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2014-3 Schrodinger Python API
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P
p
(in
schrodinger.application.lid.ligand_interaction_diagram_gui
)
PKA_ATOM_ROLE
(in
schrodinger.application.jaguar.gui.input_tab_widgets_pka
)
printAction()
(in
Pipeline
)
pack()
(in
schroPmwWrapper
)
PKA_INVALID
(in
ProjEntryPka
)
printAction()
(in
StageJob
)
pack()
(in
GroundClass
)
PKA_MISSING
(in
ProjEntryPka
)
printAllChannels()
(in
ChannelDefinitions
)
pack()
(in
schroWidget
)
pka_property
(in
schrodinger.protein.assignment
)
printChannelDefs()
(in
Channels
)
pack_stage()
(in
StageBase
)
PKA_VALID
(in
ProjEntryPka
)
printFailureMessage()
(in
StageJob
)
PACKAGE_SUFFIX
(in
schrodinger.application.desmond.cmj
)
pl_image_tools
(in
schrodinger.application.desmond.event_analysis
)
printFailures()
(in
GeneticOptimization
)
packages
(in
schrodinger.application.combiglide
)
PLAnalysis
printFiltered()
(in
Channels
)
PAGE_MARGIN
(in
PicturePrinter
)
planar_groups
(in
schrodinger.protein.analysis_params
)
printFooter()
(in
TestUtility
)
paint()
(in
_StructViewItem
)
PlanarAngle
(in
schrodinger.trajectory.analysis
)
printHeader()
(in
TestUtility
)
paint()
(in
_zoomViewItem
)
PLATFORM_WARNING
(in
schrodinger.application.desmond.gui
)
printInfo()
(in
replica_container
)
paint()
(in
WorkspaceInclusionDelegate
)
plot
(in
schrodinger.application.desmond.mplchart
)
printJobParams()
(in
NanoSheets
)
paint_asl()
(in
Workspace
)
plot()
(in
Plotter
)
printJobParams()
(in
NanoTubes
)
paint_asl()
(in
schrodinger.application.desmond.maestro
)
plot()
(in
EnergyGroup
)
printline()
(in
schrodinger.test.stu.outcomes.jaguar
)
paint_mol()
(in
Workspace
)
plot()
(in
Reporter
)
printMultiWalledTubes()
(in
NanoTubes
)
paintCell()
(in
createFragmentDelegate
)
plot()
(in
Angle
)
printNode()
(in
IntervalTreeNode
)
paintCell()
(in
simpleEnumDockDelegate
)
plot()
(in
AverageStructure
)
printNotMinimized()
(in
Channels
)
PaintDeviceMetric
plot()
(in
CenterOfMass
)
printout()
(in
InputConfig
)
paintEvent()
(in
RowActionItem
)
plot()
(in
CenterOfMotion
)
printout()
(in
JobParameters
)
paintEvent()
(in
WorkspaceInclusionCheckBox
)
plot()
(in
CovarianceMatrix
)
printout()
(in
JobParameters
)
paintEvent()
(in
LegendDialog
)
plot()
(in
Dihedral
)
printParameters()
(in
Minimizer
)
paintEvent()
(in
TwoDWidget
)
plot()
(in
Distance
)
printParams()
(in
GeneticOptimization
)
paintEvent()
(in
sketcher
)
plot()
(in
HydrogenBondTracker
)
printProperties()
(in
GeneticOptimization
)
paintEvent()
(in
sketcherGUIMultiColumnToolBar
)
plot()
(in
LigandRMSD
)
printProps()
(in
MultiWalledNanoTube
)
paintEvent()
(in
sketcherView
)
plot()
(in
MolecularSurfaceArea
)
printProps()
(in
NanoTube
)
pair()
(in
_FFIO
)
plot()
(in
PlanarAngle
)
printRunSummary()
(in
TestUtility
)
pair_builtin_prop
(in
schrodinger.trajectory.ffstructure
)
plot()
(in
PolarSurfaceArea
)
printRxnReprs()
(in
Channels
)
PairDict
(in
schrodinger.application.desmond.energygroup
)
plot()
(in
Position
)
printSingleWalledTubes()
(in
NanoTubes
)
pairmap()
(in
_FEPIO
)
plot()
(in
RMSD
)
printStatus()
(in
NewEntryGroup
)
PairMarker
(in
schrodinger.maestro.markers
)
plot()
(in
RMSF
)
printStatus()
(in
JobDJ
)
pairwise_align_ct()
(in
schrodinger.application.ska
)
plot()
(in
RadiusOfGyration
)
printStatus()
(in
TestQueue
)
pairwise_align_pdb()
(in
schrodinger.application.ska
)
plot()
(in
Ramachandran
)
printStructure()
(in
FirstSecondaryStructure
)
paletteChange()
(in
sketcher
)
plot()
(in
SecondaryStructure
)
printStructure()
(in
SecondSecondaryStructure
)
paletteChange()
(in
sketcherGUIMultiColumnToolBar
)
plot()
(in
SolventAccessibleSurfaceArea
)
printSubTree()
(in
IntervalTreeNode
)
paletteChange()
(in
sketcherView
)
plot()
(in
SolventAccessibleSurfaceAreaByResidue
)
printSwapZmatAtom()
(in
ZmatAtom
)
paletteChanged()
(in
SimpleEnumDockPanel
)
plot()
(in
AnalysisTool
)
printTestNumbers()
(in
TestUtility
)
paletteRefreshed()
(in
SimpleEnumDockPanel
)
plot2D()
(in
AnalysisTool
)
printTransform()
(in
schrodinger.application.lid.lid2d.draw
)
PanedWidget
(in
schrodinger.ui.widget.pmwwidget
)
plot_2d()
(in
Reporter
)
printTransform()
(in
schrodinger.application.lid.ligand_interaction_diagram
)
PanedWindow
(in
schrodinger.ui.widget.tkinterwidget
)
plot_lambda_window_overlap()
(in
schrodinger.application.desmond.fepana
)
printTree()
(in
IntervalTree
)
panel()
(in
schrodinger.application.bioluminate.protein_report_widget
)
PLOT_TYPES
(in
ClusterStatisticsPlotDialog
)
printTree()
(in
DefinitionViewerDialog
)
panel()
(in
schrodinger.application.lid.ligand_interaction_diagram_gui
)
PLOT_TYPES
(in
DistanceMatrixPlotDialog
)
printvals()
(in
schrodinger.infra.propedit
)
panel()
(in
schrodinger.application.matsci.reordergui
)
PLOTALEA
(in
MopacCalculation
)
printZmatAtom()
(in
ZmatAtom
)
panel()
(in
schrodinger.application.moldescriptors.gui
)
PLOTALIE
(in
MopacCalculation
)
Priority
PanelModality
PLOTESP
(in
MopacCalculation
)
PriorityQueue
(in
schrodinger.job.queue
)
panels
(in
schrodinger.application.combiglide.combenumdock
)
Plotter
(in
schrodinger.analysis.enrichment
)
PRO_COLOR
(in
Rama
)
PARAM
(in
schrodinger.application.desmond.cmj
)
plus()
(in
Rama
)
PRO_MARKER
(in
schrodinger.application.desmond.fep_protein_prep
)
PARAM()
(in
StageBase
)
PM3
(in
schrodinger.application.mopac
)
prob
(in
schrodinger.application.desmond.ana
)
param()
(in
Key
)
pml_menus
(in
schrodinger.application.bioluminate
)
probe_checkpoint()
(in
schrodinger.application.desmond.cmj
)
PARAM()
(in
AlignCore
)
PML_PRESET_SURFACE
(in
schrodinger.application.bioluminate.pml_menus
)
process_ark()
(in
_KeywordProcessor
)
PARAM()
(in
Analysis
)
PML_SURFACE
(in
schrodinger.application.bioluminate.pml_menus
)
process_bennett_log()
(in
replica_container
)
PARAM()
(in
AssignForcefield
)
PMLContextMenu
(in
schrodinger.application.bioluminate.pml_menus
)
process_chunks()
(in
schrodinger.application.desmond.simulation_block_test
)
PARAM()
(in
BuildGeometry
)
PMLMenu
(in
schrodinger.application.bioluminate.pml_menus
)
process_highlights()
(in
schrodinger.utils.pymol
)
PARAM()
(in
CalcDdg
)
pmode()
(in
Sea
)
process_measurements()
(in
schrodinger.utils.pymol
)
PARAM()
(in
DesmondExtend
)
Pmw_initialise()
(in
schrodinger.ui.widget.tkinterwidget
)
process_option_strings()
(in
SingleDashOption
)
PARAM()
(in
Extern
)
pmwwidget
(in
schrodinger.ui.widget
)
process_pending_events()
(in
schrodinger.maestro.maestro
)
PARAM()
(in
FepAnalysis
)
PNAME
(in
_McproProt
)
process_prj()
(in
schrodinger.utils.pymol
)
PARAM()
(in
FepLauncher
)
PNAME0
(in
_DesmondProt
)
process_row()
(in
schrodinger.utils.pymol
)
PARAM()
(in
FepMapper
)
PNAME1
(in
_DesmondProt
)
process_surface()
(in
schrodinger.utils.pymol
)
PARAM()
(in
FepMapperReport
)
PNAME2
(in
_DesmondProt
)
processContextAction()
(in
ParticipantView
)
PARAM()
(in
FepMapping
)
point_group()
(in
schrodinger.application.jaguar.output
)
processEvents()
(in
AppFramework
)
PARAM()
(in
FepVrun
)
point_group_used()
(in
schrodinger.application.jaguar.output
)
processFrame()
(in
EnergyGroup
)
PARAM()
(in
ForcefieldBuilder
)
point_inside_rectangle()
(in
schrodinger.application.lid.lid2d.utils
)
processFrame()
(in
Angle
)
PARAM()
(in
LambdaHopping
)
pointForIndex()
(in
Grid3D
)
processFrame()
(in
AverageStructure
)
PARAM()
(in
McproSimulate
)
pointIsOutOfBounds()
(in
Grid3D
)
processFrame()
(in
CenterOfMass
)
PARAM()
(in
McproSystemBuilder
)
POLAR_CARBONS
(in
schrodinger.structutils.interactions
)
processFrame()
(in
CenterOfMotion
)
PARAM()
(in
Minimize
)
POLAR_CARBONS
(in
schrodinger.structutils.interactions.pi
)
processFrame()
(in
CovarianceMatrix
)
PARAM()
(in
Multisim
)
POLAR_NOT_CHARGED_RESIDUES
(in
schrodinger.structutils
)
processFrame()
(in
Dihedral
)
PARAM()
(in
PLAnalysis
)
POLAR_POS
(in
StructuralInteractionFingerprintGenerator
)
processFrame()
(in
Distance
)
PARAM()
(in
ProteinFepMapper
)
POLAR_RESIDUE
(in
StructuralInteractionFingerprintGenerator
)
processFrame()
(in
HydrogenBondFinder
)
PARAM()
(in
ProteinMutationGenerator
)
POLAR_RESIDUES
(in
schrodinger.application.bioluminate.protein
)
processFrame()
(in
HydrogenBondTracker
)
PARAM()
(in
ReplicaExchange
)
POLAR_RESIDUES
(in
schrodinger.structutils
)
processFrame()
(in
LigandRMSD
)
PARAM()
(in
Simulate
)
POLAR_RESIDUES
(in
StructuralInteractionFingerprintGenerator
)
processFrame()
(in
MolecularSurfaceArea
)
PARAM()
(in
SolvatePocket
)
PolarContactsObject
(in
schrodinger.application.bioluminate.pml_menus
)
processFrame()
(in
PlanarAngle
)
PARAM()
(in
SystemBuilder
)
PolarContactsOnlyMainchain
(in
schrodinger.application.bioluminate.pml_menus
)
processFrame()
(in
PolarSurfaceArea
)
PARAM()
(in
Task
)
PolarContactsOnlySidechain
(in
schrodinger.application.bioluminate.pml_menus
)
processFrame()
(in
Position
)
PARAM()
(in
Trajectory
)
PolarContactsSubMenu
(in
schrodinger.application.bioluminate.pml_menus
)
processFrame()
(in
RMSD
)
PARAM()
(in
Trim
)
PolarContactsToAnyAtoms
(in
schrodinger.application.bioluminate.pml_menus
)
processFrame()
(in
RMSF
)
PARAM()
(in
Vrun
)
PolarContactsToAnyNonSolvent
(in
schrodinger.application.bioluminate.pml_menus
)
processFrame()
(in
RadiusOfGyration
)
PARAM()
(in
WaterMap
)
PolarContactsToEntry
(in
schrodinger.application.bioluminate.pml_menus
)
processFrame()
(in
Ramachandran
)
PARAM()
(in
WaterMapCluster
)
PolarContactsToEntryWithoutSolvent
(in
schrodinger.application.bioluminate.pml_menus
)
processFrame()
(in
SecondaryStructure
)
PARAM()
(in
WaterMapPostAnalysis
)
PolarContactsWithoutIntraMainchain
(in
schrodinger.application.bioluminate.pml_menus
)
processFrame()
(in
SolventAccessibleSurfaceArea
)
param_in_parfile
(in
schrodinger.application.mcpro.writeinputs
)
PolarContactsWithoutMainchain
(in
schrodinger.application.bioluminate.pml_menus
)
processFrame()
(in
SolventAccessibleSurfaceAreaByResidue
)
parameters_c
(in
schrodinger.infra.mopac
)
PolarContactsWithoutSolvent
(in
schrodinger.application.bioluminate.pml_menus
)
processFrame()
(in
VolumeMapper
)
parameters_dict
(in
schrodinger.application.lid.ligand_interaction_diagram_test
)
PolarContactsWithSidechains
(in
schrodinger.application.bioluminate.pml_menus
)
processFrame()
(in
AnalysisTool
)
PARAMS
(in
Jcoupling
)
PolarContactsWithSolvent
(in
schrodinger.application.bioluminate.pml_menus
)
processFrame()
(in
HydrophobicContactFinder
)
ParaStyle
(in
schrodinger.application.desmond.report_helper
)
POLARIZABILITY
(in
schrodinger.application.moldescriptors.impl
)
processFrame()
(in
Jcoupling
)
paraUtils
(in
schrodinger.application.macromodel
)
POLARIZABILITY_ROW
(in
schrodinger.application.jaguar.gui.tabs.properties_tab
)
processFrame()
(in
ProtLigInteractionFinder
)
parent()
(in
Node
)
PolarizabilitySubTab
(in
schrodinger.application.jaguar.gui.tabs.properties_tab
)
processFrame()
(in
SaltBridgeFinder
)
parent()
(in
Sea
)
polarization
(in
_Basis
)
processHbFrame()
(in
ProtLigInteractionFinder
)
parent_dir()
(in
schrodinger.application.desmond.util
)
PolarSurfaceArea
(in
schrodinger.trajectory.analysis
)
processHydrophobic()
(in
ProtLigInteractionFinder
)
parent_structure
(in
FFStructure
)
polygon
(in
schrodinger.graphics3d
)
processHydrophobicFrame()
(in
HydrophobicContactFinder
)
pargph()
(in
schrodinger.application.desmond.report_helper
)
Polygon
(in
schrodinger.graphics3d.polygon
)
processJobOutputs()
(in
GeneratePropsStage
)
parse()
(in
TreeWizard
)
polyhedron
(in
schrodinger.graphics3d
)
processJobOutputs()
(in
LigFilterStage
)
parse()
(in
TextParser
)
Polyhedron
(in
schrodinger.graphics3d.polyhedron
)
processJobOutputs()
(in
DockingStage
)
parse()
(in
Scan
)
POLYMER
(in
schrodinger.application.bioluminate.pml_menus
)
processJobOutputs()
(in
LigPrepStage
)
parse()
(in
CriterionParser
)
pop()
(in
CommonTreeNodeStream
)
processJobOutputs()
(in
ConfSearchStage
)
parse()
(in
DefinitionParser
)
pop()
(in
PairDict
)
processJobOutputs()
(in
SampleRingsStage
)
parse()
(in
_MySplit
)
pop()
(in
SwigDoubleVector
)
processJobOutputs()
(in
MMGBSAStage
)
parse_args()
(in
schrodinger.application.moldescriptors.backend
)
pop()
(in
SwigDoubleVector3
)
processJobOutputs()
(in
PrimeStage
)
parse_args()
(in
schrodinger.application.moldescriptors.startup
)
pop()
(in
SwigIntVector
)
processJobOutputs()
(in
QikPropStage
)
parse_args()
(in
HuntOptions
)
pop()
(in
SwigStringVector
)
processJobOutputs()
(in
QSiteStage
)
parse_args()
(in
SingleDashOptionParser
)
pop()
(in
SwigUInt64Vector
)
processJobOutputs()
(in
SemiEmpStage
)
parse_arguments()
(in
schrodinger.protein.getpdb_utility
)
pop()
(in
SwigUnsignedIntVector
)
ProcessLigands
(in
schrodinger.application.desmond.covalent_fep_prep
)
parse_basis()
(in
schrodinger.application.jaguar.basis
)
pop()
(in
SwigUnsignedIntVector2
)
processMetalFrame()
(in
ProtLigInteractionFinder
)
parse_command_line()
(in
schrodinger.application.vsw.vswinput
)
pop()
(in
SwigVectorIntIntPair
)
processOldDBs()
(in
ActiveDatabaseDialog
)
parse_eneseq()
(in
schrodinger.application.desmond.fepana
)
pop()
(in
SwigDoubleVector
)
processor_string()
(in
schrodinger.test.performance
)
parse_fep_data()
(in
FEPReportMaker
)
pop()
(in
SwigDoubleVector3
)
processPiCationFrame()
(in
HydrophobicContactFinder
)
parse_geometry()
(in
schrodinger.application.desmond.util
)
pop()
(in
SwigIntVector
)
processPiFrame()
(in
ProtLigInteractionFinder
)
parse_indices()
(in
schrodinger.application.desmond.enhsamp
)
pop()
(in
SwigStringVector
)
processPiPiFrame()
(in
HydrophobicContactFinder
)
parse_it()
(in
schrodinger.application.desmond.extend_fep_backend
)
pop()
(in
SwigUInt64Vector
)
processProducts()
(in
Channels
)
parse_it()
(in
schrodinger.application.desmond.title_to_hex
)
pop()
(in
SwigUnsignedIntVector
)
ProcessProteins
(in
schrodinger.application.desmond.covalent_fep_prep
)
parse_keyword_list()
(in
schrodinger.application.matsci.jobutils
)
pop()
(in
SwigUnsignedIntVector2
)
processResults()
(in
ThreadedJob
)
parse_lambda()
(in
schrodinger.application.desmond.config
)
pop()
(in
SwigVectorIntIntPair
)
processSbFrame()
(in
ProtLigInteractionFinder
)
parse_lambda()
(in
schrodinger.application.desmond.gconfig
)
pop()
(in
SwigAtomList
)
processStatus()
(in
TestSPJob
)
parse_log_file()
(in
schrodinger.test.stu.outcomes.standard_workups
)
pop()
(in
SwigAtomPairLists
)
processWatersFrame()
(in
ProtLigInteractionFinder
)
parse_meta()
(in
schrodinger.application.desmond.meta
)
pop()
(in
SwigAtomQueryParamsList
)
processWorkList()
(in
ExtensionWorkflow
)
parse_mexpr()
(in
schrodinger.application.desmond.enhsamp
)
pop()
(in
SwigPiCationLists
)
processWorkList()
(in
RestartWorkflow
)
parse_msj()
(in
schrodinger.application.desmond.cmj
)
pop()
(in
SwigPiPiLists
)
PROCS_COL
(in
MultiHostTableModel
)
parse_sba()
(in
schrodinger.application.desmond.simulation_block_data
)
pop()
(in
SwigRingList
)
procText()
(in
schrodinger.application.desmond.enhsamp
)
parse_sbt()
(in
schrodinger.application.desmond.simulation_block_test
)
pop()
(in
OneIndexedList
)
PRODUCT
(in
MultiStructureTab
)
parse_slice()
(in
schrodinger.application.desmond.util
)
pop()
(in
PriorityQueue
)
product
(in
schrodinger.test.stu.constants
)
parseAtomText()
(in
StructureListWidget
)
pop()
(in
List
)
product_dependencies
(in
schrodinger.test.stu.constants
)
parseCanvasCsv()
(in
Calculator
)
pop_back()
(in
SwigDoubleVector
)
PRODUCT_NAME_BASE
(in
Products
)
parseConfigFile()
(in
schrodinger.test.stu.outcomes.jaguar
)
pop_back()
(in
SwigDoubleVector3
)
PRODUCT_PREFIX
(in
schrodinger.application.jaguar.gui.tabs.reaction_molecules_tab
)
ParseError
(in
schrodinger.application.desmond.cmj
)
pop_back()
(in
SwigIntVector
)
Products
(in
schrodinger.application.matsci.rxn_channel.rxn_channel
)
parseInput()
(in
Calculator
)
pop_back()
(in
SwigStringVector
)
profile_get_current_parent()
(in
schrodinger.maestro.maestro
)
parseInputFile()
(in
MMKVSettings
)
pop_back()
(in
SwigUInt64Vector
)
profiling
(in
schrodinger.job.hunt_stub
)
parseLine()
(in
Criterion
)
pop_back()
(in
SwigUnsignedIntVector
)
profiling
(in
schrodinger.job.jobcontrol
)
parseNode()
(in
TreePatternParser
)
pop_back()
(in
SwigUnsignedIntVector2
)
PROG
(in
schrodinger.application.desmond.enhanced_sampling.mexpLexer
)
parseOptions()
(in
CanvasFingerprintClusterCLI
)
pop_back()
(in
SwigVectorIntIntPair
)
PROG
(in
schrodinger.application.desmond.enhanced_sampling.mexpParser
)
parseOptions()
(in
CanvasFingerprintGeneratorCLI
)
pop_back()
(in
SwigDoubleVector
)
prog()
(in
mexpParser
)
parseOptions()
(in
CanvasFingerprintSimilarityCLI
)
pop_back()
(in
SwigDoubleVector3
)
prog_return
(in
mexpParser
)
parseOptions()
(in
_Main
)
pop_back()
(in
SwigIntVector
)
progress_set()
(in
App
)
parsePropertyString()
(in
Property
)
pop_back()
(in
SwigStringVector
)
project
(in
schrodinger
)
Parser
(in
schrodinger.application.desmond.antlr3.recognizers
)
pop_back()
(in
SwigUInt64Vector
)
Project
(in
schrodinger.project
)
parser
(in
schrodinger.application.desmond.cns_io
)
pop_back()
(in
SwigUnsignedIntVector
)
PROJECT_CLOSE_CALLBACK
(in
schrodinger.maestro.maestro
)
parser
(in
schrodinger.application.desmond.system_builder_util
)
pop_back()
(in
SwigUnsignedIntVector2
)
project_close_callback_add()
(in
schrodinger.maestro.maestro
)
parser
(in
schrodinger.application.watermap.watermap_inp
)
pop_back()
(in
SwigVectorIntIntPair
)
project_close_callback_remove()
(in
schrodinger.maestro.maestro
)
ParserMain
(in
schrodinger.application.desmond.antlr3.main
)
pop_back()
(in
SwigAtomList
)
project_close_cancel()
(in
schrodinger.maestro.maestro
)
ParserRuleReturnScope
(in
schrodinger.application.desmond.antlr3.recognizers
)
pop_back()
(in
SwigAtomPairLists
)
project_get()
(in
schrodinger.maestro.maestro
)
parseSolvent()
(in
DrawSolventPanel
)
pop_back()
(in
SwigAtomQueryParamsList
)
PROJECT_RENAME_CALLBACK
(in
schrodinger.maestro.maestro
)
parseStr()
(in
schrodinger.application.desmond.enhsamp
)
pop_back()
(in
SwigPiCationLists
)
project_rename_callback_add()
(in
schrodinger.maestro.maestro
)
parseStream()
(in
LexerMain
)
pop_back()
(in
SwigPiPiLists
)
project_rename_callback_remove()
(in
schrodinger.maestro.maestro
)
parseStream()
(in
ParserMain
)
pop_back()
(in
SwigRingList
)
PROJECT_SUFFIXES
(in
schrodinger.ui.qt.filedialog
)
parseStream()
(in
WalkerMain
)
pop_errors()
(in
ErrorHandler
)
PROJECT_TABLE
(in
JobInputFrame
)
parseStream()
(in
_Main
)
pop_level()
(in
ErrorHandler
)
PROJECT_TABLE
(in
JobInputFrame
)
parseTree()
(in
TreePatternParser
)
pop_level()
(in
schrodinger.infra.mmerr
)
project_table_get()
(in
schrodinger.maestro.maestro
)
parseWorkup()
(in
TestScript
)
POPEN
(in
schrodinger.application.desmond.enhanced_sampling.mexpLexer
)
project_table_synchronize()
(in
schrodinger.maestro.maestro
)
PART_FILL
(in
_Class
)
POPEN
(in
schrodinger.application.desmond.enhanced_sampling.mexpParser
)
project_table_update()
(in
schrodinger.maestro.maestro
)
PARTIAL
(in
GenOptions
)
Popen()
(in
schrodinger.utils.subprocess
)
PROJECT_UPDATE_CALLBACK
(in
schrodinger.maestro.maestro
)
PARTIAL
(in
schrodinger.ui.widget.tkinterwidget
)
popitem()
(in
PairDict
)
project_update_callback_add()
(in
schrodinger.maestro.maestro
)
partial_charge
(in
_StructureAtom
)
populateExcitedStatesType()
(in
ExcitedStateWidget
)
project_update_callback_remove()
(in
schrodinger.maestro.maestro
)
PARTIAL_CHARGE_4D
(in
schrodinger.application.bioluminate.pml_menus
)
populateHostsTable()
(in
MultiHostSelector
)
projectClosed()
(in
ReactionTab
)
partial_structure_reader()
(in
schrodinger.test.stu.outcomes.prime_workups
)
populatePickCombo()
(in
CoordinatePicker
)
projectClosedCallback()
(in
_App
)
participants
(in
ReactionTab
)
populateTypeCombo()
(in
CoordinatePicker
)
ProjectException
(in
schrodinger.project
)
ParticipantView
(in
schrodinger.application.jaguar.gui.tabs.reaction_tab
)
POPULATION
(in
schrodinger.application.matsci.genetic_optimization.genetic_optimization
)
ProjectOpenDialog
(in
schrodinger.ui.qt.filedialog
)
particle_position
(in
_DesmondFrame
)
popUpUpdated()
(in
BasisSelectorLineEdit
)
ProjectReader
(in
schrodinger.infra.structure
)
particle_total
(in
_DesmondFrame
)
PopUpWidget
(in
schrodinger.ui.qt.appframework
)
ProjectReader_readFromIndex()
(in
schrodinger.infra._structure
)
particle_velocity
(in
_DesmondFrame
)
pos()
(in
_fakeEvent
)
ProjectReader_readNext()
(in
schrodinger.infra._structure
)
PasswordRetryException
(in
schrodinger.utils.urllib
)
PoseLibrary
(in
schrodinger.application.glide.glideanalysis
)
ProjectReader_swiginit()
(in
schrodinger.infra._structure
)
past_tense
(in
TestUtility
)
poseviewconvert
(in
schrodinger.application.glide
)
ProjectReader_swigregister()
(in
schrodinger.infra._structure
)
patch()
(in
_BaseClient
)
posfbhw()
(in
_FFIO
)
ProjectRow
(in
schrodinger.project
)
PATH
(in
schrodinger.utils.env
)
Position
(in
schrodinger.trajectory.analysis
)
PROJECTS_FILTER
(in
schrodinger.ui.qt.filedialog
)
PATH_MAX
(in
_mmutil'
)
position
(in
_DesmondFrame
)
projectUpdated()
(in
InputTabMixin
)
PATH_MAX
(in
schrodinger.infra.mm
)
POSITION_SCHEME
(in
schrodinger.application.bioluminate.pml_menus
)
projectUpdated()
(in
MultiStructureMixin
)
PATH_MAX
(in
schrodinger.utils.mmutil
)
POSITIONAL
(in
schrodinger.application.glide.glide
)
projectUpdated()
(in
SelectedEntriesModel
)
PathModel
(in
schrodinger.application.desmond.fep_gui
)
PositionalConstraint
(in
schrodinger.application.glide.glide
)
projectUpdated()
(in
InputTabBase
)
pathModified()
(in
FileEntry
)
POSITIVES
(in
schrodinger.structutils.interactions
)
projectUpdated()
(in
MultiStructureTab
)
pathname()
(in
schrodinger.utils.sea
)
POSITIVES
(in
schrodinger.structutils.interactions.pi
)
ProjEntry
(in
schrodinger.application.jaguar.gui.input_tab_widgets
)
PATTERN
(in
ChannelDefinition
)
PosResDelegate
(in
schrodinger.application.desmond.gui
)
ProjEntryPka
(in
schrodinger.application.jaguar.gui.input_tab_widgets_pka
)
pattern()
(in
TreePatternParser
)
PosResModel
(in
schrodinger.application.desmond.gui
)
ProjEntryTuple
(in
schrodinger.application.jaguar.gui.input_tab_widgets
)
PatternModel
(in
schrodinger.ui.ligfilter
)
PosResRow
(in
schrodinger.application.desmond.gui
)
ProjEntryTuplePka
(in
schrodinger.application.jaguar.gui.input_tab_widgets_pka
)
PB_BOX_FACTOR
(in
schrodinger.application.desmond.fep_net_charge
)
post()
(in
PMLContextMenu
)
PROJET_TABLE
(in
SimplifiedSequenceViewer
)
PBC
(in
schrodinger.infra.structure
)
post()
(in
_BaseClient
)
promoteShowToolTip()
(in
SelectedEntriesProxyModel
)
pbc_manager
(in
schrodinger.trajectory
)
post()
(in
_Cell
)
PromptDialog
(in
schrodinger.ui.widget.pmwwidget
)
PBC_swiginit()
(in
schrodinger.infra._structure
)
post_system()
(in
schrodinger.test.performance
)
prop
(in
schrodinger.structure
)
PBC_swigregister()
(in
schrodinger.infra._structure
)
postCommand()
(in
BaseJob
)
PROP_BOOLEAN
(in
schrodinger.structure
)
PBCMeasureMananger
(in
schrodinger.trajectory.pbc_manager
)
PostLigPrepStage
(in
schrodinger.pipeline.stages.ligprep
)
PROP_CONVERSIONS
(in
schrodinger.application.bioluminate.protein
)
PCLOSE
(in
schrodinger.application.desmond.enhanced_sampling.mexpLexer
)
postProcess()
(in
AverageStructure
)
PROP_FLOAT
(in
schrodinger.structure
)
PCLOSE
(in
schrodinger.application.desmond.enhanced_sampling.mexpParser
)
postProcess()
(in
CovarianceMatrix
)
PROP_INTEGER
(in
schrodinger.structure
)
PDB
(in
schrodinger.utils.fileutils
)
postProcess()
(in
AnalysisTool
)
PROP_LONG_NAME
(in
schrodinger.structure
)
PDB_ATOM_NAME_KEY
(in
schrodinger.application.matsci.genetic_optimization.genetic_optimization
)
poststage()
(in
StageBase
)
prop_RE
(in
schrodinger.infra.propedit
)
PDB_RES_NAME_KEY
(in
schrodinger.application.matsci.genetic_optimization.genetic_optimization
)
poststage()
(in
FepAnalysis
)
PROP_REAL
(in
schrodinger.structure
)
PDB_STRING
(in
SimplifiedSequenceViewer
)
poststage()
(in
FepAnalysis2
)
PROP_SHORT_NAME
(in
schrodinger.structure
)
pdbcode
(in
_StructureAtom
)
poststage()
(in
FepMapperReport
)
PROP_STRING
(in
schrodinger.structure
)
pdbname
(in
schrodinger.application.prepwizard
)
poststage()
(in
Stop
)
prop_type_names
(in
schrodinger.application.desmond.ffiostructure
)
pdbname
(in
_StructureAtom
)
poststage()
(in
SystemBuilder
)
prop_value
(in
Array_Prop
)
PDBNAME_ELEMENT_DICT
(in
schrodinger.application.prepwizard
)
poststage()
(in
WaterMapCluster
)
propedit
(in
schrodinger.infra
)
PdbReader
(in
schrodinger.infra.structure
)
postTreatMinimizedStructure()
(in
ItemRow
)
properties
(in
schrodinger.application.medchem.property
)
PDBReader
(in
schrodinger.structure
)
potential()
(in
BondRotator
)
properties_c
(in
schrodinger.infra.mopac
)
PdbReader_swiginit()
(in
schrodinger.infra._structure
)
PotentialEnergy
(in
schrodinger.application.desmond.simulation_block_test
)
PROPERTIES_NOT_IN_TABLE_1_FILE
(in
schrodinger.infra.mm
)
PdbReader_swigregister()
(in
schrodinger.infra._structure
)
PotentialFrame
(in
schrodinger.ui.macromodel
)
properties_tab
(in
schrodinger.application.jaguar.gui.tabs
)
pdbres
(in
_Residue
)
POWER_LAW_SCALING
(in
schrodinger.application.matsci.genetic_optimization.genetic_optimization
)
properties_tab_ui
(in
schrodinger.application.jaguar.gui.ui
)
pdbres
(in
_StructureAtom
)
PR_NAME
(in
TimeSeriesAnalysisJob
)
PropertiesMixin
(in
schrodinger.application.jaguar.gui.base_panel
)
pdbres
(in
Ligand
)
pre_score_pairs()
(in
hbond_cluster
)
PropertiesTab
(in
schrodinger.application.jaguar.gui.tabs.properties_tab
)
PDBWriter
(in
schrodinger.structure
)
pre_score_self()
(in
hbond_cluster
)
PropertiesTabBase
(in
schrodinger.application.jaguar.gui.tabs.properties_tab
)
PENALIZE
(in
schrodinger.application.glide.glide
)
pre_treat()
(in
changeable
)
PropertiesTabIGO
(in
schrodinger.application.jaguar.gui.tabs.properties_tab
)
PEOE_INTERVAL
(in
schrodinger.application.moldescriptors.impl
)
pre_treat_1()
(in
amide_changeable
)
PropertiesTableWidget
(in
schrodinger.application.jaguar.gui.utils
)
peptide_planarity_data_set
(in
Report
)
pre_treat_1()
(in
amine_changeable
)
PropertiesValidatorMixin
(in
schrodinger.application.jaguar.gui.base_panel
)
PERCENT
(in
schrodinger.application.desmond.antlr3.treewizard
)
pre_treat_1()
(in
carboxyl_changeable
)
property
(in
_Element
)
Percent_helix()
(in
schrodinger.utils.ligfilter
)
pre_treat_1()
(in
changeable
)
property
(in
_FEPIO
)
Percent_loop()
(in
schrodinger.utils.ligfilter
)
pre_treat_1()
(in
histidine_changeable
)
property
(in
_FEPIOSubBlock
)
Percent_strand()
(in
schrodinger.utils.ligfilter
)
pre_treat_1()
(in
rotatable_changeable
)
property
(in
_FFIO
)
percentage()
(in
_Rotamer
)
pre_treat_2()
(in
amide_changeable
)
property
(in
_FFIOSubBlock
)
perform_transmutations()
(in
schrodinger.application.matsci.enumeration
)
pre_treat_2()
(in
amine_changeable
)
Property
(in
schrodinger.application.matsci.genetic_optimization.genetic_optimization
)
performance
(in
schrodinger.test
)
pre_treat_2()
(in
carboxyl_changeable
)
property
(in
schrodinger.application.medchem
)
performTransmutation()
(in
Alchemist
)
pre_treat_2()
(in
changeable
)
property
(in
Structure
)
performTransmutation()
(in
ElementAlchemist
)
pre_treat_2()
(in
histidine_changeable
)
property
(in
TextualStructure
)
PERIODIC_CALLBACK
(in
schrodinger.maestro.maestro
)
pre_treat_2()
(in
rotatable_changeable
)
property
(in
_StructureAtom
)
periodic_callback_add()
(in
schrodinger.maestro.maestro
)
PRECISION
(in
CanvasFingerprintGenerator
)
property
(in
_StructureBond
)
periodic_callback_remove()
(in
schrodinger.maestro.maestro
)
precision
(in
BondCharge
)
property
(in
_FFAngle
)
PERIODIC_TABLE_COLUMNS
(in
schrodinger.application.matsci.genetic_optimization.genetic_optimization
)
precision
(in
Dipole
)
property
(in
_FFBond
)
periodicfix
(in
schrodinger.application.desmond
)
precision
(in
FukuiIndices
)
property
(in
_FFConstraint
)
PERL5LIB
(in
schrodinger.utils.env
)
precision
(in
Orbital
)
property
(in
_FFDihedral
)
permanent_arrays
(in
schrodinger.infra.mopac
)
precision
(in
ThermoCollection
)
property
(in
_FFExclusion
)
PERMANENT_LICENSE_FAILURE
(in
JobStatus
)
precision
(in
ThermoProp
)
property
(in
_FFPair
)
perp()
(in
schrodinger.application.lid.lid2d.utils
)
precision
(in
ZVariables
)
property
(in
_FFPseudo
)
PERSONAL_FRAGS_DIR
(in
schrodinger.application.combiglide.combenumdock
)
precision
(in
Scan
)
property
(in
_FFRestraint
)
PERSONAL_PALS_DIR
(in
schrodinger.application.combiglide.combenumdock
)
PRECISION
(in
schrodinger.application.watermap.watermap_scoring
)
property
(in
_FFSite
)
PERT_NAME
(in
ModelSystem
)
preCommand()
(in
GuiApp
)
property
(in
_FFVdwtype
)
PertID
(in
schrodinger.application.mcpro.perturbations
)
preCommand()
(in
BaseJob
)
property
(in
_FFVirtual
)
PertReorder
(in
schrodinger.application.mcpro.perturbations
)
preCommand()
(in
TestSPJob
)
PROPERTY
(in
schrodinger.utils.ligfilter
)
perturbation_databases
(in
schrodinger.application.mcpro.perturbations
)
PREDEFINED
(in
schrodinger.utils.ligfilter
)
property_dict
(in
schrodinger.maestro.maestro
)
perturbations
(in
schrodinger.application.mcpro
)
PREDEFINED_ATOM_GROUP
(in
schrodinger.application.desmond.mdkey
)
PROPERTY_METHOD
(in
PolarizabilitySubTab
)
Perturbations
(in
schrodinger.application.mcpro.perturbations
)
predefined_function_dict
(in
schrodinger.utils.ligfilter
)
property_names
(in
schrodinger.application.matsci
)
PFF_2005
(in
schrodinger.structutils.minimize
)
PREDEFINED_GROUP_NAME
(in
_AtomGroup
)
PropertyCalculator
(in
schrodinger.application.bioluminate.protein
)
PFILE
(in
_McproProt
)
PREDEFINED_KEYS
(in
schrodinger.utils.ligfilter
)
PropertyCriterion
(in
schrodinger.utils.ligfilter
)
PFILE0
(in
_DesmondProt
)
PREDEFINED_STAGE_FAMILY
(in
schrodinger.application.desmond.stage
)
PropertyDictionary
(in
schrodinger.project
)
PFILE1
(in
_DesmondProt
)
PredefinedCriterion
(in
schrodinger.utils.ligfilter
)
PropertyName
(in
schrodinger.structure
)
PFILE2
(in
_DesmondProt
)
predict()
(in
DFA
)
propertyselector
(in
schrodinger.ui
)
PH_DEF
(in
schrodinger.application.ligprep.ionizer
)
predict_remd_temp
(in
schrodinger.application.desmond
)
PropertySelector
(in
schrodinger.ui.propertyselector
)
PH_DIFF_TOL
(in
schrodinger.application.ligprep.ionizer
)
predict_temperature()
(in
schrodinger.application.desmond.predict_remd_temp
)
PropertySelectorMenu
(in
schrodinger.ui.propertyselector
)
pH_high
(in
schrodinger.protein.assignment
)
predict_temperature_ladder()
(in
schrodinger.application.desmond.remd
)
PropertySelectorWithRanges
(in
schrodinger.application.bioluminate.propfilter
)
pH_low
(in
schrodinger.protein.assignment
)
predict_with_nreplica_and_exch()
(in
schrodinger.application.desmond.remd
)
propfilter
(in
schrodinger.application.bioluminate
)
pH_neutral
(in
schrodinger.protein.assignment
)
predict_with_temp_and_exch()
(in
schrodinger.application.desmond.remd
)
propfilter_ui
(in
schrodinger.application.bioluminate
)
PH_PRECISION
(in
schrodinger.application.ligprep.ionizer
)
predict_with_temp_and_nreplica()
(in
schrodinger.application.desmond.remd
)
PropFilterDialog
(in
schrodinger.application.bioluminate.propfilter
)
PH_THRESH_DEF
(in
schrodinger.application.ligprep.ionizer
)
PREF_ACTIVE_DATABASES
(in
schrodinger.application.bioluminate.antibody.utils
)
propka_parse
(in
schrodinger.application.bioluminate
)
pH_vlow
(in
schrodinger.protein.assignment
)
PREF_ALL_DATABASES
(in
schrodinger.application.bioluminate.antibody.utils
)
PROPKA_SCRIPT
(in
schrodinger.application.bioluminate.run_propka
)
phase
(in
schrodinger.application
)
pref_dir
(in
schrodinger.application.bioluminate.pml_menus
)
PropkaError
(in
schrodinger.application.bioluminate.protein
)
phase
(in
schrodinger.application.vsw.stages
)
PREF_GROUP
(in
schrodinger.application.matsci.builderwidgets
)
PropKaException
(in
schrodinger.protein.assignment
)
PHASE
(in
schrodinger.infra.mm
)
preferences
(in
schrodinger.application.bioluminate.antibody.utils
)
PROT_AND_DNA_SELE
(in
schrodinger.application.bioluminate.pml_menus
)
phase
(in
schrodinger.pipeline.stages
)
preferences
(in
schrodinger.utils
)
PROT_ANIONS
(in
SaltBridgeFinder
)
PHASE
(in
schrodinger.utils.preferences
)
Preferences
(in
schrodinger.utils.preferences
)
PROT_CATIONS
(in
SaltBridgeFinder
)
PHASE_CORE_HOPPING
(in
schrodinger.infra.mm
)
PREFIX_CALLOUTS
(in
schrodinger.utils.pymol
)
PROT_FINAL_NAME
(in
ModelSystem
)
PHASE_DBCREATE
(in
schrodinger.infra.mm
)
PREFIX_MAPS
(in
schrodinger.utils.pymol
)
PROT_NAME
(in
ModelSystem
)
PHASE_DBSEARCH
(in
schrodinger.infra.mm
)
PREFIX_MEASUREMENTS
(in
schrodinger.utils.pymol
)
PROT_ONLY
(in
ModelSystem
)
PHASE_ELEMENTS
(in
schrodinger.infra.mm
)
PREFIX_NAME
(in
_AtomGroup
)
prot_toggle()
(in
_Flex
)
PHASE_FEATURE
(in
schrodinger.infra.mm
)
PREFIX_NAME_LEN
(in
_AtomGroup
)
ProtAssign
(in
schrodinger.protein.assignment
)
PHASE_FQSAR
(in
schrodinger.infra.mm
)
PREFIX_SURFACES
(in
schrodinger.utils.pymol
)
protein
(in
schrodinger.application.bioluminate
)
PHASE_PARTITION
(in
schrodinger.infra.mm
)
preflight()
(in
JaguarInput
)
protein
(in
schrodinger
)
PHASE_QSAR
(in
schrodinger.infra.mm
)
premul()
(in
schrodinger.application.lid.lid2d.utils
)
PROTEIN_ASL
(in
schrodinger.trajectory.automatic_analysis_generator
)
PHASE_SCORING
(in
schrodinger.infra.mm
)
preoptimizeIsChecked()
(in
ReactionPropertiesTab
)
protein_dictionary()
(in
schrodinger.structutils.interactions.pi
)
PHASE_SELECTIVITY
(in
schrodinger.infra.mm
)
prep()
(in
PrepLigand
)
PROTEIN_ELEC_BLOCK
(in
schrodinger.application.desmond.fep_net_charge
)
PhaseDatabaseIconProvider
(in
schrodinger.ui.qt.filedialog
)
prep_all()
(in
ProcessProteins
)
PROTEIN_MUTATION
(in
schrodinger.application.desmond.fep_gui
)
PhaseDatabaseOpenDialog
(in
schrodinger.ui.qt.filedialog
)
prep_it()
(in
ProteinPrep
)
protein_report_widget
(in
schrodinger.application.bioluminate
)
PHASEDB
(in
schrodinger.application.vsw.vswinput
)
prep_master_cmd()
(in
schrodinger.application.desmond.extend_fep
)
PROTEIN_RIP
(in
schrodinger.application.desmond.fep_net_charge
)
PHASEDB
(in
schrodinger.pipeline.pipeio
)
prep_struc()
(in
schrodinger.application.desmond.mdkey
)
protein_sequences
(in
SimplifiedSequenceViewer
)
PhaseDB
(in
schrodinger.pipeline.pipeio
)
prep_subjob_cmd()
(in
schrodinger.application.desmond.extend_fep
)
protein_structure_quality
(in
schrodinger.application.bioluminate
)
PHASEDB_FILTER
(in
schrodinger.ui.qt.filedialog
)
prepActive()
(in
PrimeConfig
)
protein_structure_quality_ui
(in
schrodinger.application.bioluminate
)
PHASEDB_SUFFIXES
(in
schrodinger.ui.qt.filedialog
)
prepAntibodyLoop()
(in
PrimeConfig
)
ProteinFepMapper
PHI
(in
schrodinger.graphics3d.polyhedron
)
prepare()
(in
SysType
)
proteinHandler
(in
schrodinger.application.mcpro.zmat
)
phi0
(in
_FFIOImproperFBHW
)
prepare()
(in
TyperBase
)
ProteinMapperMsjGenerator
(in
schrodinger.application.desmond.mapper_msj_generator
)
PhotoImage
(in
schrodinger.ui.widget.tkinterwidget
)
prepare()
(in
WatermapTyper
)
ProteinMutationGenerator
pi
(in
schrodinger.protein.assignment
)
prepare_command()
(in
RestInput
)
ProteinPrep
(in
schrodinger.application.desmond.fep_protein_prep
)
pi
(in
schrodinger.structutils.interactions
)
prepare_for_epik()
(in
schrodinger.application.prepwizard
)
ProteinReport
(in
schrodinger.application.desmond.replica_sid_generator
)
picat_c
(in
schrodinger.application.lid.ligand_interaction_diagram
)
prepare_msj()
(in
RestInput
)
ProteinReportCheck
(in
schrodinger.test.structurecheck
)
picat_c_bw
(in
schrodinger.application.lid.ligand_interaction_diagram
)
prepare_structure()
(in
RestInput
)
ProteinStructureQualityViewer
(in
schrodinger.application.bioluminate.protein_structure_quality
)
picat_colors
(in
schrodinger.application.lid.ligand_interaction_diagram
)
prepareGeometryChange()
(in
sketcherAtom
)
protliginteractionfinder
(in
schrodinger.trajectory
)
PiCationInteraction
(in
schrodinger.infra.structure
)
prepareGeometryChange()
(in
sketcherBond
)
ProtLigInteractionFinder
(in
schrodinger.trajectory.protliginteractionfinder
)
PiCationInteraction_getCation()
(in
schrodinger.infra._structure
)
prepareGeometryChange()
(in
sketcherGraphicalObject
)
PROTOCOL_VERSION
(in
DebugEventListener
)
PiCationInteraction_getRing()
(in
schrodinger.infra._structure
)
prepareGeometryChange()
(in
sketcherResidue
)
protonated_res_list
(in
schrodinger.protein.analysis
)
PiCationInteraction_swiginit()
(in
schrodinger.infra._structure
)
prepareGeometryChange()
(in
sketcherResidueInteraction
)
protonated_residues
(in
schrodinger.protein.analysis_params
)
PiCationInteraction_swigregister()
(in
schrodinger.infra._structure
)
prepareInputLigands()
(in
SampleRingsStage
)
protonateResidue()
(in
ResidueTools
)
PiCationParams
(in
schrodinger.infra.structure
)
prepareMae()
(in
RestartWorkflow
)
ProvidesBasisMixin
(in
schrodinger.application.jaguar.gui.tabs.base_tab
)
PiCationParams_getMaximumAngle()
(in
schrodinger.infra._structure
)
prepareNextGenerationDirsCallback()
(in
EvolveCallbacks
)
ProxyBasicAuthHandler
(in
schrodinger.utils.urllib
)
PiCationParams_getMaximumDistance()
(in
schrodinger.infra._structure
)
preparePerturbDir()
(in
Workflow
)
ProxyDigestAuthHandler
(in
schrodinger.utils.urllib
)
PiCationParams_setMaximumAngle()
(in
schrodinger.infra._structure
)
prepareStructureForMinimization()
(in
ItemRow
)
ProxyHandler
(in
schrodinger.utils.urllib
)
PiCationParams_setMaximumDistance()
(in
schrodinger.infra._structure
)
prepareStructures()
(in
WaterMapInput
)
ProxyPasswordManager
(in
schrodinger.utils.urllib
)
PiCationParams_swiginit()
(in
schrodinger.infra._structure
)
prepBldStruct()
(in
PrimeConfig
)
ProxyPasswordManagerQt
(in
schrodinger.utils.urllib
)
PiCationParams_swigregister()
(in
schrodinger.infra._structure
)
prepend_mmfile_path()
(in
schrodinger.application.ligprep.ionizer
)
ProxyTunnelError
(in
schrodinger.utils.urllib
)
Pick3DObjectToggle
(in
schrodinger.ui.picking
)
prepend_path()
(in
schrodinger.utils.env
)
Pseudo
(in
schrodinger.application.desmond.cms
)
PICK_ATOMS
(in
schrodinger.application.jaguar.gui.tabs.coordinates
)
prepEnergy()
(in
PrimeConfig
)
pseudo()
(in
_FFIO
)
PICK_ATOMS_AND_BONDS
(in
schrodinger.application.jaguar.gui.tabs.coordinates
)
prepForRemoteRun()
(in
Workflow
)
pseudo_builtin_prop
(in
schrodinger.trajectory.ffstructure
)
pick_by_atom()
(in
Rama
)
PrepLigand
(in
schrodinger.application.desmond.covalent_fep_prep
)
pseudo_charge
(in
FFStructure
)
pick_by_point()
(in
Rama
)
prepLoop()
(in
PrimeConfig
)
pseudo_mass
(in
FFStructure
)
pick_category
(in
MaestroArrow
)
prepMinimize()
(in
PrimeConfig
)
pseudo_position
(in
_DesmondFrame
)
pick_category
(in
MaestroSphere
)
prepNewTgz()
(in
ExtensionWorkflow
)
pseudospectral()
(in
schrodinger.application.jaguar.output
)
PICK_COMBO_ATOMS
(in
schrodinger.application.jaguar.gui.tabs.coordinates
)
prepResidue()
(in
PrimeConfig
)
PSP
(in
schrodinger.infra.mm
)
PICK_COMBO_BONDS
(in
schrodinger.application.jaguar.gui.tabs.coordinates
)
preprocessMatchAtoms()
(in
NanoTube
)
PSP
(in
schrodinger.utils.preferences
)
pick_id
(in
MaestroArrow
)
prepSidechain()
(in
PrimeConfig
)
PSP_BB
(in
schrodinger.infra.mm
)
pick_id
(in
MaestroSphere
)
prepSidechainBB()
(in
PrimeConfig
)
PSP_FR
(in
schrodinger.infra.mm
)
PICK_MAX_ATOMS
(in
CoordinatePicker
)
prepSidechainCBeta()
(in
PrimeConfig
)
PSP_PLOP
(in
_licensing'
)
PICK_TYPES
(in
schrodinger.application.jaguar.gui.tabs.coordinates
)
prepwizard
(in
schrodinger.application
)
PSP_PLOP
(in
schrodinger.infra.licensing
)
PickAtomToggle
(in
schrodinger.application.desmond.fep_gui
)
present_tense
(in
TestUtility
)
PSP_PLOP
(in
schrodinger.infra.mm
)
PickAtomToggle
(in
schrodinger.ui.picking
)
PRESET_GCR
(in
schrodinger.application.bioluminate.protein_structure_quality
)
PSP_PLOP_MEMBRANE
(in
schrodinger.infra.mm
)
PickAtomToggle
(in
schrodinger.ui.widget.tkinterwidget
)
PRESET_RT
(in
schrodinger.application.bioluminate.protein_structure_quality
)
PSP_RB
(in
schrodinger.infra.mm
)
PickBondToggle
(in
schrodinger.application.desmond.fep_gui
)
PRESET_RYW
(in
schrodinger.application.bioluminate.protein_structure_quality
)
PSP_SKA
(in
schrodinger.infra.mm
)
PickBondToggle
(in
schrodinger.ui.picking
)
PresetAction
(in
schrodinger.application.bioluminate.pml_menus
)
PSP_SSP
(in
schrodinger.infra.mm
)
PickBondToggle
(in
schrodinger.ui.widget.tkinterwidget
)
PRESETS
(in
schrodinger.application.bioluminate.protein_structure_quality
)
PSP_STA
(in
schrodinger.infra.mm
)
pickCompleted()
(in
CoordinatePicker
)
PresetSubMenu
(in
schrodinger.application.bioluminate.pml_menus
)
PSP_STA_GPCR
(in
schrodinger.infra.mm
)
pickCompleted()
(in
OptimizationTab
)
Pressure
(in
schrodinger.application.desmond.simulation_block_test
)
pt_enclosed_by()
(in
schrodinger.application.lid.lid2d.utils
)
pickCompleted()
(in
ScanTab
)
pressure_pattern
(in
EnergyGroupAnalysis
)
pt_entry_id
(in
ReactionParticipant
)
picked()
(in
ColorChooserPanel
)
prestage()
(in
StageBase
)
PT_IMPORT_TXT
(in
ParticipantView
)
picking
(in
schrodinger.ui
)
prestage()
(in
FepMapperReport
)
ptSegDistSq()
(in
schrodinger.application.lid.lid2d.utils
)
picking_atom_start()
(in
schrodinger.maestro.maestro
)
prestage()
(in
Stop
)
ptSegDistSqPT()
(in
schrodinger.application.lid.lid2d.utils
)
picking_bond_start()
(in
schrodinger.maestro.maestro
)
prestage()
(in
SystemBuilder
)
pull
(in
schrodinger.application.vsw.stages
)
picking_loss_notify()
(in
schrodinger.maestro.maestro
)
PrettyPubPreset
(in
schrodinger.application.bioluminate.pml_menus
)
pull
(in
schrodinger.pipeline.stages
)
picking_stop()
(in
schrodinger.maestro.maestro
)
prev()
(in
_Step
)
pull_ligand()
(in
schrodinger.application.glide.http_server
)
Picklable
(in
schrodinger.application.desmond.picklejar
)
prevent_overlapping_x_labels()
(in
schrodinger.application.bioluminate.sliderchart
)
pullCompounds()
(in
PullStage
)
picklejar
(in
schrodinger.application.desmond
)
prevent_overlapping_x_labels()
(in
schrodinger.application.desmond.mplchart
)
pullEne()
(in
schrodinger.test.stu.outcomes.desmond
)
PickleJar
(in
schrodinger.application.desmond.picklejar
)
preview()
(in
EditDialog
)
pullEneDat()
(in
schrodinger.test.stu.outcomes.desmond
)
PickleState
(in
schrodinger.application.desmond.picklejar
)
previous()
(in
SwigPyIterator
)
pullExchangeInfo()
(in
schrodinger.test.stu.outcomes.desmond
)
PickMixedToggle
(in
schrodinger.ui.picking
)
previous()
(in
SwigPyIterator
)
pullIter()
(in
schrodinger.test.stu.outcomes.desmond
)
pickProjTableAtom()
(in
MoleculeTabPka
)
previous()
(in
SwigPyIterator
)
pullRate()
(in
schrodinger.test.stu.outcomes.desmond
)
pickThisAtom()
(in
MoleculeTabPka
)
previous()
(in
SwigPyIterator
)
pullSimbox()
(in
schrodinger.test.stu.outcomes.desmond
)
PickToggle
(in
schrodinger.ui.widget.tkinterwidget
)
previous()
(in
SwigPyIterator
)
PullStage
(in
schrodinger.pipeline.stages.pull
)
PickTorsionToggle
(in
schrodinger.ui.picking
)
prime
(in
schrodinger.application
)
purgeRecord()
(in
Job
)
PicturePrinter
(in
schrodinger.application.report2d
)
Prime
(in
schrodinger.application.prime.input
)
push()
(in
CommonTreeNodeStream
)
PINF
(in
schrodinger.protein.assignment
)
prime
(in
schrodinger.application.vsw.stages
)
push()
(in
Queue
)
PINFO
(in
_McproProt
)
prime
(in
schrodinger.pipeline.stages
)
push()
(in
StageBase
)
PINK
(in
schrodinger.application.bioluminate.pml_menus
)
PRIME_ANTIB_LOOP_PRED
(in
Refiner
)
push()
(in
PriorityQueue
)
PINK
(in
CoordinatePicker
)
PRIME_ENTROPY
(in
_mmutil'
)
push_back()
(in
SwigDoubleVector
)
PIPE
(in
schrodinger.utils.subproc
)
PRIME_ENTROPY
(in
schrodinger.utils.mmutil
)
push_back()
(in
SwigDoubleVector3
)
PIPE
(in
schrodinger.utils.subprocess
)
PRIME_LOOP_PRED
(in
Refiner
)
push_back()
(in
SwigIntVector
)
pipeio
(in
schrodinger.pipeline
)
PRIME_MINIMIZE
(in
Refiner
)
push_back()
(in
SwigStringVector
)
PipeIO
(in
schrodinger.pipeline.pipeio
)
PRIME_RESIDUE
(in
Refiner
)
push_back()
(in
SwigUInt64Vector
)
pipeline
(in
schrodinger
)
PRIME_SIDECHAIN
(in
Refiner
)
push_back()
(in
SwigUnsignedIntVector
)
pipeline
(in
schrodinger.pipeline
)
PRIME_SIDECHAIN_BB
(in
Refiner
)
push_back()
(in
SwigUnsignedIntVector2
)
Pipeline
(in
schrodinger.pipeline.pipeline
)
PRIME_SIDECHAIN_CBETA
(in
Refiner
)
push_back()
(in
SwigVectorIntIntPair
)
pipeutils
(in
schrodinger.application.vsw
)
prime_specs
(in
schrodinger.application.prime.input
)
push_back()
(in
SwigDoubleVector
)
pipeutils
(in
schrodinger.pipeline
)
prime_workups
(in
schrodinger.test.stu.outcomes
)
push_back()
(in
SwigDoubleVector3
)
pipi_c
(in
schrodinger.application.lid.ligand_interaction_diagram
)
PrimeConfig
(in
schrodinger.application.bioluminate.protein
)
push_back()
(in
SwigIntVector
)
pipi_c_bw
(in
schrodinger.application.lid.ligand_interaction_diagram
)
primefix
(in
schrodinger.application.prime
)
push_back()
(in
SwigStringVector
)
pipi_colors
(in
schrodinger.application.lid.ligand_interaction_diagram
)
Primer
push_back()
(in
SwigUInt64Vector
)
PIPI_EDGE_TO_FACE_MAXIMUM_DISTANCE
(in
schrodinger.infra.structure
)
PrimeStage
(in
schrodinger.pipeline.stages.prime
)
push_back()
(in
SwigUnsignedIntVector
)
PIPI_EDGE_TO_FACE_MINIMUM_ANGLE
(in
schrodinger.infra.structure
)
PrimeStructure
(in
schrodinger.application.bioluminate.protein
)
push_back()
(in
SwigUnsignedIntVector2
)
PIPI_FACE_TO_FACE_MAXIMUM_ANGLE
(in
schrodinger.infra.structure
)
PRIMEX_LIGPREP_EPIK
(in
schrodinger.infra.mm
)
push_back()
(in
SwigVectorIntIntPair
)
PIPI_FACE_TO_FACE_MAXIMUM_DISTANCE
(in
schrodinger.infra.structure
)
PRIMEX_MAIN
(in
schrodinger.infra.mm
)
push_back()
(in
SwigAtomList
)
PiPiInteraction
(in
schrodinger.infra.structure
)
primex_steric_clash_data_set
(in
Report
)
push_back()
(in
SwigAtomPairLists
)
PiPiInteraction
(in
schrodinger.structutils.interactions.pi
)
Primitive
(in
schrodinger.graphics3d.common
)
push_back()
(in
SwigAtomQueryParamsList
)
PiPiInteraction_EDGE_TO_FACE
(in
schrodinger.infra._structure
)
print_allow_adsorption_onto()
(in
schrodinger.application.matsci.rxn_channel.rxn_channel
)
push_back()
(in
SwigPiCationLists
)
PiPiInteraction_FACE_TO_FACE
(in
schrodinger.infra._structure
)
print_attachment_points()
(in
Data
)
push_back()
(in
SwigPiPiLists
)
PiPiInteraction_getRing1()
(in
schrodinger.infra._structure
)
print_attachment_points_ct()
(in
Data
)
push_back()
(in
SwigRingList
)
PiPiInteraction_getRing2()
(in
schrodinger.infra._structure
)
print_debug()
(in
schrodinger.application.desmond.cmj
)
push_level()
(in
ErrorHandler
)
PiPiInteraction_isEdgeToFace()
(in
schrodinger.infra._structure
)
print_deprecate()
(in
schrodinger.application.watermap.watermap_inp
)
push_level()
(in
schrodinger.infra.mmerr
)
PiPiInteraction_isFaceToFace()
(in
schrodinger.infra._structure
)
print_help()
(in
Help
)
push_ligand()
(in
schrodinger.application.glide.http_server
)
PiPiInteraction_swiginit()
(in
schrodinger.infra._structure
)
print_if()
(in
schrodinger.application.desmond.util
)
put()
(in
_BaseClient
)
PiPiInteraction_swigregister()
(in
schrodinger.infra._structure
)
print_job_info()
(in
schrodinger.application.macromodel.paraUtils
)
putToM2ioFile()
(in
Structure
)
PiPiParams
(in
schrodinger.infra.structure
)
print_last_lines_of_file()
(in
schrodinger.pipeline.stages.phase
)
putToM2ioFile()
(in
TextualStructure
)
PiPiParams_getEdgeToFaceMaximumDistance()
(in
schrodinger.infra._structure
)
print_pathway()
(in
schrodinger.application.desmond.fepana
)
PV
(in
schrodinger.application.glide.glide
)
PiPiParams_getEdgeToFaceMinimumAngle()
(in
schrodinger.infra._structure
)
print_quiet()
(in
schrodinger.application.desmond.cmj
)
pv2complex()
(in
schrodinger.application.glide.poseviewconvert
)
PiPiParams_getFaceToFaceMaximumAngle()
(in
schrodinger.infra._structure
)
print_report()
(in
schrodinger.application.canvas.driverutils
)
PV_SD
(in
schrodinger.application.glide.glide
)
PiPiParams_getFaceToFaceMaximumDistance()
(in
schrodinger.infra._structure
)
print_silent()
(in
schrodinger.application.desmond.cmj
)
pxp_vdwr
(in
schrodinger.protein.analysis_params
)
PiPiParams_setEdgeToFaceMaximumDistance()
(in
schrodinger.infra._structure
)
print_summary()
(in
schrodinger.test.stu.workup
)
pyepik
(in
schrodinger.application.epik
)
PiPiParams_setEdgeToFaceMinimumAngle()
(in
schrodinger.infra._structure
)
print_tonull()
(in
schrodinger.application.desmond.cmj
)
PYHELP_ERROR_MSG
(in
schrodinger.ui.qt.appframework
)
PiPiParams_setFaceToFaceMaximumAngle()
(in
schrodinger.infra._structure
)
print_tonull()
(in
schrodinger.application.desmond.extend_fep
)
PYMOL
(in
schrodinger.infra.mm
)
PiPiParams_setFaceToFaceMaximumDistance()
(in
schrodinger.infra._structure
)
print_tree()
(in
Node
)
PYMOL
(in
schrodinger.utils.preferences
)
PiPiParams_swiginit()
(in
schrodinger.infra._structure
)
print_usage()
(in
Startup
)
pymol
(in
schrodinger.utils
)
PiPiParams_swigregister()
(in
schrodinger.infra._structure
)
print_usage()
(in
schrodinger.application.desmond.simulation_block_data
)
PYMOL_COLOR_CYCLE
(in
schrodinger.application.bioluminate.pml_menus
)
pixels_size_changed()
(in
SaveFileDialog
)
print_usage()
(in
schrodinger.application.desmond.simulation_block_test
)
PYMOL_IONS
(in
schrodinger.application.bioluminate.pml_menus
)
PK_THRESH_DEF
(in
schrodinger.application.ligprep.ionizer
)
print_usage()
(in
SingleDashOptionParser
)
PymolInstance
(in
schrodinger.utils.pymol
)
PKA
(in
schrodinger.application.jaguar.gui.task_names
)
print_val()
(in
Test
)
PymolScriptInstance
(in
schrodinger.utils.pymol
)
pka_atom
(in
ProjEntryTuplePka
)
print_verbose()
(in
schrodinger.application.desmond.cmj
)
pysupport
(in
schrodinger.infra.mopac
)
PKA_ATOM
(in
SelectedEntriesColumnsPka
)
print_version()
(in
Help
)
PYTHON_MINIMIZE
(in
Refiner
)
PKA_ATOM_PROP
(in
ProjEntryPka
)
print_version()
(in
Startup
)
PZERO
(in
schrodinger.protein.assignment
)
PKA_ATOM_PROP
(in
MoleculeTabPka
)
print_Zmat()
(in
Zmat
)
Trees
Indices
Help
2014-3 Schrodinger Python API
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