Index _ | A | B | C | D | E | F | G | H | I | J | L | M | N | O | P | Q | R | S | T | U | V | W | Z _ __init__() (openff.qcsubmit.common_structures.CommonBase method) (openff.qcsubmit.common_structures.ComponentProperties method) (openff.qcsubmit.common_structures.DatasetConfig method) (openff.qcsubmit.common_structures.IndexCleaner method) (openff.qcsubmit.common_structures.Metadata method) (openff.qcsubmit.common_structures.MoleculeAttributes method) (openff.qcsubmit.common_structures.PCMSettings method) (openff.qcsubmit.common_structures.QCSpec method) (openff.qcsubmit.common_structures.QCSpecificationHandler method) (openff.qcsubmit.common_structures.ResultsConfig method) (openff.qcsubmit.common_structures.SCFProperties method) (openff.qcsubmit.common_structures.TDSettings method) (openff.qcsubmit.constraints.AngleConstraint method) (openff.qcsubmit.constraints.AngleConstraintSet method) (openff.qcsubmit.constraints.Constraint method) (openff.qcsubmit.constraints.DihedralConstraint method) (openff.qcsubmit.constraints.DihedralConstraintSet method) (openff.qcsubmit.constraints.DistanceConstraint method) (openff.qcsubmit.constraints.DistanceConstraintSet method) (openff.qcsubmit.constraints.PositionConstraint method) (openff.qcsubmit.constraints.PositionConstraintSet method) (openff.qcsubmit.datasets.BasicDataset method) (openff.qcsubmit.datasets.DatasetEntry method) (openff.qcsubmit.datasets.FilterEntry method) (openff.qcsubmit.datasets.OptimizationDataset method) (openff.qcsubmit.datasets.OptimizationEntry method) (openff.qcsubmit.datasets.TorsiondriveDataset method) (openff.qcsubmit.datasets.TorsionDriveEntry method) (openff.qcsubmit.factories.BaseDatasetFactory method) (openff.qcsubmit.factories.BasicDatasetFactory method) (openff.qcsubmit.factories.OptimizationDatasetFactory method) (openff.qcsubmit.factories.TorsiondriveDatasetFactory method) (openff.qcsubmit.procedures.GeometricProcedure method) (openff.qcsubmit.results.BasicResult method) (openff.qcsubmit.results.BasicResultCollection method) (openff.qcsubmit.results.filters.ChargeFilter method) (openff.qcsubmit.results.filters.CMILESResultFilter method) (openff.qcsubmit.results.filters.ConformerRMSDFilter method) (openff.qcsubmit.results.filters.ConnectivityFilter method) (openff.qcsubmit.results.filters.ElementFilter method) (openff.qcsubmit.results.filters.HydrogenBondFilter method) (openff.qcsubmit.results.filters.LowestEnergyFilter method) (openff.qcsubmit.results.filters.MinimumConformersFilter method) (openff.qcsubmit.results.filters.RecordStatusFilter method) (openff.qcsubmit.results.filters.ResultFilter method) (openff.qcsubmit.results.filters.SMARTSFilter method) (openff.qcsubmit.results.filters.SMILESFilter method) (openff.qcsubmit.results.filters.UnperceivableStereoFilter method) (openff.qcsubmit.results.OptimizationResult method) (openff.qcsubmit.results.OptimizationResultCollection method) (openff.qcsubmit.results.TorsionDriveResult method) (openff.qcsubmit.results.TorsionDriveResultCollection method) (openff.qcsubmit.workflow_components.ChargeFilter method) (openff.qcsubmit.workflow_components.ComponentResult method) (openff.qcsubmit.workflow_components.CoverageFilter method) (openff.qcsubmit.workflow_components.CustomWorkflowComponent method) (openff.qcsubmit.workflow_components.DoubleTorsion method) (openff.qcsubmit.workflow_components.ElementFilter method) (openff.qcsubmit.workflow_components.EnumerateProtomers method) (openff.qcsubmit.workflow_components.EnumerateStereoisomers method) (openff.qcsubmit.workflow_components.EnumerateTautomers method) (openff.qcsubmit.workflow_components.ImproperScan method) (openff.qcsubmit.workflow_components.ImproperTorsion method) (openff.qcsubmit.workflow_components.MolecularWeightFilter method) (openff.qcsubmit.workflow_components.PfizerFragmenter method) (openff.qcsubmit.workflow_components.RMSDCutoffConformerFilter method) (openff.qcsubmit.workflow_components.RotorFilter method) (openff.qcsubmit.workflow_components.Scan1D method) (openff.qcsubmit.workflow_components.Scan2D method) (openff.qcsubmit.workflow_components.ScanEnumerator method) (openff.qcsubmit.workflow_components.ScanFilter method) (openff.qcsubmit.workflow_components.SingleTorsion method) (openff.qcsubmit.workflow_components.SmartsFilter method) (openff.qcsubmit.workflow_components.StandardConformerGenerator method) (openff.qcsubmit.workflow_components.ToolkitValidator method) (openff.qcsubmit.workflow_components.TorsionIndexer method) (openff.qcsubmit.workflow_components.WBOFragmenter method) A add_constraint() (openff.qcsubmit.datasets.OptimizationEntry method) (openff.qcsubmit.datasets.TorsionDriveEntry method) add_double_torsion() (openff.qcsubmit.workflow_components.ScanEnumerator method) (openff.qcsubmit.workflow_components.TorsionIndexer method) add_improper() (openff.qcsubmit.workflow_components.TorsionIndexer method) add_improper_torsion() (openff.qcsubmit.workflow_components.ScanEnumerator method) add_molecule() (openff.qcsubmit.datasets.BasicDataset method) (openff.qcsubmit.datasets.FilterEntry method) (openff.qcsubmit.datasets.OptimizationDataset method) (openff.qcsubmit.datasets.TorsiondriveDataset method) (openff.qcsubmit.workflow_components.ComponentResult method) add_note() (openff.qcsubmit.exceptions.AngleConnectionError method) (openff.qcsubmit.exceptions.AtomConnectionError method) (openff.qcsubmit.exceptions.BondConnectionError method) (openff.qcsubmit.exceptions.ComponentRegisterError method) (openff.qcsubmit.exceptions.ComponentRequirementError method) (openff.qcsubmit.exceptions.ConstraintError method) (openff.qcsubmit.exceptions.DatasetCombinationError method) (openff.qcsubmit.exceptions.DatasetInputError method) (openff.qcsubmit.exceptions.DatasetRegisterError method) (openff.qcsubmit.exceptions.DihedralConnectionError method) (openff.qcsubmit.exceptions.DriverError method) (openff.qcsubmit.exceptions.InvalidClientError method) (openff.qcsubmit.exceptions.InvalidDatasetError method) (openff.qcsubmit.exceptions.InvalidWorkflowComponentError method) (openff.qcsubmit.exceptions.LinearTorsionError method) (openff.qcsubmit.exceptions.MissingBasisCoverageError method) (openff.qcsubmit.exceptions.MissingWorkflowComponentError method) (openff.qcsubmit.exceptions.MolecularComplexError method) (openff.qcsubmit.exceptions.PCMSettingError method) (openff.qcsubmit.exceptions.QCSpecificationError method) (openff.qcsubmit.exceptions.QCSubmitException method) (openff.qcsubmit.exceptions.RecordTypeError method) (openff.qcsubmit.exceptions.UnsupportedFiletypeError method) add_qc_spec() (openff.qcsubmit.common_structures.CommonBase method) (openff.qcsubmit.common_structures.QCSpecificationHandler method) (openff.qcsubmit.datasets.BasicDataset method) (openff.qcsubmit.datasets.OptimizationDataset method) (openff.qcsubmit.datasets.TorsiondriveDataset method) (openff.qcsubmit.factories.BaseDatasetFactory method) (openff.qcsubmit.factories.BasicDatasetFactory method) (openff.qcsubmit.factories.OptimizationDatasetFactory method) (openff.qcsubmit.factories.TorsiondriveDatasetFactory method) add_torsion() (openff.qcsubmit.workflow_components.TorsionIndexer method) add_torsion_scan() (openff.qcsubmit.workflow_components.ScanEnumerator method) add_workflow_components() (openff.qcsubmit.factories.BaseDatasetFactory method) (openff.qcsubmit.factories.BasicDatasetFactory method) (openff.qcsubmit.factories.OptimizationDatasetFactory method) (openff.qcsubmit.factories.TorsiondriveDatasetFactory method) AngleConnectionError AngleConstraint (class in openff.qcsubmit.constraints) AngleConstraintSet (class in openff.qcsubmit.constraints) apply() (openff.qcsubmit.results.filters.ChargeFilter method) (openff.qcsubmit.results.filters.CMILESResultFilter method) (openff.qcsubmit.results.filters.ConformerRMSDFilter method) (openff.qcsubmit.results.filters.ConnectivityFilter method) (openff.qcsubmit.results.filters.ElementFilter method) (openff.qcsubmit.results.filters.HydrogenBondFilter method) (openff.qcsubmit.results.filters.LowestEnergyFilter method) (openff.qcsubmit.results.filters.MinimumConformersFilter method) (openff.qcsubmit.results.filters.RecordStatusFilter method) (openff.qcsubmit.results.filters.ResultFilter method) (openff.qcsubmit.results.filters.SMARTSFilter method) (openff.qcsubmit.results.filters.SMILESFilter method) (openff.qcsubmit.results.filters.UnperceivableStereoFilter method) (openff.qcsubmit.workflow_components.ChargeFilter method) (openff.qcsubmit.workflow_components.CoverageFilter method) (openff.qcsubmit.workflow_components.CustomWorkflowComponent method) (openff.qcsubmit.workflow_components.ElementFilter method) (openff.qcsubmit.workflow_components.EnumerateProtomers method) (openff.qcsubmit.workflow_components.EnumerateStereoisomers method) (openff.qcsubmit.workflow_components.EnumerateTautomers method) (openff.qcsubmit.workflow_components.MolecularWeightFilter method) (openff.qcsubmit.workflow_components.PfizerFragmenter method) (openff.qcsubmit.workflow_components.RMSDCutoffConformerFilter method) (openff.qcsubmit.workflow_components.RotorFilter method) (openff.qcsubmit.workflow_components.ScanEnumerator method) (openff.qcsubmit.workflow_components.ScanFilter method) (openff.qcsubmit.workflow_components.SmartsFilter method) (openff.qcsubmit.workflow_components.StandardConformerGenerator method) (openff.qcsubmit.workflow_components.WBOFragmenter method) AtomConnectionError B BaseDatasetFactory (class in openff.qcsubmit.factories) BasicDataset (class in openff.qcsubmit.datasets) BasicDatasetFactory (class in openff.qcsubmit.factories) BasicResult (class in openff.qcsubmit.results) BasicResultCollection (class in openff.qcsubmit.results) BondConnectionError C capitalize() (openff.qcsubmit.common_structures.SCFProperties method) casefold() (openff.qcsubmit.common_structures.SCFProperties method) center() (openff.qcsubmit.common_structures.SCFProperties method) central_bond (openff.qcsubmit.workflow_components.DoubleTorsion property) (openff.qcsubmit.workflow_components.SingleTorsion property) ChargeFilter (class in openff.qcsubmit.results.filters) (class in openff.qcsubmit.workflow_components) clear_qcspecs() (openff.qcsubmit.common_structures.CommonBase method) (openff.qcsubmit.common_structures.QCSpecificationHandler method) (openff.qcsubmit.datasets.BasicDataset method) (openff.qcsubmit.datasets.OptimizationDataset method) (openff.qcsubmit.datasets.TorsiondriveDataset method) (openff.qcsubmit.factories.BaseDatasetFactory method) (openff.qcsubmit.factories.BasicDatasetFactory method) (openff.qcsubmit.factories.OptimizationDatasetFactory method) (openff.qcsubmit.factories.TorsiondriveDatasetFactory method) clear_workflow() (openff.qcsubmit.factories.BaseDatasetFactory method) (openff.qcsubmit.factories.BasicDatasetFactory method) (openff.qcsubmit.factories.OptimizationDatasetFactory method) (openff.qcsubmit.factories.TorsiondriveDatasetFactory method) CMILESResultFilter (class in openff.qcsubmit.results.filters) CommonBase (class in openff.qcsubmit.common_structures) ComponentProperties (class in openff.qcsubmit.common_structures) ComponentRegisterError ComponentRequirementError ComponentResult (class in openff.qcsubmit.workflow_components) components (openff.qcsubmit.datasets.BasicDataset property) (openff.qcsubmit.datasets.OptimizationDataset property) (openff.qcsubmit.datasets.TorsiondriveDataset property) ConformerRMSDFilter (class in openff.qcsubmit.results.filters) ConnectivityFilter (class in openff.qcsubmit.results.filters) Constraint (class in openff.qcsubmit.constraints) ConstraintError count() (openff.qcsubmit.common_structures.SCFProperties method) coverage_report() (openff.qcsubmit.datasets.BasicDataset method) (openff.qcsubmit.datasets.OptimizationDataset method) (openff.qcsubmit.datasets.TorsiondriveDataset method) CoverageFilter (class in openff.qcsubmit.workflow_components) create_basic_dataset() (openff.qcsubmit.results.OptimizationResultCollection method) create_dataset() (openff.qcsubmit.factories.BaseDatasetFactory method) (openff.qcsubmit.factories.BasicDatasetFactory method) (openff.qcsubmit.factories.OptimizationDatasetFactory method) (openff.qcsubmit.factories.TorsiondriveDatasetFactory method) create_index() (openff.qcsubmit.factories.BaseDatasetFactory method) (openff.qcsubmit.factories.BasicDatasetFactory method) (openff.qcsubmit.factories.OptimizationDatasetFactory method) (openff.qcsubmit.factories.TorsiondriveDatasetFactory method) create_optimization_dataset() (openff.qcsubmit.results.TorsionDriveResultCollection method) CustomWorkflowComponent (class in openff.qcsubmit.workflow_components) D DatasetCombinationError DatasetConfig (class in openff.qcsubmit.common_structures) DatasetEntry (class in openff.qcsubmit.datasets) DatasetInputError DatasetRegisterError description() (openff.qcsubmit.workflow_components.ChargeFilter class method) (openff.qcsubmit.workflow_components.CoverageFilter class method) (openff.qcsubmit.workflow_components.CustomWorkflowComponent class method) (openff.qcsubmit.workflow_components.ElementFilter class method) (openff.qcsubmit.workflow_components.EnumerateProtomers class method) (openff.qcsubmit.workflow_components.EnumerateStereoisomers class method) (openff.qcsubmit.workflow_components.EnumerateTautomers class method) (openff.qcsubmit.workflow_components.MolecularWeightFilter class method) (openff.qcsubmit.workflow_components.PfizerFragmenter class method) (openff.qcsubmit.workflow_components.RMSDCutoffConformerFilter class method) (openff.qcsubmit.workflow_components.RotorFilter class method) (openff.qcsubmit.workflow_components.ScanEnumerator class method) (openff.qcsubmit.workflow_components.ScanFilter class method) (openff.qcsubmit.workflow_components.SmartsFilter class method) (openff.qcsubmit.workflow_components.StandardConformerGenerator class method) (openff.qcsubmit.workflow_components.WBOFragmenter class method) dict() (openff.qcsubmit.common_structures.CommonBase method) (openff.qcsubmit.common_structures.QCSpec method) (openff.qcsubmit.constraints.AngleConstraint method) (openff.qcsubmit.constraints.AngleConstraintSet method) (openff.qcsubmit.constraints.Constraint method) (openff.qcsubmit.constraints.DihedralConstraint method) (openff.qcsubmit.constraints.DihedralConstraintSet method) (openff.qcsubmit.constraints.DistanceConstraint method) (openff.qcsubmit.constraints.DistanceConstraintSet method) (openff.qcsubmit.constraints.PositionConstraint method) (openff.qcsubmit.constraints.PositionConstraintSet method) (openff.qcsubmit.datasets.BasicDataset method) (openff.qcsubmit.datasets.OptimizationDataset method) (openff.qcsubmit.datasets.TorsiondriveDataset method) (openff.qcsubmit.factories.BaseDatasetFactory method) (openff.qcsubmit.factories.BasicDatasetFactory method) (openff.qcsubmit.factories.OptimizationDatasetFactory method) (openff.qcsubmit.factories.TorsiondriveDatasetFactory method) DihedralConnectionError DihedralConstraint (class in openff.qcsubmit.constraints) DihedralConstraintSet (class in openff.qcsubmit.constraints) DistanceConstraint (class in openff.qcsubmit.constraints) DistanceConstraintSet (class in openff.qcsubmit.constraints) double_torsion_groups (openff.qcsubmit.workflow_components.TorsionIndexer property) DoubleTorsion (class in openff.qcsubmit.workflow_components) DriverError E ElementFilter (class in openff.qcsubmit.results.filters) (class in openff.qcsubmit.workflow_components) encode() (openff.qcsubmit.common_structures.SCFProperties method) endswith() (openff.qcsubmit.common_structures.SCFProperties method) EnumerateProtomers (class in openff.qcsubmit.workflow_components) EnumerateStereoisomers (class in openff.qcsubmit.workflow_components) EnumerateTautomers (class in openff.qcsubmit.workflow_components) expandtabs() (openff.qcsubmit.common_structures.SCFProperties method) export() (openff.qcsubmit.factories.BaseDatasetFactory method) (openff.qcsubmit.factories.BasicDatasetFactory method) (openff.qcsubmit.factories.OptimizationDatasetFactory method) (openff.qcsubmit.factories.TorsiondriveDatasetFactory method) export_dataset() (openff.qcsubmit.datasets.BasicDataset method) (openff.qcsubmit.datasets.OptimizationDataset method) (openff.qcsubmit.datasets.TorsiondriveDataset method) export_settings() (openff.qcsubmit.factories.BaseDatasetFactory method) (openff.qcsubmit.factories.BasicDatasetFactory method) (openff.qcsubmit.factories.OptimizationDatasetFactory method) (openff.qcsubmit.factories.TorsiondriveDatasetFactory method) export_workflow() (openff.qcsubmit.factories.BaseDatasetFactory method) (openff.qcsubmit.factories.BasicDatasetFactory method) (openff.qcsubmit.factories.OptimizationDatasetFactory method) (openff.qcsubmit.factories.TorsiondriveDatasetFactory method) F fail_reason() (openff.qcsubmit.workflow_components.ChargeFilter class method) (openff.qcsubmit.workflow_components.CoverageFilter class method) (openff.qcsubmit.workflow_components.CustomWorkflowComponent class method) (openff.qcsubmit.workflow_components.ElementFilter class method) (openff.qcsubmit.workflow_components.EnumerateProtomers class method) (openff.qcsubmit.workflow_components.EnumerateStereoisomers class method) (openff.qcsubmit.workflow_components.EnumerateTautomers class method) (openff.qcsubmit.workflow_components.MolecularWeightFilter class method) (openff.qcsubmit.workflow_components.PfizerFragmenter class method) (openff.qcsubmit.workflow_components.RMSDCutoffConformerFilter class method) (openff.qcsubmit.workflow_components.RotorFilter class method) (openff.qcsubmit.workflow_components.ScanEnumerator class method) (openff.qcsubmit.workflow_components.ScanFilter class method) (openff.qcsubmit.workflow_components.SmartsFilter class method) (openff.qcsubmit.workflow_components.StandardConformerGenerator class method) (openff.qcsubmit.workflow_components.WBOFragmenter class method) filter() (openff.qcsubmit.results.BasicResultCollection method) (openff.qcsubmit.results.OptimizationResultCollection method) (openff.qcsubmit.results.TorsionDriveResultCollection method) filter_molecule() (openff.qcsubmit.workflow_components.ComponentResult method) filter_molecules() (openff.qcsubmit.datasets.BasicDataset method) (openff.qcsubmit.datasets.OptimizationDataset method) (openff.qcsubmit.datasets.TorsiondriveDataset method) filtered (openff.qcsubmit.datasets.BasicDataset property) (openff.qcsubmit.datasets.OptimizationDataset property) (openff.qcsubmit.datasets.TorsiondriveDataset property) (openff.qcsubmit.workflow_components.ComponentResult property) FilterEntry (class in openff.qcsubmit.datasets) find() (openff.qcsubmit.common_structures.SCFProperties method) format() (openff.qcsubmit.common_structures.SCFProperties method) format_map() (openff.qcsubmit.common_structures.SCFProperties method) formatted_keywords (openff.qcsubmit.datasets.OptimizationEntry property) (openff.qcsubmit.datasets.TorsionDriveEntry property) from_datasets() (openff.qcsubmit.results.BasicResultCollection class method) (openff.qcsubmit.results.OptimizationResultCollection class method) (openff.qcsubmit.results.TorsionDriveResultCollection class method) from_file() (openff.qcsubmit.factories.BaseDatasetFactory class method) (openff.qcsubmit.factories.BasicDatasetFactory class method) (openff.qcsubmit.factories.OptimizationDatasetFactory class method) (openff.qcsubmit.factories.TorsiondriveDatasetFactory class method) from_openff_molecule() (openff.qcsubmit.common_structures.MoleculeAttributes class method) from_opt_spec() (openff.qcsubmit.procedures.GeometricProcedure class method) from_server() (openff.qcsubmit.results.BasicResultCollection class method) (openff.qcsubmit.results.OptimizationResultCollection class method) (openff.qcsubmit.results.TorsionDriveResultCollection class method) G GeometricProcedure (class in openff.qcsubmit.procedures) get_atom_map (openff.qcsubmit.workflow_components.DoubleTorsion property) (openff.qcsubmit.workflow_components.ImproperTorsion property) (openff.qcsubmit.workflow_components.SingleTorsion property) get_dihedrals (openff.qcsubmit.workflow_components.DoubleTorsion property) (openff.qcsubmit.workflow_components.ImproperTorsion property) (openff.qcsubmit.workflow_components.SingleTorsion property) (openff.qcsubmit.workflow_components.TorsionIndexer property) get_molecule_entry() (openff.qcsubmit.datasets.BasicDataset method) (openff.qcsubmit.datasets.OptimizationDataset method) (openff.qcsubmit.datasets.TorsiondriveDataset method) get_off_molecule() (openff.qcsubmit.datasets.DatasetEntry method) (openff.qcsubmit.datasets.OptimizationEntry method) (openff.qcsubmit.datasets.TorsionDriveEntry method) get_optimzation_keywords() (openff.qcsubmit.procedures.GeometricProcedure method) get_scan_range (openff.qcsubmit.workflow_components.DoubleTorsion property) (openff.qcsubmit.workflow_components.ImproperTorsion property) (openff.qcsubmit.workflow_components.SingleTorsion property) get_workflow_components() (openff.qcsubmit.factories.BaseDatasetFactory method) (openff.qcsubmit.factories.BasicDatasetFactory method) (openff.qcsubmit.factories.OptimizationDatasetFactory method) (openff.qcsubmit.factories.TorsiondriveDatasetFactory method) H HydrogenBondFilter (class in openff.qcsubmit.results.filters) I import_settings() (openff.qcsubmit.factories.BaseDatasetFactory method) (openff.qcsubmit.factories.BasicDatasetFactory method) (openff.qcsubmit.factories.OptimizationDatasetFactory method) (openff.qcsubmit.factories.TorsiondriveDatasetFactory method) import_workflow() (openff.qcsubmit.factories.BaseDatasetFactory method) (openff.qcsubmit.factories.BasicDatasetFactory method) (openff.qcsubmit.factories.OptimizationDatasetFactory method) (openff.qcsubmit.factories.TorsiondriveDatasetFactory method) improper_groups (openff.qcsubmit.workflow_components.TorsionIndexer property) ImproperScan (class in openff.qcsubmit.workflow_components) ImproperTorsion (class in openff.qcsubmit.workflow_components) index() (openff.qcsubmit.common_structures.SCFProperties method) IndexCleaner (class in openff.qcsubmit.common_structures) info() (openff.qcsubmit.workflow_components.ChargeFilter class method) (openff.qcsubmit.workflow_components.CoverageFilter class method) (openff.qcsubmit.workflow_components.CustomWorkflowComponent class method) (openff.qcsubmit.workflow_components.ElementFilter class method) (openff.qcsubmit.workflow_components.EnumerateProtomers class method) (openff.qcsubmit.workflow_components.EnumerateStereoisomers class method) (openff.qcsubmit.workflow_components.EnumerateTautomers class method) (openff.qcsubmit.workflow_components.MolecularWeightFilter class method) (openff.qcsubmit.workflow_components.PfizerFragmenter class method) (openff.qcsubmit.workflow_components.RMSDCutoffConformerFilter class method) (openff.qcsubmit.workflow_components.RotorFilter class method) (openff.qcsubmit.workflow_components.ScanEnumerator class method) (openff.qcsubmit.workflow_components.ScanFilter class method) (openff.qcsubmit.workflow_components.SmartsFilter class method) (openff.qcsubmit.workflow_components.StandardConformerGenerator class method) (openff.qcsubmit.workflow_components.WBOFragmenter class method) InvalidClientError InvalidDatasetError InvalidWorkflowComponentError is_available() (openff.qcsubmit.workflow_components.ChargeFilter class method) (openff.qcsubmit.workflow_components.CoverageFilter class method) (openff.qcsubmit.workflow_components.CustomWorkflowComponent class method) (openff.qcsubmit.workflow_components.ElementFilter class method) (openff.qcsubmit.workflow_components.EnumerateProtomers class method) (openff.qcsubmit.workflow_components.EnumerateStereoisomers class method) (openff.qcsubmit.workflow_components.EnumerateTautomers class method) (openff.qcsubmit.workflow_components.MolecularWeightFilter class method) (openff.qcsubmit.workflow_components.PfizerFragmenter class method) (openff.qcsubmit.workflow_components.RMSDCutoffConformerFilter class method) (openff.qcsubmit.workflow_components.RotorFilter class method) (openff.qcsubmit.workflow_components.ScanEnumerator class method) (openff.qcsubmit.workflow_components.ScanFilter class method) (openff.qcsubmit.workflow_components.SmartsFilter class method) (openff.qcsubmit.workflow_components.StandardConformerGenerator class method) (openff.qcsubmit.workflow_components.ToolkitValidator class method) (openff.qcsubmit.workflow_components.WBOFragmenter class method) isalnum() (openff.qcsubmit.common_structures.SCFProperties method) isalpha() (openff.qcsubmit.common_structures.SCFProperties method) isascii() (openff.qcsubmit.common_structures.SCFProperties method) isdecimal() (openff.qcsubmit.common_structures.SCFProperties method) isdigit() (openff.qcsubmit.common_structures.SCFProperties method) isidentifier() (openff.qcsubmit.common_structures.SCFProperties method) islower() (openff.qcsubmit.common_structures.SCFProperties method) isnumeric() (openff.qcsubmit.common_structures.SCFProperties method) isprintable() (openff.qcsubmit.common_structures.SCFProperties method) isspace() (openff.qcsubmit.common_structures.SCFProperties method) istitle() (openff.qcsubmit.common_structures.SCFProperties method) isupper() (openff.qcsubmit.common_structures.SCFProperties method) J join() (openff.qcsubmit.common_structures.SCFProperties method) L LinearTorsionError ljust() (openff.qcsubmit.common_structures.SCFProperties method) lower() (openff.qcsubmit.common_structures.SCFProperties method) LowestEnergyFilter (class in openff.qcsubmit.results.filters) lstrip() (openff.qcsubmit.common_structures.SCFProperties method) M maketrans() (openff.qcsubmit.common_structures.SCFProperties static method) Metadata (class in openff.qcsubmit.common_structures) MinimumConformersFilter (class in openff.qcsubmit.results.filters) MissingBasisCoverageError MissingWorkflowComponentError MolecularComplexError MolecularWeightFilter (class in openff.qcsubmit.workflow_components) molecule (openff.qcsubmit.results.BasicResult property) (openff.qcsubmit.results.OptimizationResult property) (openff.qcsubmit.results.TorsionDriveResult property) MoleculeAttributes (class in openff.qcsubmit.common_structures) molecules (openff.qcsubmit.datasets.BasicDataset property) (openff.qcsubmit.datasets.OptimizationDataset property) (openff.qcsubmit.datasets.TorsiondriveDataset property) (openff.qcsubmit.workflow_components.ComponentResult property) molecules_to_file() (openff.qcsubmit.datasets.BasicDataset method) (openff.qcsubmit.datasets.OptimizationDataset method) (openff.qcsubmit.datasets.TorsiondriveDataset method) N n_components (openff.qcsubmit.datasets.BasicDataset property) (openff.qcsubmit.datasets.OptimizationDataset property) (openff.qcsubmit.datasets.TorsiondriveDataset property) n_conformers (openff.qcsubmit.workflow_components.ComponentResult property) n_double_torsions (openff.qcsubmit.workflow_components.TorsionIndexer property) n_filtered (openff.qcsubmit.datasets.BasicDataset property) (openff.qcsubmit.datasets.OptimizationDataset property) (openff.qcsubmit.datasets.TorsiondriveDataset property) (openff.qcsubmit.workflow_components.ComponentResult property) n_impropers (openff.qcsubmit.workflow_components.TorsionIndexer property) n_molecules (openff.qcsubmit.datasets.BasicDataset property) (openff.qcsubmit.datasets.OptimizationDataset property) (openff.qcsubmit.datasets.TorsiondriveDataset property) (openff.qcsubmit.results.BasicResultCollection property) (openff.qcsubmit.results.OptimizationResultCollection property) (openff.qcsubmit.results.TorsionDriveResultCollection property) (openff.qcsubmit.workflow_components.ComponentResult property) n_qc_specs (openff.qcsubmit.common_structures.CommonBase property) (openff.qcsubmit.common_structures.QCSpecificationHandler property) (openff.qcsubmit.datasets.BasicDataset property) (openff.qcsubmit.datasets.OptimizationDataset property) (openff.qcsubmit.datasets.TorsiondriveDataset property) (openff.qcsubmit.factories.BaseDatasetFactory property) (openff.qcsubmit.factories.BasicDatasetFactory property) (openff.qcsubmit.factories.OptimizationDatasetFactory property) (openff.qcsubmit.factories.TorsiondriveDatasetFactory property) n_records (openff.qcsubmit.datasets.BasicDataset property) (openff.qcsubmit.datasets.OptimizationDataset property) (openff.qcsubmit.datasets.TorsiondriveDataset property) n_results (openff.qcsubmit.results.BasicResultCollection property) (openff.qcsubmit.results.OptimizationResultCollection property) (openff.qcsubmit.results.TorsionDriveResultCollection property) n_torsions (openff.qcsubmit.workflow_components.TorsionIndexer property) O OptimizationDataset (class in openff.qcsubmit.datasets) OptimizationDatasetFactory (class in openff.qcsubmit.factories) OptimizationEntry (class in openff.qcsubmit.datasets) OptimizationResult (class in openff.qcsubmit.results) OptimizationResultCollection (class in openff.qcsubmit.results) P parse_file() (openff.qcsubmit.datasets.BasicDataset class method) (openff.qcsubmit.datasets.OptimizationDataset class method) (openff.qcsubmit.datasets.TorsiondriveDataset class method) partition() (openff.qcsubmit.common_structures.SCFProperties method) PCMSettingError PCMSettings (class in openff.qcsubmit.common_structures) PfizerFragmenter (class in openff.qcsubmit.workflow_components) PositionConstraint (class in openff.qcsubmit.constraints) PositionConstraintSet (class in openff.qcsubmit.constraints) properties() (openff.qcsubmit.workflow_components.ChargeFilter class method) (openff.qcsubmit.workflow_components.CoverageFilter class method) (openff.qcsubmit.workflow_components.CustomWorkflowComponent class method) (openff.qcsubmit.workflow_components.ElementFilter class method) (openff.qcsubmit.workflow_components.EnumerateProtomers class method) (openff.qcsubmit.workflow_components.EnumerateStereoisomers class method) (openff.qcsubmit.workflow_components.EnumerateTautomers class method) (openff.qcsubmit.workflow_components.MolecularWeightFilter class method) (openff.qcsubmit.workflow_components.PfizerFragmenter class method) (openff.qcsubmit.workflow_components.RMSDCutoffConformerFilter class method) (openff.qcsubmit.workflow_components.RotorFilter class method) (openff.qcsubmit.workflow_components.ScanEnumerator class method) (openff.qcsubmit.workflow_components.ScanFilter class method) (openff.qcsubmit.workflow_components.SmartsFilter class method) (openff.qcsubmit.workflow_components.StandardConformerGenerator class method) (openff.qcsubmit.workflow_components.WBOFragmenter class method) provenance() (openff.qcsubmit.factories.BaseDatasetFactory method) (openff.qcsubmit.factories.BasicDatasetFactory method) (openff.qcsubmit.factories.OptimizationDatasetFactory method) (openff.qcsubmit.factories.TorsiondriveDatasetFactory method) (openff.qcsubmit.workflow_components.ChargeFilter method) (openff.qcsubmit.workflow_components.CoverageFilter method) (openff.qcsubmit.workflow_components.CustomWorkflowComponent method) (openff.qcsubmit.workflow_components.ElementFilter method) (openff.qcsubmit.workflow_components.EnumerateProtomers method) (openff.qcsubmit.workflow_components.EnumerateStereoisomers method) (openff.qcsubmit.workflow_components.EnumerateTautomers method) (openff.qcsubmit.workflow_components.MolecularWeightFilter method) (openff.qcsubmit.workflow_components.PfizerFragmenter method) (openff.qcsubmit.workflow_components.RMSDCutoffConformerFilter method) (openff.qcsubmit.workflow_components.RotorFilter method) (openff.qcsubmit.workflow_components.ScanEnumerator method) (openff.qcsubmit.workflow_components.ScanFilter method) (openff.qcsubmit.workflow_components.SmartsFilter method) (openff.qcsubmit.workflow_components.StandardConformerGenerator method) (openff.qcsubmit.workflow_components.ToolkitValidator method) (openff.qcsubmit.workflow_components.WBOFragmenter method) Q qc_keywords (openff.qcsubmit.common_structures.QCSpec property) qc_model (openff.qcsubmit.common_structures.QCSpec property) QCSpec (class in openff.qcsubmit.common_structures) QCSpecificationError QCSpecificationHandler (class in openff.qcsubmit.common_structures) QCSubmitException R RecordStatusFilter (class in openff.qcsubmit.results.filters) RecordTypeError remove_qcspec() (openff.qcsubmit.common_structures.CommonBase method) (openff.qcsubmit.common_structures.QCSpecificationHandler method) (openff.qcsubmit.datasets.BasicDataset method) (openff.qcsubmit.datasets.OptimizationDataset method) (openff.qcsubmit.datasets.TorsiondriveDataset method) (openff.qcsubmit.factories.BaseDatasetFactory method) (openff.qcsubmit.factories.BasicDatasetFactory method) (openff.qcsubmit.factories.OptimizationDatasetFactory method) (openff.qcsubmit.factories.TorsiondriveDatasetFactory method) remove_workflow_component() (openff.qcsubmit.factories.BaseDatasetFactory method) (openff.qcsubmit.factories.BasicDatasetFactory method) (openff.qcsubmit.factories.OptimizationDatasetFactory method) (openff.qcsubmit.factories.TorsiondriveDatasetFactory method) removeprefix() (openff.qcsubmit.common_structures.SCFProperties method) removesuffix() (openff.qcsubmit.common_structures.SCFProperties method) replace() (openff.qcsubmit.common_structures.SCFProperties method) ResultFilter (class in openff.qcsubmit.results.filters) ResultsConfig (class in openff.qcsubmit.common_structures) rfind() (openff.qcsubmit.common_structures.SCFProperties method) rindex() (openff.qcsubmit.common_structures.SCFProperties method) rjust() (openff.qcsubmit.common_structures.SCFProperties method) RMSDCutoffConformerFilter (class in openff.qcsubmit.workflow_components) RotorFilter (class in openff.qcsubmit.workflow_components) rpartition() (openff.qcsubmit.common_structures.SCFProperties method) rsplit() (openff.qcsubmit.common_structures.SCFProperties method) rstrip() (openff.qcsubmit.common_structures.SCFProperties method) S Scan1D (class in openff.qcsubmit.workflow_components) Scan2D (class in openff.qcsubmit.workflow_components) ScanEnumerator (class in openff.qcsubmit.workflow_components) ScanFilter (class in openff.qcsubmit.workflow_components) SCFProperties (class in openff.qcsubmit.common_structures) SingleTorsion (class in openff.qcsubmit.workflow_components) SMARTSFilter (class in openff.qcsubmit.results.filters) SmartsFilter (class in openff.qcsubmit.workflow_components) SMILESFilter (class in openff.qcsubmit.results.filters) smirnoff_coverage() (openff.qcsubmit.results.BasicResultCollection method) (openff.qcsubmit.results.OptimizationResultCollection method) (openff.qcsubmit.results.TorsionDriveResultCollection method) split() (openff.qcsubmit.common_structures.SCFProperties method) splitlines() (openff.qcsubmit.common_structures.SCFProperties method) StandardConformerGenerator (class in openff.qcsubmit.workflow_components) startswith() (openff.qcsubmit.common_structures.SCFProperties method) strip() (openff.qcsubmit.common_structures.SCFProperties method) submit() (openff.qcsubmit.datasets.BasicDataset method) (openff.qcsubmit.datasets.OptimizationDataset method) (openff.qcsubmit.datasets.TorsiondriveDataset method) swapcase() (openff.qcsubmit.common_structures.SCFProperties method) T TDSettings (class in openff.qcsubmit.common_structures) title() (openff.qcsubmit.common_structures.SCFProperties method) to_basic_result_collection() (openff.qcsubmit.results.OptimizationResultCollection method) to_openff_molecule() (openff.qcsubmit.common_structures.MoleculeAttributes method) to_records() (openff.qcsubmit.results.BasicResultCollection method) (openff.qcsubmit.results.OptimizationResultCollection method) (openff.qcsubmit.results.TorsionDriveResultCollection method) to_string() (openff.qcsubmit.common_structures.PCMSettings method) to_tasks() (openff.qcsubmit.datasets.BasicDataset method) (openff.qcsubmit.datasets.OptimizationDataset method) (openff.qcsubmit.datasets.TorsiondriveDataset method) ToolkitValidator (class in openff.qcsubmit.workflow_components) torsion_groups (openff.qcsubmit.workflow_components.TorsionIndexer property) TorsiondriveDataset (class in openff.qcsubmit.datasets) TorsiondriveDatasetFactory (class in openff.qcsubmit.factories) TorsionDriveEntry (class in openff.qcsubmit.datasets) TorsionDriveResult (class in openff.qcsubmit.results) TorsionDriveResultCollection (class in openff.qcsubmit.results) TorsionIndexer (class in openff.qcsubmit.workflow_components) translate() (openff.qcsubmit.common_structures.SCFProperties method) U UnperceivableStereoFilter (class in openff.qcsubmit.results.filters) UnsupportedFiletypeError update() (openff.qcsubmit.workflow_components.TorsionIndexer method) upper() (openff.qcsubmit.common_structures.SCFProperties method) V validate_metadata() (openff.qcsubmit.common_structures.Metadata method) visualize() (openff.qcsubmit.datasets.BasicDataset method) (openff.qcsubmit.datasets.OptimizationDataset method) (openff.qcsubmit.datasets.TorsiondriveDataset method) W WBOFragmenter (class in openff.qcsubmit.workflow_components) with_traceback() (openff.qcsubmit.exceptions.AngleConnectionError method) (openff.qcsubmit.exceptions.AtomConnectionError method) (openff.qcsubmit.exceptions.BondConnectionError method) (openff.qcsubmit.exceptions.ComponentRegisterError method) (openff.qcsubmit.exceptions.ComponentRequirementError method) (openff.qcsubmit.exceptions.ConstraintError method) (openff.qcsubmit.exceptions.DatasetCombinationError method) (openff.qcsubmit.exceptions.DatasetInputError method) (openff.qcsubmit.exceptions.DatasetRegisterError method) (openff.qcsubmit.exceptions.DihedralConnectionError method) (openff.qcsubmit.exceptions.DriverError method) (openff.qcsubmit.exceptions.InvalidClientError method) (openff.qcsubmit.exceptions.InvalidDatasetError method) (openff.qcsubmit.exceptions.InvalidWorkflowComponentError method) (openff.qcsubmit.exceptions.LinearTorsionError method) (openff.qcsubmit.exceptions.MissingBasisCoverageError method) (openff.qcsubmit.exceptions.MissingWorkflowComponentError method) (openff.qcsubmit.exceptions.MolecularComplexError method) (openff.qcsubmit.exceptions.PCMSettingError method) (openff.qcsubmit.exceptions.QCSpecificationError method) (openff.qcsubmit.exceptions.QCSubmitException method) (openff.qcsubmit.exceptions.RecordTypeError method) (openff.qcsubmit.exceptions.UnsupportedFiletypeError method) Z zfill() (openff.qcsubmit.common_structures.SCFProperties method)