application.moldescriptors)	assign() (in SwigDcPbcAtomList)
addCellForEachRow() (in _Column)	ALPHA (in schrodinger.application.desmond.enhanced_sampling.mexpLexer)	assign() (in SwigPiCationList)
addChain() (in Code)	ALPHA (in schrodinger.application.desmond.enhanced_sampling.mexpParser)	assign() (in SwigPiPiInteractionList)
addChild() (in Partition)	ALPHA_KEY (in Crystal)	assign() (in SwigRingList)
addChild() (in Partitioning)	ALPHA_ORBITALS (in SurfacesSubTab)	assign() (in SwigSaltBridgeList)
addChild() (in DebugEventListener)	ALPHA_PARAM (in ParserWrapper)	assign() (in AssignBondOrders)
addChild() (in DebugEventSocketProxy)	alpha_polar() (in schrodinger.application.jaguar.output)	assign() (in SwigDoubleVector)
addChild() (in DebugTreeAdaptor)	alpha_polar_precision (in JaguarResults)	assign() (in SwigDoubleVector3)
addChild() (in TraceDebugEventListener)	alphabetizeNames() (in PropertySelector)	assign() (in SwigIntVector)
addChild() (in BaseTree)	alreadyParsedRule() (in BaseRecognizer)	assign() (in SwigStringVector)
addChild() (in BaseTreeAdaptor)	ALSO_REG_BOND_KEY (in PBCBond)	assign() (in SwigUInt64Vector)
addChild() (in Tree)	alt_matches() (in Feature)	assign() (in SwigUnsignedIntVector)
addChild() (in TreeAdaptor)	alt_xyz (in _StructureAtom)	assign() (in SwigUnsignedIntVector2)
addChild() (in DendrogramNode)	alternateFurthurBonds() (in _StructureFragmenter)	assign() (in SwigVectorIntIntPair)
addChildren() (in BaseTree)	alumo_prop (in MopacResults71)	assign_bond_orders() (in schrodinger.application.matsci.nano.xtal)
addColumn() (in WidgetTable)	always_true() (in schrodinger.test.stu.outcomes.custom.demo_custom_workup)	assign_bond_orders_w_mmlewis() (in schrodinger.application.matsci.nano.xtal)
addCommandLineOptions() (in App)	alwaysLocal() (in App)	assign_forcefield() (in schrodinger.application.desmond.fepdiff)
addConsButtonPressed() (in OptimizationTab)	am (in _FFConstraint)	assign_st() (in schrodinger.structutils.assignbondorders)
addConsensusToolBar() (in ViewerWindow)	am (in _FFVirtual)	assignActives() (in PhpProject)
addConstraint() (in _FFIO)	amorphous (in schrodinger.application.matsci)	assignAromaticBonders() (in AssignBondOrders)
addConstraint() (in ConstraintGroup)	AmorphousCellBuilder (in schrodinger.application.matsci.amorphous)	assignAromaticRing() (in AssignBondOrders)
addConstraintForLID() (in sketcherScene)	an (in _FFVirtual)	assignAromaticRingGroup() (in AssignBondOrders)
addConstraintGroup() (in Dock)	ana (in schrodinger.application.desmond)	assignAromaticRingOrders() (in AssignBondOrders)
addConstraints() (in _FFIO)	analysis (in schrodinger)	assignbondorders (in schrodinger.structutils)
addContext() (in Factory)	Analysis (in schrodinger.application.desmond.stage)	AssignBondOrders (in schrodinger.structutils.assignbondorders)
addCoord() (in ZAtom)	Analysis (in schrodinger.application.desmond.title_to_hex)	assignChainOrders() (in AssignBondOrders)
addCoordinate() (in ConstraintCoordinatesModel)	analysis (in schrodinger.protein)	assignColorsWithThreshold() (in DendrogramGraphicTree)
addCoordinate() (in OptimizationTab)	analysis (in schrodinger.trajectory)	assignDefaultGroups() (in PhpProject)
addCoordinate() (in ScanCoordinatesModel)	ANALYSIS_DIR_NAME (in Analysis)	AssignForcefield (in schrodinger.application.desmond.stage)
addCoordinate() (in ScanTab)	analysis_params (in schrodinger.protein)	assignGroupDoubleBonds() (in AssignBondOrders)
addCostProperties() (in Ionizer)	AnalysisJob (in schrodinger.application.desmond.stage)	assignGroups() (in PhpProject)
addCPUArg() (in TestRunnerParser)	analysistool (in schrodinger.trajectory)	assignGroupTripleBonds() (in AssignBondOrders)
addCriterion() (in PropFilterDialog)	AnalysisTool (in schrodinger.trajectory.analysistool)	assignInactives() (in PhpProject)
addCrystalBuilderPBC() (in Scaffold)	analyze (in schrodinger.structutils)	assignQsarSet() (in PhpProject)
addCV() (in Meta)	analyze() (in Bfactor_data_set)	assignTemplatedSubstructures() (in AssignBondOrders)
addData() (in Grid)	analyze() (in Gfactor_summary_data_set)	assignTripleBonds() (in AssignBondOrders)
addData() (in PhaseDB)	analyze() (in backbone_dihedral_data_set)	ASSOCIATION_TYPE (in Constants)
addData() (in Structures)	analyze() (in bond_angle_data_set)	ASU_LABEL_KEY (in Crystal)
addData() (in Text)	analyze() (in bond_length_data_set)	ASU_TAG (in SpaceGroup)
addDatabase() (in ActiveDatabaseDialog)	analyze() (in chirality_data_set)	at_values (in Scan)
addDefinition() (in ChannelDefinitions)	analyze() (in data_set)	atid2atomsel() (in CmsModel)
AddDefinitionDialog (in schrodinger.ui.ligfilter)	analyze() (in gamma_Bfactor_data_set)	atidToResname() (in ContactCmd)
addDefinitionsFromFile() (in ChannelDefinitions)	analyze() (in improper_torsion_data_set)	atom (in Structure)
addDesmondPBC() (in Scaffold)	analyze() (in missing_atoms_data_set)	Atom (in schrodinger.utils.sea)
addDihedmap() (in _FEPIO)	analyze() (in peptide_planarity_data_set)	atom() (in mexpParser)
addDihedmaps() (in _FEPIO)	analyze() (in primex_steric_clash_data_set)	atom() (in AcceptorConstraint)
addDihedral() (in _FFIO)	analyze() (in sidechain_dihedral_data_set)	atom() (in DonorConstraint)
addDihedrals() (in _FFIO)	analyze() (in sidechain_planarity_data_set)	atom() (in MetalConstraint)
addDirectories() (in TestRunnerParser)	analyze() (in steric_clash_data_set)	atom() (in TextualStructure)
addDistanceRestraint() (in Minimizer)	analyze() (in DesmondSimulation)	atom() (in _AtomCollection)
added() (in DictDiffer)	analyze_energy (in schrodinger.application.prime.gui)	ATOM_ACHIRAL (in StructureAtom)
addEigenpair() (in NMA)	analyze_energy_ui (in schrodinger.application.prime.gui.ui)	ATOM_ATTRIBUTES (in schrodinger.application.desmond.fepdiff)
addEigenpair() (in PCA)	analyze_it() (in Analysis)	atom_b_factor() (in schrodinger.application.bioluminate.pml_menus)
addElement() (in _OtherBlock)	analyze_pair() (in steric_clash_data_set)	ATOM_BALLNSTICK (in schrodinger.application.bioluminate.pml_menus)
addElements() (in _OtherBlock)	analyze_paths() (in Perturbations)	ATOM_BALLNSTICK (in schrodinger.structure)
addEnv() (in Launcher)	analyze_pr_set() (in ModelCheck)	ATOM_CHIRAL_ANR (in StructureAtom)
addExclmap() (in _FEPIO)	analyze_trajectories (in schrodinger.trajectory)	ATOM_CHIRAL_ANS (in StructureAtom)
addExclmaps() (in _FEPIO)	analyzeBetweenGroups() (in TwoGroupFingerprintAnalyzer)	ATOM_CHIRAL_R (in StructureAtom)
addExclusion() (in _FFIO)	AnalyzeEnergyOptions (in schrodinger.application.prime.gui.analyze_energy)	ATOM_CHIRAL_S (in StructureAtom)
addExclusions() (in _FFIO)	AnalyzeEnergyWidget (in schrodinger.application.prime.gui.analyze_energy)	ATOM_CIRCLE (in schrodinger.structure)
addExecuteOptions() (in TestRunnerParser)	analyzeFingerprints() (in ActiveDecoyFingerprintAnalyzer)	atom_clicked (in StructureListWidget)
addExpandArg() (in TestRunnerParser)	analyzeGroups() (in TwoGroupFingerprintAnalyzer)	atom_clicked (in structure_view)
addExpectedInput() (in Stage)	analyzeStericClashes() (in ModelCheck)	atom_color (in ColorBy)
addExpectedKeyword() (in QSiteStage)	analyzeWithinGroups() (in TwoGroupFingerprintAnalyzer)	ATOM_CPK (in schrodinger.structure)
addExpectedOutput() (in Stage)	AND (in schrodinger.application.bioluminate.propfilter)	atom_exch (in schrodinger.protein.remediate)
addext() (in schrodinger.trajectory.prody.writenmd)	ANG_TOL (in schrodinger.application.mcpro.modelsystemwizard)	atom_highlighted (in StructureView)
addExtractArgs() (in TestRunnerParser)	angle (in schrodinger.application.desmond.fepana)	atom_index() (in Node)
addFeature() (in PhaseFeatureMixin)	angle (in _FFIO)	atom_indexes() (in Ligand)
addFinalizer() (in BaseJob)	ANGLE (in Coord)	atom_indices() (in Consensus)
addFindToolBar() (in ViewerWindow)	Angle (in schrodinger.trajectory.analysis)	atom_indices() (in _Group)
addForce() (in TestRunnerParser)	angle_bend_energy() (in schrodinger.application.qsite.output)	atom_is_nonpolar() (in schrodinger.application.bioluminate.protein)
addForceInputFile() (in Launcher)	angle_builtin_prop (in schrodinger.trajectory.ffstructure)	ATOM_LABELS (in MultiStructureTab)
addFromFile() (in SurfaceDict)	anglefbhw (in _FFIO)	ATOM_MARKER_PROP_BASE (in schrodinger.application.matsci.builderwidgets)
addGPGPUGroupToLayout() (in DesmondGuiConfigDialog)	ANGLELARGE (in HoneycombUnitCell)	atom_name (in _StructureAtom)
addGPGPUGroupToLayout() (in DesmondRestGuiConfigDialog)	anglemap (in _FEPIO)	atom_name_regex (in schrodinger.application.jaguar.gui.utils)
addGPGPUTableToLayout() (in FEPConfigDialog)	ANGLEMEDIUM (in HoneycombUnitCell)	atom_name_sort_key() (in schrodinger.application.jaguar.gui.utils)
addGPGPUTableToLayout() (in DesmondGuiConfigDialog)	ANGLEMEDIUM (in NanoSheet)	ATOM_NONE (in schrodinger.application.bioluminate.pml_menus)
addGroupActionSlot() (in sketcher)	ANGLES_ONE_UNIQUE (in CrystalSystems)	ATOM_NOSTYLE (in schrodinger.structure)
addGroupPrereq() (in BaseJob)	ANGLES_ONE_UNIQUE_NOT_RIGHT (in CrystalSystems)	atom_prop_link (in schrodinger.structure)
addHydrogenCap() (in QSiteInput)	ANGLES_THREE_UNIQUE (in CrystalSystems)	ATOM_RADII_DICT (in schrodinger.structutils.assignbondorders)
AddHydrogens (in schrodinger.application.bioluminate.pml_menus)	ANGLES_TWO_UNIQUE (in CrystalSystems)	ATOM_RAINBOW_COLORS (in schrodinger.application.bioluminate.pml_menus)
addImportToolBar() (in ViewerWindow)	ANGLES_TWO_UNIQUE_HEXAGONAL (in CrystalSystems)	atom_return (in mexpParser)
addImproperfbhw() (in _FFIO)	ANGLESMALL (in HoneycombUnitCell)	atom_selection_dialog() (in schrodinger.maestro.maestro)
addImproperfbhws() (in _FFIO)	ANGLEWEIGHT (in ParserWrapper)	atom_style (in _StructureAtom)
addInputFile() (in App)	ANGSTROM_DEFAULT (in schrodinger.application.matsci.nano.slab)	atom_to_resID() (in schrodinger.protein._reliability)
addInputFile() (in Launcher)	angstrom_per_bohr (in schrodinger.application.jaguar.constants)	atom_total (in JaguarResults)
addInteraction() (in sketcherLID)	ANNIHILATION (in schrodinger.application.desmond.fep_gui)	atom_total (in Structure)
addIonProperties() (in Ionizer)	annotate() (in CgHydrogenFragmentAnnotator)	atom_total (in FFStructure)
addIons() (in SystemBuilderInput)	annotate() (in MappingAnnotator)	atom_total() (in _DesmondFrame)
addJob() (in JobDJ)	ANNOTATE_ACTIONS (in schrodinger.application.bioluminate.actions.configs)	atom_type (in _StructureAtom)
addJob() (in TestQueue)	answer (in schrodinger.application.desmond.ana)	atom_type (in ColorBy)
addJobControlOptions() (in TestRunnerParser)	antibody (in schrodinger.application.bioluminate)	atom_type() (in MetaAtom)
addKey() (in Key)	ANTIBODY_NUM_TOOLBAR (in ViewerWindow)	atom_type_name (in _StructureAtom)
addKey() (in Definition)	antibody_utils (in schrodinger.application.bioluminate)	atom_typeMM (in ColorBy)
addLicense() (in Launcher)	AntibodyNumberingToolBar (in schrodinger.application.bioluminate.ssv.toolbars)	ATOM_TYPING_SCHEMES (in CanvasFingerprintGenerator)
addLigand() (in sketcher)	AntibodyPreset (in schrodinger.application.bioluminate.pml_menus)	ATOM_WIRE (in schrodinger.application.bioluminate.pml_menus)
addLigands() (in PhpProject)	ANTIGEN_TYPE (in FullColumns)	AtomBasisSetDelegate (in schrodinger.application.jaguar.gui.tabs.sub_tab_widgets.basis_set_widgets)
addLine() (in CriteriaListModel)	ANTIGEN_TYPE (in SplitColumns)	AtomContextMenu (in schrodinger.application.bioluminate.pml_menus)
addLogFile() (in App)	antlr3 (in schrodinger.application.desmond)	AtomGroup (in schrodinger.application.desmond.cms)
addLogFile() (in _Backend)	antlr_version (in BaseRecognizer)	AtomGroup (in schrodinger.application.desmond.mdkey)
addLogFile() (in Launcher)	antlr_version (in mexpLexer)	ATOMGROUP_PREFIX (in Cms)
addMarker (in BaseSubTab)	antlr_version (in mexpParser)	ATOMGROUP_PREFIX_LEN (in schrodinger.application.desmond.mdkey)
addMarker (in InputTabWithSubTabs)	antlr_version_str (in BaseRecognizer)	ATOMGROUP_PREFIX_NAME (in schrodinger.application.desmond.mdkey)
addMarker (in SubTabModel)	antlr_version_str (in mexpLexer)	AtomGroupDelegate (in schrodinger.application.desmond.gui)
addMarker (in AtomSelectionDelegate)	antlr_version_str (in mexpParser)	AtomGroupFrame (in schrodinger.application.desmond.gui)
addMarker (in ChargeConstraintsTableView)	ANTLRFileStream (in schrodinger.application.desmond.antlr3.streams)	AtomGroupModel (in schrodinger.application.desmond.gui)
addMarkerForRow() (in SubTabModel)	ANTLRInputStream (in schrodinger.application.desmond.antlr3.streams)	AtomGroupRow (in schrodinger.application.desmond.gui)
addMarkerForRow() (in ChargeConstraintsModel)	ANTLRStringStream (in schrodinger.application.desmond.antlr3.streams)	atomic_charge_prop (in MopacResults71)
addmenu() (in MainMenuBar)	ANY_CONTACT (in StructuralInteractionFingerprintGenerator)	atomic_number (in _StructureAtom)
addmenuitem() (in MainMenuBar)	APBS_INPUT (in schrodinger.application.desmond.fep_net_charge)	ATOMIC_SYMBOL (in Constants)
addMessageName() (in _Backend)	api (in schrodinger.test.performance)	ATOMIC_SYMBOLS (in schrodinger.application.matsci.atomicsymbols)
addMolecule() (in sketcherScene)	api_url() (in schrodinger.test.performance.reporter)	atomic_weight (in _StructureAtom)
addMolsToSet() (in AsetFrame)	ApiKeyAuth (in schrodinger.test.stu.client)	atomicsymbols (in schrodinger.application.matsci)
addMonitorFile() (in _Backend)	aposteri_e() (in schrodinger.application.jaguar.output)	atomicsymbolsgui (in schrodinger.application.matsci)
addMonodentateLigand() (in ComplexBuilder)	app (in schrodinger.application.bioluminate.sliderchart)	atommap (in _FEPIO)
addNavigationNode() (in CommonTreeNodeStream)	app (in schrodinger.job)	AtomMappingData (in schrodinger.application.desmond.fep_mapping)
AddNeighborGroups (in schrodinger.protein.findhets)	App (in schrodinger.job.app)	AtomMarker (in schrodinger.maestro.markers)
addNewConstraint() (in ChargeConstraintsSubTab)	APP_DIR (in schrodinger.application.matsci.builderwidgets)	AtomPairWithValue (in schrodinger.infra.structure)
addNormalsToTemplate() (in ConvexPolyhedron)	APPDATA (in schrodinger.utils.fileutils)	atomPicked() (in BasisSetSubTab)
addNumericLineEdit() (in FEPConfigDialog)	APPDATA_DIR (in schrodinger.application.combiglide.combenumdock)	AtomQueryParams (in schrodinger.infra.structure)
addOneRow() (in AtomGroupModel)	APPDATA_DIR (in schrodinger.application.desmond.mdkey)	ATOMS (in MultiStructureTab)
addOneRow() (in PosResModel)	appdata_dir (in schrodinger.utils.ligfilter)	ATOMS (in schrodinger.structutils.rmsd)
ADDOP (in schrodinger.application.desmond.enhanced_sampling.mexpLexer)	appdata_file (in schrodinger.utils.ligfilter)	atoms() (in Consensus)
ADDOP (in schrodinger.application.desmond.enhanced_sampling.mexpParser)	append (in SwigDoubleVector)	atoms() (in AcceptorConstraint)
addOptions() (in SequenceFileDialog)	append (in SwigDoubleVector3)	atoms() (in DonorConstraint)
addOptions() (in CanvasFingerprintClusterCLI)	append (in SwigIntVector)	atoms() (in MetalConstraint)
addOptions() (in CanvasFingerprintGeneratorCLI)	append (in SwigStringVector)	atoms_within_3_bonds() (in schrodinger.application.desmond.reorder_atom)
addOptions() (in CanvasFingerprintSimilarityCLI)	append (in SwigUInt64Vector)	atomsasl() (in schrodinger.application.prepwizard)
addOrderedPartitiones() (in Partition)	append (in SwigUnsignedIntVector)	atomsChanged() (in MM_StructMonitor)
addOtherBlock() (in _FEPIO)	append (in SwigUnsignedIntVector2)	atomsel() (in ASLObject)
addOtherBlock() (in _FFIO)	append (in SwigVectorIntIntPair)	atomselection (in schrodinger.trajectory)
addOutputFile() (in _Backend)	append (in SwigDoubleVector)	atomSelectionChanged() (in MM_StructMonitor)
addOutputFile() (in Launcher)	append (in SwigDoubleVector3)	AtomSelectionDelegate (in schrodinger.application.jaguar.gui.input_tab_widgets_pka)
addOutputFile() (in Stage)	append (in SwigIntVector)	AtomSelectionDelegate (in schrodinger.application.jaguar.gui.tabs.sub_tab_widgets.charge_constraints_widgets)
addOutputFileBE() (in App)	append (in SwigStringVector)	AtomType (in Packing)
addOutputFileFE() (in App)	append (in SwigUInt64Vector)	atomTypingCB() (in CanvasFingerprintGeneratorGUI)
addPair() (in ConnectionStorage)	append (in SwigUnsignedIntVector)	attach_fragment() (in schrodinger.structutils.build)
addPair() (in _FFIO)	append (in SwigUnsignedIntVector2)	attach_structure() (in schrodinger.structutils.build)
addPairmap() (in _FEPIO)	append (in SwigVectorIntIntPair)	attachAdjacentResidue() (in MmpdbxReader)
addPairmaps() (in _FEPIO)	append() (in FFIOStructure)	attachCap() (in CapTermini)
addPairs() (in _FFIO)	append() (in XpDesWriter)	Attachment (in schrodinger.application.combiglide.packages.chutils)
addPairwiseStructuralAnnotationActionSlot() (in sketcher)	append() (in QMRegion)	ATTACHMENT_PAIRS_TO_SKIP (in schrodinger.application.canvas.r_group)
addParent() (in Partition)	append() (in MMKVArgList)	ATTACHMENT_PROPERTY (in schrodinger.application.matsci.buildcomplex)
addParent() (in Partitioning)	append() (in SwigDoubleVector)	attachments (in AdductAttachment)
addPattern() (in LigfilterFrame)	append() (in SwigDoubleVector3)	attachments (in SubstrateAttachment)
addPatternCriterion() (in LigfilterFrame)	append() (in SwigIntVector)	ATTACHPROP (in schrodinger.structutils.createfragments)
addPBCProperties() (in Scaffold)	append() (in SwigStringVector)	attachStructConnInteraction() (in MmpdbxReader)
addPiPiInteraction() (in sketcher)	append() (in SwigUInt64Vector)	ATYP_MW_TARGET (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)
addPkaMarkers() (in InputEntriesModelPka)	append() (in SwigUnsignedIntVector)	ATYP_MW_WEIGHT (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)
addPoints() (in _RamachandranCallback)	append() (in SwigUnsignedIntVector2)	ATYP_NAT_TARGET (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)
addPointsToTemplate() (in ConvexPolyhedron)	append() (in SwigVectorIntIntPair)	ATYP_NAT_WEIGHT (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)
addPosfbhw() (in _FFIO)	append() (in DoubleDoubleList)	ATYP_NEL_TARGET (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)
addPosfbhws() (in _FFIO)	append() (in DoubleList)	ATYP_NEL_WEIGHT (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)
addPosFrozen() (in Minimizer)	append() (in StringList)	ATYPICAL (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)
addPosResRow() (in RestraintsTab)	append() (in Structure)	ATYPICAL_PATTERNS (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)
addPosRestraint() (in Minimizer)	append() (in SwigAtomList)	ATYPICAL_PROPS (in schrodinger.application.matsci.genetic_optimization.genetic_optimization)
addPredefinedCriterion() (in LigfilterFrame)	append() (in SwigAtomPairList)	AU_TO_KG_CONST (in MSEnergyGroup)
addPrereq() (in BaseJob)	append() (in SwigAtomPairWithValueList)	auth() (in _BaseClient)
addPreviousFreezerFile() (in StructureGenome)	append() (in SwigAtomQueryParamsList)	AUTO (in schrodinger.application.matsci.reordergui)
addProduct() (in ReactionTab)	append() (in SwigDcNonPbcAtomIdxList)	auto_partition() (in schrodinger.application.desmond.autopartition)
addPropCriterion() (in LigfilterFrame)	append() (in SwigDcPbcAtomList)	auto_write_lines (in schrodinger.protein.getpdb_utility)
addProperty() (in schrodinger.infra.propedit)	append() (in SwigPiCationList)	AutoColorCarbons (in schrodinger.application.bioluminate.pml_menus)
addpropop1Modified() (in LigfilterFrame)	append() (in SwigPiPiInteractionList)	AutoColorObjects (in schrodinger.application.bioluminate.pml_menus)
addPseudo() (in _FFIO)	append() (in SwigRingList)	AutoColorSubMenu (in schrodinger.application.bioluminate.pml_menus)
addPseudos() (in _FFIO)	append() (in SwigSaltBridgeList)	AutoCycleCarbonColor (in schrodinger.application.bioluminate.pml_menus)
addQMCut() (in QSiteInput)	append() (in MaestroWriter)	AutoCycleColor (in schrodinger.application.bioluminate.pml_menus)
addQMMolecule() (in QSiteInput)	append() (in Mol2Writer)	autoGpuToggled() (in DesmondGuiConfigDialog)
addRandomChannels() (in ChannelDefinitions)	append() (in PDBWriter)	autoMap() (in ReorderAtomFrame)
addRandomChannelsFromAll() (in ChannelDefinitions)	append() (in SDWriter)	Automatic (in SpinTreatment)
addRandomChannelsOnTheFly() (in ChannelDefinitions)	append() (in SmilesCsvWriter)	automatic_analysis_generator (in schrodinger.trajectory)
addReactant() (in ReactionTab)	append() (in SmilesStructure)	AUTOMATIC_CACHE_FREEING (in schrodinger.project)
addReferenceSeries() (in Plotter)	append() (in SmilesWriter)	AutomaticJobnameMixin (in schrodinger.application.jaguar.gui.base_panel)
addRequiredOutputFile() (in _Backend)	append() (in Structure)	autopartition (in schrodinger.application.desmond)
addRequiredOutputFile() (in Launcher)	append() (in StructureWriter)	autoPlace() (in Membrane_Model)
addResidue() (in RegionInfo)	append() (in TextualStructure)	autoPlaceByMolecule() (in Membrane_Model)
addResidue() (in sketcher)	append() (in MultiFileWriter)	autoprojectsync_call() (in schrodinger.application.desmond.maestro)
addResidueAtom() (in sketcher)	append() (in SwigDoubleVector)	autosetToggled() (in _Pert)
addResidueInteraction() (in sketcher)	append() (in SwigDoubleVector3)	available_color_schemes() (in schrodinger.structutils.color)
addResidues() (in PrimeConfig)	append() (in SwigIntVector)	AVAILABLE_FF (in _Flex)
addRestraint() (in _FFIO)	append() (in SwigStringVector)	available_tokens() (in LicenseResource)
addRestraints() (in _FFIO)	append() (in SwigUInt64Vector)	average_cavity() (in WaterMapAnaJob)
addResult() (in PerformanceTestCase)	append() (in SwigUnsignedIntVector)	average_cavity_cns() (in WaterMapAnaJob)
addResult() (in Test)	append() (in SwigUnsignedIntVector2)	average_energy() (in WaterMapAnaJob)
addRow() (in ActiveDatabaseTable)	append() (in SwigVectorIntIntPair)	average_hbond() (in WaterMapAnaJob)
addRow() (in PathModel)	append() (in List)	AverageStructure (in schrodinger.trajectory.analysis)
addRow() (in ResiduesModel)	append_comment() (in schrodinger.application.desmond.util)	AXES (in Box)
addRow() (in StrucListModel)	append_path() (in schrodinger.utils.env)	AXES (in schrodinger.application.matsci.buildcomplex)
addRow() (in SubTabModel)	append_project_command() (in schrodinger.maestro.maestro)	Axis() (in _VDCoordinateFrame)
addRow() (in WidgetTable)	append_stage() (in schrodinger.application.desmond.cmj)	AXIS_KEY (in schrodinger.application.matsci.nano.particle)
addRule() (in MM_CScheme)	appendFile() (in createFragmentDelegate)
addSalt() (in SystemBuilderInput)	appendFile() (in simpleEnumDockDelegate)