pySBOL
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Introduction
Installation
Testing pySBOL
Getting Started with SBOL
Biological Parts Repositories
Computer-aided Design for Synthetic Biology
Design-Build-Test-Learn Workflows
API
pySBOL
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Index
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Index
A
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B
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C
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D
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E
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F
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G
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H
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I
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L
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M
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O
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P
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Q
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R
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S
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T
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U
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V
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W
A
Activity (class in sbol.libsbol)
ActivityProperty (class in sbol.libsbol)
add() (ActivityProperty method)
(AgentProperty method)
(AliasedOwnedFunctionalComponent method)
(AnalysisProperty method)
(AssociationProperty method)
(AttachmentProperty method)
(BuildProperty method)
(CollectionProperty method)
(CombinatorialDerivationProperty method)
(ComponentDefinitionProperty method)
(ComponentProperty method)
(DesignProperty method)
(ExperimentProperty method)
(ExperimentalDataProperty method)
(FunctionalComponentProperty method)
(ImplementationProperty method)
(InteractionProperty method)
(LocationProperty method)
(MapsToProperty method)
(MeasurementProperty method)
(ModelProperty method)
(ModuleDefinitionProperty method)
(ModuleProperty method)
(OwnedActivity method)
(OwnedAgent method)
(OwnedAnalysis method)
(OwnedAssociation method)
(OwnedAttachment method)
(OwnedBuild method)
(OwnedCollection method)
(OwnedCombinatorialDerivation method)
(OwnedComponent method)
(OwnedComponentDefinition method)
(OwnedDesign method)
(OwnedExperiment method)
(OwnedExperimentalData method)
(OwnedFunctionalComponent method)
(OwnedImplementation method)
(OwnedInteraction method)
(OwnedLocation method)
(OwnedMapsTo method)
(OwnedMeasurement method)
(OwnedModel method)
(OwnedModule method)
(OwnedModuleDefinition method)
(OwnedParticipation method)
(OwnedPlan method)
(OwnedSampleRoster method)
(OwnedSequence method)
(OwnedSequenceAnnotation method)
(OwnedSequenceConstraint method)
(OwnedTest method)
(OwnedUsage method)
(OwnedVariableComponent method)
(ParticipationProperty method)
(PlanProperty method)
(ReferencedObject method)
(SampleRosterProperty method)
(SequenceAnnotationProperty method)
(SequenceConstraintProperty method)
(SequenceProperty method)
(TestProperty method)
(UsageProperty method)
(VariableComponentProperty method)
addComponentDefinition() (Document method)
addDownstreamFlank() (ComponentDefinition method)
addModel() (Document method)
addModuleDefinition() (Document method)
addNamespace() (Document method)
addPropertyValue() (SBOLObject method)
addReference() (ReferencedObject method)
addSequence() (Document method)
addSynBioHubAnnotations() (PartShop method)
addUpstreamFlank() (ComponentDefinition method)
addValidationRule() (ActivityProperty method)
(AgentProperty method)
(AnalysisProperty method)
(AssociationProperty method)
(AttachmentProperty method)
(BuildProperty method)
(CollectionProperty method)
(CombinatorialDerivationProperty method)
(ComponentDefinitionProperty method)
(ComponentProperty method)
(DesignProperty method)
(ExperimentProperty method)
(ExperimentalDataProperty method)
(FunctionalComponentProperty method)
(ImplementationProperty method)
(InteractionProperty method)
(LocationProperty method)
(MapsToProperty method)
(MeasurementProperty method)
(ModelProperty method)
(ModuleDefinitionProperty method)
(ModuleProperty method)
(ParticipationProperty method)
(PlanProperty method)
(SampleRosterProperty method)
(SequenceAnnotationProperty method)
(SequenceConstraintProperty method)
(SequenceProperty method)
(TestProperty method)
(UsageProperty method)
(VariableComponentProperty method)
adjoins() (Range method)
Agent (class in sbol.libsbol)
AgentProperty (class in sbol.libsbol)
AliasedOwnedFunctionalComponent (class in sbol.libsbol)
Analysis (class in sbol.libsbol)
AnalysisProperty (class in sbol.libsbol)
append() (Document method)
apply() (SBOLObject method)
assemble() (ComponentDefinition method)
(ModuleDefinition method)
(Sequence method)
assemblePrimaryStructure() (ComponentDefinition method)
Association (class in sbol.libsbol)
AssociationProperty (class in sbol.libsbol)
attachFile() (PartShop method)
Attachment (class in sbol.libsbol)
AttachmentProperty (class in sbol.libsbol)
B
Build (class in sbol.libsbol)
build() (ComponentDefinition method)
BuildProperty (class in sbol.libsbol)
C
cast() (SBOLObject method)
clear() (ActivityProperty method)
(AgentProperty method)
(AnalysisProperty method)
(AssociationProperty method)
(AttachmentProperty method)
(BuildProperty method)
(CollectionProperty method)
(CombinatorialDerivationProperty method)
(ComponentDefinitionProperty method)
(ComponentProperty method)
(DesignProperty method)
(ExperimentProperty method)
(ExperimentalDataProperty method)
(FunctionalComponentProperty method)
(ImplementationProperty method)
(InteractionProperty method)
(LocationProperty method)
(MapsToProperty method)
(MeasurementProperty method)
(ModelProperty method)
(ModuleDefinitionProperty method)
(ModuleProperty method)
(OwnedActivity method)
(OwnedAgent method)
(OwnedAnalysis method)
(OwnedAssociation method)
(OwnedAttachment method)
(OwnedBuild method)
(OwnedCollection method)
(OwnedCombinatorialDerivation method)
(OwnedComponent method)
(OwnedComponentDefinition method)
(OwnedDesign method)
(OwnedExperiment method)
(OwnedExperimentalData method)
(OwnedFunctionalComponent method)
(OwnedImplementation method)
(OwnedInteraction method)
(OwnedLocation method)
(OwnedMapsTo method)
(OwnedMeasurement method)
(OwnedModel method)
(OwnedModule method)
(OwnedModuleDefinition method)
(OwnedParticipation method)
(OwnedPlan method)
(OwnedSampleRoster method)
(OwnedSequence method)
(OwnedSequenceAnnotation method)
(OwnedSequenceConstraint method)
(OwnedTest method)
(OwnedUsage method)
(OwnedVariableComponent method)
(ParticipationProperty method)
(PlanProperty method)
(SampleRosterProperty method)
(SequenceAnnotationProperty method)
(SequenceConstraintProperty method)
(SequenceProperty method)
(TestProperty method)
(UsageProperty method)
(VariableComponentProperty method)
Collection (class in sbol.libsbol)
CollectionProperty (class in sbol.libsbol)
CombinatorialDerivation (class in sbol.libsbol)
CombinatorialDerivationProperty (class in sbol.libsbol)
compare() (SBOLObject method)
compile() (ComponentDefinition method)
(Sequence method)
Component (class in sbol.libsbol)
ComponentDefinition (class in sbol.libsbol)
ComponentDefinitionProperty (class in sbol.libsbol)
ComponentInstance (class in sbol.libsbol)
ComponentProperty (class in sbol.libsbol)
Config (class in sbol.libsbol)
Config_getOption() (in module sbol.libsbol)
Config_setOption() (in module sbol.libsbol)
connect() (FunctionalComponent method)
(ModuleDefinition method)
contains() (Range method)
(SequenceAnnotation method)
copy() (Activity method)
(ActivityProperty method)
(Agent method)
(AgentProperty method)
(Analysis method)
(AnalysisProperty method)
(AssociationProperty method)
(Attachment method)
(AttachmentProperty method)
(Build method)
(BuildProperty method)
(Collection method)
(CollectionProperty method)
(CombinatorialDerivation method)
(CombinatorialDerivationProperty method)
(ComponentDefinition method)
(ComponentDefinitionProperty method)
(ComponentProperty method)
(Design method)
(DesignProperty method)
(Document method)
(Experiment method)
(ExperimentProperty method)
(ExperimentalData method)
(ExperimentalDataProperty method)
(FunctionalComponentProperty method)
(Implementation method)
(ImplementationProperty method)
(InteractionProperty method)
(LocationProperty method)
(MapsToProperty method)
(MeasurementProperty method)
(Model method)
(ModelProperty method)
(ModuleDefinition method)
(ModuleDefinitionProperty method)
(ModuleProperty method)
(ParticipationProperty method)
(Plan method)
(PlanProperty method)
(SampleRoster method)
(SampleRosterProperty method)
(Sequence method)
(SequenceAnnotationProperty method)
(SequenceConstraintProperty method)
(SequenceProperty method)
(Test method)
(TestProperty method)
(TopLevel method)
(UsageProperty method)
(VariableComponentProperty method)
countCollection() (PartShop method)
countComponentDefinition() (PartShop method)
countTriples() (Document method)
create() (AliasedOwnedFunctionalComponent method)
(OwnedActivity method)
(OwnedAgent method)
(OwnedAnalysis method)
(OwnedAssociation method)
(OwnedAttachment method)
(OwnedBuild method)
(OwnedCollection method)
(OwnedCombinatorialDerivation method)
(OwnedComponent method)
(OwnedComponentDefinition method)
(OwnedDesign method)
(OwnedExperiment method)
(OwnedExperimentalData method)
(OwnedFunctionalComponent method)
(OwnedImplementation method)
(OwnedInteraction method)
(OwnedLocation method)
(OwnedMapsTo method)
(OwnedMeasurement method)
(OwnedModel method)
(OwnedModule method)
(OwnedModuleDefinition method)
(OwnedParticipation method)
(OwnedPlan method)
(OwnedSampleRoster method)
(OwnedSequence method)
(OwnedSequenceAnnotation method)
(OwnedSequenceConstraint method)
(OwnedTest method)
(OwnedUsage method)
(OwnedVariableComponent method)
(ReferencedObject method)
createCut() (OwnedActivity method)
(OwnedAgent method)
(OwnedAnalysis method)
(OwnedAssociation method)
(OwnedAttachment method)
(OwnedBuild method)
(OwnedCollection method)
(OwnedCombinatorialDerivation method)
(OwnedComponent method)
(OwnedComponentDefinition method)
(OwnedDesign method)
(OwnedExperiment method)
(OwnedExperimentalData method)
(OwnedFunctionalComponent method)
(OwnedImplementation method)
(OwnedInteraction method)
(OwnedLocation method)
(OwnedMapsTo method)
(OwnedMeasurement method)
(OwnedModel method)
(OwnedModule method)
(OwnedModuleDefinition method)
(OwnedParticipation method)
(OwnedPlan method)
(OwnedSampleRoster method)
(OwnedSequence method)
(OwnedSequenceAnnotation method)
(OwnedSequenceConstraint method)
(OwnedTest method)
(OwnedUsage method)
(OwnedVariableComponent method)
createGenericLocation() (OwnedActivity method)
(OwnedAgent method)
(OwnedAnalysis method)
(OwnedAssociation method)
(OwnedAttachment method)
(OwnedBuild method)
(OwnedCollection method)
(OwnedCombinatorialDerivation method)
(OwnedComponent method)
(OwnedComponentDefinition method)
(OwnedDesign method)
(OwnedExperiment method)
(OwnedExperimentalData method)
(OwnedFunctionalComponent method)
(OwnedImplementation method)
(OwnedInteraction method)
(OwnedLocation method)
(OwnedMapsTo method)
(OwnedMeasurement method)
(OwnedModel method)
(OwnedModule method)
(OwnedModuleDefinition method)
(OwnedParticipation method)
(OwnedPlan method)
(OwnedSampleRoster method)
(OwnedSequence method)
(OwnedSequenceAnnotation method)
(OwnedSequenceConstraint method)
(OwnedTest method)
(OwnedUsage method)
(OwnedVariableComponent method)
createRange() (OwnedActivity method)
(OwnedAgent method)
(OwnedAnalysis method)
(OwnedAssociation method)
(OwnedAttachment method)
(OwnedBuild method)
(OwnedCollection method)
(OwnedCombinatorialDerivation method)
(OwnedComponent method)
(OwnedComponentDefinition method)
(OwnedDesign method)
(OwnedExperiment method)
(OwnedExperimentalData method)
(OwnedFunctionalComponent method)
(OwnedImplementation method)
(OwnedInteraction method)
(OwnedLocation method)
(OwnedMapsTo method)
(OwnedMeasurement method)
(OwnedModel method)
(OwnedModule method)
(OwnedModuleDefinition method)
(OwnedParticipation method)
(OwnedPlan method)
(OwnedSampleRoster method)
(OwnedSequence method)
(OwnedSequenceAnnotation method)
(OwnedSequenceConstraint method)
(OwnedTest method)
(OwnedUsage method)
(OwnedVariableComponent method)
Cut (class in sbol.libsbol)
D
DateTimeProperty (class in sbol.libsbol)
decrementMajor() (VersionProperty method)
decrementMinor() (VersionProperty method)
decrementPatch() (VersionProperty method)
define() (AliasedOwnedFunctionalComponent method)
(OwnedActivity method)
(OwnedAgent method)
(OwnedAnalysis method)
(OwnedAssociation method)
(OwnedAttachment method)
(OwnedBuild method)
(OwnedCollection method)
(OwnedCombinatorialDerivation method)
(OwnedComponent method)
(OwnedComponentDefinition method)
(OwnedDesign method)
(OwnedExperiment method)
(OwnedExperimentalData method)
(OwnedFunctionalComponent method)
(OwnedImplementation method)
(OwnedInteraction method)
(OwnedLocation method)
(OwnedMapsTo method)
(OwnedMeasurement method)
(OwnedModel method)
(OwnedModule method)
(OwnedModuleDefinition method)
(OwnedParticipation method)
(OwnedPlan method)
(OwnedSampleRoster method)
(OwnedSequence method)
(OwnedSequenceAnnotation method)
(OwnedSequenceConstraint method)
(OwnedTest method)
(OwnedUsage method)
(OwnedVariableComponent method)
(Participation method)
Design (class in sbol.libsbol)
DesignProperty (class in sbol.libsbol)
disassemble() (ComponentDefinition method)
Document (class in sbol.libsbol)
downloadAttachment() (PartShop method)
E
end() (Document method)
(SearchResponse method)
EnzymeCatalysisInteraction (class in sbol.libsbol)
Experiment (class in sbol.libsbol)
ExperimentalData (class in sbol.libsbol)
ExperimentalDataProperty (class in sbol.libsbol)
ExperimentProperty (class in sbol.libsbol)
extend() (SearchResponse method)
extract() (SequenceAnnotation method)
F
find() (ActivityProperty method)
(AgentProperty method)
(AnalysisProperty method)
(AssociationProperty method)
(AttachmentProperty method)
(BuildProperty method)
(CollectionProperty method)
(CombinatorialDerivationProperty method)
(ComponentDefinitionProperty method)
(ComponentProperty method)
(DesignProperty method)
(Document method)
(ExperimentProperty method)
(ExperimentalDataProperty method)
(FunctionalComponentProperty method)
(ImplementationProperty method)
(InteractionProperty method)
(LocationProperty method)
(MapsToProperty method)
(MeasurementProperty method)
(ModelProperty method)
(ModuleDefinitionProperty method)
(ModuleProperty method)
(OwnedActivity method)
(OwnedAgent method)
(OwnedAnalysis method)
(OwnedAssociation method)
(OwnedAttachment method)
(OwnedBuild method)
(OwnedCollection method)
(OwnedCombinatorialDerivation method)
(OwnedComponent method)
(OwnedComponentDefinition method)
(OwnedDesign method)
(OwnedExperiment method)
(OwnedExperimentalData method)
(OwnedFunctionalComponent method)
(OwnedImplementation method)
(OwnedInteraction method)
(OwnedLocation method)
(OwnedMapsTo method)
(OwnedMeasurement method)
(OwnedModel method)
(OwnedModule method)
(OwnedModuleDefinition method)
(OwnedParticipation method)
(OwnedPlan method)
(OwnedSampleRoster method)
(OwnedSequence method)
(OwnedSequenceAnnotation method)
(OwnedSequenceConstraint method)
(OwnedTest method)
(OwnedUsage method)
(OwnedVariableComponent method)
(ParticipationProperty method)
(PlanProperty method)
(SBOLObject method)
(SampleRosterProperty method)
(SequenceAnnotationProperty method)
(SequenceConstraintProperty method)
(SequenceProperty method)
(TestProperty method)
(UsageProperty method)
(VariableComponentProperty method)
find_property() (Document method)
(SBOLObject method)
find_property_value() (SBOLObject method)
find_reference() (Document method)
(SBOLObject method)
FloatProperty (class in sbol.libsbol)
follows() (Range method)
(SequenceAnnotation method)
FunctionalComponent (class in sbol.libsbol)
FunctionalComponentProperty (class in sbol.libsbol)
G
GeneProductionInteraction (class in sbol.libsbol)
generate() (Document method)
generateAnalysis() (Activity method)
generateBuild() (Activity method)
generateDesign() (Activity method)
generateTest() (Activity method)
GenericLocation (class in sbol.libsbol)
get() (AliasedOwnedFunctionalComponent method)
(FloatProperty method)
(IntProperty method)
(OwnedActivity method)
(OwnedAgent method)
(OwnedAnalysis method)
(OwnedAssociation method)
(OwnedAttachment method)
(OwnedBuild method)
(OwnedCollection method)
(OwnedCombinatorialDerivation method)
(OwnedComponent method)
(OwnedComponentDefinition method)
(OwnedDesign method)
(OwnedExperiment method)
(OwnedExperimentalData method)
(OwnedFunctionalComponent method)
(OwnedImplementation method)
(OwnedInteraction method)
(OwnedLocation method)
(OwnedMapsTo method)
(OwnedMeasurement method)
(OwnedModel method)
(OwnedModule method)
(OwnedModuleDefinition method)
(OwnedParticipation method)
(OwnedPlan method)
(OwnedSampleRoster method)
(OwnedSequence method)
(OwnedSequenceAnnotation method)
(OwnedSequenceConstraint method)
(OwnedTest method)
(OwnedUsage method)
(OwnedVariableComponent method)
(TextProperty method)
(URIProperty method)
getActivity() (Document method)
getAgent() (Document method)
getAll() (FloatProperty method)
(IntProperty method)
(OwnedActivity method)
(OwnedAgent method)
(OwnedAnalysis method)
(OwnedAssociation method)
(OwnedAttachment method)
(OwnedBuild method)
(OwnedCollection method)
(OwnedCombinatorialDerivation method)
(OwnedComponent method)
(OwnedComponentDefinition method)
(OwnedDesign method)
(OwnedExperiment method)
(OwnedExperimentalData method)
(OwnedFunctionalComponent method)
(OwnedImplementation method)
(OwnedInteraction method)
(OwnedLocation method)
(OwnedMapsTo method)
(OwnedMeasurement method)
(OwnedModel method)
(OwnedModule method)
(OwnedModuleDefinition method)
(OwnedParticipation method)
(OwnedPlan method)
(OwnedSampleRoster method)
(OwnedSequence method)
(OwnedSequenceAnnotation method)
(OwnedSequenceConstraint method)
(OwnedTest method)
(OwnedUsage method)
(OwnedVariableComponent method)
(TextProperty method)
(URIProperty method)
getAnalysis() (Document method)
getAnnotation() (SBOLObject method)
getAttachment() (Document method)
getBuild() (Document method)
getClassName() (SBOLObject method)
getCollection() (Document method)
getCombinatorialDerivation() (Document method)
getComponentDefinition() (Document method)
getCut() (OwnedActivity method)
(OwnedAgent method)
(OwnedAnalysis method)
(OwnedAssociation method)
(OwnedAttachment method)
(OwnedBuild method)
(OwnedCollection method)
(OwnedCombinatorialDerivation method)
(OwnedComponent method)
(OwnedComponentDefinition method)
(OwnedDesign method)
(OwnedExperiment method)
(OwnedExperimentalData method)
(OwnedFunctionalComponent method)
(OwnedImplementation method)
(OwnedInteraction method)
(OwnedLocation method)
(OwnedMapsTo method)
(OwnedMeasurement method)
(OwnedModel method)
(OwnedModule method)
(OwnedModuleDefinition method)
(OwnedParticipation method)
(OwnedPlan method)
(OwnedSampleRoster method)
(OwnedSequence method)
(OwnedSequenceAnnotation method)
(OwnedSequenceConstraint method)
(OwnedTest method)
(OwnedUsage method)
(OwnedVariableComponent method)
getDesign() (Document method)
getDownstreamComponent() (ComponentDefinition method)
getExperiment() (Document method)
getExperimentalData() (Document method)
getFileFormat() (in module sbol.libsbol)
getFirstComponent() (ComponentDefinition method)
getGenericLocation() (OwnedActivity method)
(OwnedAgent method)
(OwnedAnalysis method)
(OwnedAssociation method)
(OwnedAttachment method)
(OwnedBuild method)
(OwnedCollection method)
(OwnedCombinatorialDerivation method)
(OwnedComponent method)
(OwnedComponentDefinition method)
(OwnedDesign method)
(OwnedExperiment method)
(OwnedExperimentalData method)
(OwnedFunctionalComponent method)
(OwnedImplementation method)
(OwnedInteraction method)
(OwnedLocation method)
(OwnedMapsTo method)
(OwnedMeasurement method)
(OwnedModel method)
(OwnedModule method)
(OwnedModuleDefinition method)
(OwnedParticipation method)
(OwnedPlan method)
(OwnedSampleRoster method)
(OwnedSequence method)
(OwnedSequenceAnnotation method)
(OwnedSequenceConstraint method)
(OwnedTest method)
(OwnedUsage method)
(OwnedVariableComponent method)
getHomespace() (in module sbol.libsbol)
getImplementation() (Document method)
getInSequentialOrder() (ComponentDefinition method)
getLastComponent() (ComponentDefinition method)
getLowerBound() (ActivityProperty method)
(AgentProperty method)
(AnalysisProperty method)
(AssociationProperty method)
(AttachmentProperty method)
(BuildProperty method)
(CollectionProperty method)
(CombinatorialDerivationProperty method)
(ComponentDefinitionProperty method)
(ComponentProperty method)
(DesignProperty method)
(ExperimentProperty method)
(ExperimentalDataProperty method)
(FunctionalComponentProperty method)
(ImplementationProperty method)
(InteractionProperty method)
(LocationProperty method)
(MapsToProperty method)
(MeasurementProperty method)
(ModelProperty method)
(ModuleDefinitionProperty method)
(ModuleProperty method)
(ParticipationProperty method)
(PlanProperty method)
(SampleRosterProperty method)
(SequenceAnnotationProperty method)
(SequenceConstraintProperty method)
(SequenceProperty method)
(TestProperty method)
(UsageProperty method)
(VariableComponentProperty method)
getModel() (Document method)
getModuleDefinition() (Document method)
getNamespaces() (Document method)
getOption() (Config static method)
getOwner() (ActivityProperty method)
(AgentProperty method)
(AnalysisProperty method)
(AssociationProperty method)
(AttachmentProperty method)
(BuildProperty method)
(CollectionProperty method)
(CombinatorialDerivationProperty method)
(ComponentDefinitionProperty method)
(ComponentProperty method)
(DesignProperty method)
(ExperimentProperty method)
(ExperimentalDataProperty method)
(FunctionalComponentProperty method)
(ImplementationProperty method)
(InteractionProperty method)
(LocationProperty method)
(MapsToProperty method)
(MeasurementProperty method)
(ModelProperty method)
(ModuleDefinitionProperty method)
(ModuleProperty method)
(ParticipationProperty method)
(PlanProperty method)
(SampleRosterProperty method)
(SequenceAnnotationProperty method)
(SequenceConstraintProperty method)
(SequenceProperty method)
(TestProperty method)
(UsageProperty method)
(VariableComponentProperty method)
getPlan() (Document method)
getPrimaryStructure() (ComponentDefinition method)
getProperties() (SBOLObject method)
getPropertyValue() (SBOLObject method)
getPropertyValues() (SBOLObject method)
getRange() (OwnedActivity method)
(OwnedAgent method)
(OwnedAnalysis method)
(OwnedAssociation method)
(OwnedAttachment method)
(OwnedBuild method)
(OwnedCollection method)
(OwnedCombinatorialDerivation method)
(OwnedComponent method)
(OwnedComponentDefinition method)
(OwnedDesign method)
(OwnedExperiment method)
(OwnedExperimentalData method)
(OwnedFunctionalComponent method)
(OwnedImplementation method)
(OwnedInteraction method)
(OwnedLocation method)
(OwnedMapsTo method)
(OwnedMeasurement method)
(OwnedModel method)
(OwnedModule method)
(OwnedModuleDefinition method)
(OwnedParticipation method)
(OwnedPlan method)
(OwnedSampleRoster method)
(OwnedSequence method)
(OwnedSequenceAnnotation method)
(OwnedSequenceConstraint method)
(OwnedTest method)
(OwnedUsage method)
(OwnedVariableComponent method)
getSampleRoster() (Document method)
getSequence() (Document method)
getTest() (Document method)
getTypeURI() (ActivityProperty method)
(AgentProperty method)
(AnalysisProperty method)
(AssociationProperty method)
(AttachmentProperty method)
(BuildProperty method)
(CollectionProperty method)
(CombinatorialDerivationProperty method)
(ComponentDefinitionProperty method)
(ComponentProperty method)
(DesignProperty method)
(ExperimentProperty method)
(ExperimentalDataProperty method)
(FunctionalComponentProperty method)
(ImplementationProperty method)
(InteractionProperty method)
(LocationProperty method)
(MapsToProperty method)
(MeasurementProperty method)
(ModelProperty method)
(ModuleDefinitionProperty method)
(ModuleProperty method)
(ParticipationProperty method)
(PlanProperty method)
(SBOLObject method)
(SampleRosterProperty method)
(SequenceAnnotationProperty method)
(SequenceConstraintProperty method)
(SequenceProperty method)
(TestProperty method)
(UsageProperty method)
(VariableComponentProperty method)
getUpperBound() (ActivityProperty method)
(AgentProperty method)
(AnalysisProperty method)
(AssociationProperty method)
(AttachmentProperty method)
(BuildProperty method)
(CollectionProperty method)
(CombinatorialDerivationProperty method)
(ComponentDefinitionProperty method)
(ComponentProperty method)
(DesignProperty method)
(ExperimentProperty method)
(ExperimentalDataProperty method)
(FunctionalComponentProperty method)
(ImplementationProperty method)
(InteractionProperty method)
(LocationProperty method)
(MapsToProperty method)
(MeasurementProperty method)
(ModelProperty method)
(ModuleDefinitionProperty method)
(ModuleProperty method)
(ParticipationProperty method)
(PlanProperty method)
(SampleRosterProperty method)
(SequenceAnnotationProperty method)
(SequenceConstraintProperty method)
(SequenceProperty method)
(TestProperty method)
(UsageProperty method)
(VariableComponentProperty method)
getUpstreamComponent() (ComponentDefinition method)
getURL() (PartShop method)
H
hasDownstreamComponent() (ComponentDefinition method)
hasHomespace() (in module sbol.libsbol)
hasUpstreamComponent() (ComponentDefinition method)
I
Identified (class in sbol.libsbol)
Implementation (class in sbol.libsbol)
ImplementationProperty (class in sbol.libsbol)
incrementMajor() (VersionProperty method)
incrementMinor() (VersionProperty method)
incrementPatch() (VersionProperty method)
initialize() (TopLevel method)
insertDownstream() (ComponentDefinition method)
insertUpstream() (ComponentDefinition method)
Interaction (class in sbol.libsbol)
InteractionProperty (class in sbol.libsbol)
IntProperty (class in sbol.libsbol)
is_alphanumeric_or_underscore() (in module sbol.libsbol)
is_not_alphanumeric_or_underscore() (in module sbol.libsbol)
isComplete() (ComponentDefinition method)
isMasked() (FunctionalComponent method)
isRegular() (ComponentDefinition method)
L
length() (Range method)
(Sequence method)
(SequenceAnnotation method)
libsbol_rule_1() (in module sbol.libsbol)
libsbol_rule_10() (in module sbol.libsbol)
libsbol_rule_11() (in module sbol.libsbol)
libsbol_rule_12() (in module sbol.libsbol)
libsbol_rule_13() (in module sbol.libsbol)
libsbol_rule_14() (in module sbol.libsbol)
libsbol_rule_15() (in module sbol.libsbol)
libsbol_rule_16() (in module sbol.libsbol)
libsbol_rule_17() (in module sbol.libsbol)
libsbol_rule_18() (in module sbol.libsbol)
libsbol_rule_19() (in module sbol.libsbol)
libsbol_rule_2() (in module sbol.libsbol)
libsbol_rule_20() (in module sbol.libsbol)
libsbol_rule_21() (in module sbol.libsbol)
libsbol_rule_22() (in module sbol.libsbol)
libsbol_rule_24() (in module sbol.libsbol)
libsbol_rule_3() (in module sbol.libsbol)
libsbol_rule_4() (in module sbol.libsbol)
libsbol_rule_5() (in module sbol.libsbol)
libsbol_rule_6() (in module sbol.libsbol)
libsbol_rule_7() (in module sbol.libsbol)
libsbol_rule_8() (in module sbol.libsbol)
libsbol_rule_9() (in module sbol.libsbol)
linearize() (ComponentDefinition method)
Location (class in sbol.libsbol)
LocationProperty (class in sbol.libsbol)
login() (PartShop method)
M
major() (VersionProperty method)
MapsTo (class in sbol.libsbol)
MapsToProperty (class in sbol.libsbol)
mask() (FunctionalComponent method)
Measurement (class in sbol.libsbol)
MeasurementProperty (class in sbol.libsbol)
minor() (VersionProperty method)
Model (class in sbol.libsbol)
ModelProperty (class in sbol.libsbol)
Module (class in sbol.libsbol)
ModuleDefinition (class in sbol.libsbol)
ModuleDefinitionProperty (class in sbol.libsbol)
ModuleProperty (class in sbol.libsbol)
O
overlaps() (Range method)
(SequenceAnnotation method)
override() (FunctionalComponent method)
(ModuleDefinition method)
OwnedActivity (class in sbol.libsbol)
OwnedAgent (class in sbol.libsbol)
OwnedAnalysis (class in sbol.libsbol)
OwnedAssociation (class in sbol.libsbol)
OwnedAttachment (class in sbol.libsbol)
OwnedBuild (class in sbol.libsbol)
OwnedCollection (class in sbol.libsbol)
OwnedCombinatorialDerivation (class in sbol.libsbol)
OwnedComponent (class in sbol.libsbol)
OwnedComponentDefinition (class in sbol.libsbol)
OwnedDesign (class in sbol.libsbol)
OwnedExperiment (class in sbol.libsbol)
OwnedExperimentalData (class in sbol.libsbol)
OwnedFunctionalComponent (class in sbol.libsbol)
OwnedImplementation (class in sbol.libsbol)
OwnedInteraction (class in sbol.libsbol)
OwnedLocation (class in sbol.libsbol)
OwnedMapsTo (class in sbol.libsbol)
OwnedMeasurement (class in sbol.libsbol)
OwnedModel (class in sbol.libsbol)
OwnedModule (class in sbol.libsbol)
OwnedModuleDefinition (class in sbol.libsbol)
OwnedParticipation (class in sbol.libsbol)
OwnedPlan (class in sbol.libsbol)
OwnedSampleRoster (class in sbol.libsbol)
OwnedSequence (class in sbol.libsbol)
OwnedSequenceAnnotation (class in sbol.libsbol)
OwnedSequenceConstraint (class in sbol.libsbol)
OwnedTest (class in sbol.libsbol)
OwnedUsage (class in sbol.libsbol)
OwnedVariableComponent (class in sbol.libsbol)
P
participate() (ComponentDefinition method)
Participation (class in sbol.libsbol)
ParticipationProperty (class in sbol.libsbol)
PartShop (class in sbol.libsbol)
patch() (VersionProperty method)
Plan (class in sbol.libsbol)
PlanProperty (class in sbol.libsbol)
precedes() (Range method)
(SequenceAnnotation method)
pull() (PartShop method)
pullCollection() (PartShop method)
pullComponentDefinition() (PartShop method)
pullSequence() (PartShop method)
Q
query_repository() (Document method)
R
Range (class in sbol.libsbol)
read() (Document method)
readString() (Document method)
ReferencedObject (class in sbol.libsbol)
remove() (ActivityProperty method)
(AgentProperty method)
(AnalysisProperty method)
(AssociationProperty method)
(AttachmentProperty method)
(BuildProperty method)
(CollectionProperty method)
(CombinatorialDerivationProperty method)
(ComponentDefinitionProperty method)
(ComponentProperty method)
(DesignProperty method)
(ExperimentProperty method)
(ExperimentalDataProperty method)
(FunctionalComponentProperty method)
(ImplementationProperty method)
(InteractionProperty method)
(LocationProperty method)
(MapsToProperty method)
(MeasurementProperty method)
(ModelProperty method)
(ModuleDefinitionProperty method)
(ModuleProperty method)
(OwnedActivity method)
(OwnedAgent method)
(OwnedAnalysis method)
(OwnedAssociation method)
(OwnedAttachment method)
(OwnedBuild method)
(OwnedCollection method)
(OwnedCombinatorialDerivation method)
(OwnedComponent method)
(OwnedComponentDefinition method)
(OwnedDesign method)
(OwnedExperiment method)
(OwnedExperimentalData method)
(OwnedFunctionalComponent method)
(OwnedImplementation method)
(OwnedInteraction method)
(OwnedLocation method)
(OwnedMapsTo method)
(OwnedMeasurement method)
(OwnedModel method)
(OwnedModule method)
(OwnedModuleDefinition method)
(OwnedParticipation method)
(OwnedPlan method)
(OwnedSampleRoster method)
(OwnedSequence method)
(OwnedSequenceAnnotation method)
(OwnedSequenceConstraint method)
(OwnedTest method)
(OwnedUsage method)
(OwnedVariableComponent method)
(ParticipationProperty method)
(PlanProperty method)
(SampleRosterProperty method)
(SequenceAnnotationProperty method)
(SequenceConstraintProperty method)
(SequenceProperty method)
(TestProperty method)
(UsageProperty method)
(VariableComponentProperty method)
reportAmbiguity() (Analysis method)
reportCoverage() (Analysis method)
reportError() (Analysis method)
reportIdentity() (Analysis method)
request_comparison() (Document method)
request_validation() (Document method)
S
SampleRoster (class in sbol.libsbol)
SampleRosterProperty (class in sbol.libsbol)
sbol.libsbol (module)
sbol_rule_10202() (in module sbol.libsbol)
sbol_rule_10204() (in module sbol.libsbol)
SBOLObject (class in sbol.libsbol)
sbolRule10101() (in module sbol.libsbol)
sbolRule10102() (in module sbol.libsbol)
search() (PartShop method)
search_metadata() (Document method)
searchCount() (PartShop method)
SearchQuery (class in sbol.libsbol)
SearchResponse (class in sbol.libsbol)
searchRootCollections() (PartShop method)
searchSubCollections() (PartShop method)
Sequence (class in sbol.libsbol)
SequenceAnnotation (class in sbol.libsbol)
SequenceAnnotationProperty (class in sbol.libsbol)
SequenceConstraint (class in sbol.libsbol)
SequenceConstraintProperty (class in sbol.libsbol)
SequenceProperty (class in sbol.libsbol)
set() (ActivityProperty method)
(AgentProperty method)
(AliasedOwnedFunctionalComponent method)
(AnalysisProperty method)
(AssociationProperty method)
(AttachmentProperty method)
(BuildProperty method)
(CollectionProperty method)
(CombinatorialDerivationProperty method)
(ComponentDefinitionProperty method)
(ComponentProperty method)
(DesignProperty method)
(ExperimentProperty method)
(ExperimentalDataProperty method)
(FunctionalComponentProperty method)
(ImplementationProperty method)
(InteractionProperty method)
(LocationProperty method)
(MapsToProperty method)
(MeasurementProperty method)
(ModelProperty method)
(ModuleDefinitionProperty method)
(ModuleProperty method)
(OwnedActivity method)
(OwnedAgent method)
(OwnedAnalysis method)
(OwnedAssociation method)
(OwnedAttachment method)
(OwnedBuild method)
(OwnedCollection method)
(OwnedCombinatorialDerivation method)
(OwnedComponent method)
(OwnedComponentDefinition method)
(OwnedDesign method)
(OwnedExperiment method)
(OwnedExperimentalData method)
(OwnedFunctionalComponent method)
(OwnedImplementation method)
(OwnedInteraction method)
(OwnedLocation method)
(OwnedMapsTo method)
(OwnedMeasurement method)
(OwnedModel method)
(OwnedModule method)
(OwnedModuleDefinition method)
(OwnedParticipation method)
(OwnedPlan method)
(OwnedSampleRoster method)
(OwnedSequence method)
(OwnedSequenceAnnotation method)
(OwnedSequenceConstraint method)
(OwnedTest method)
(OwnedUsage method)
(OwnedVariableComponent method)
(ParticipationProperty method)
(PlanProperty method)
(ReferencedObject method)
(SampleRosterProperty method)
(SequenceAnnotationProperty method)
(SequenceConstraintProperty method)
(SequenceProperty method)
(TestProperty method)
(UsageProperty method)
(VariableComponentProperty method)
setAnnotation() (SBOLObject method)
setFileFormat() (in module sbol.libsbol)
setHomespace() (in module sbol.libsbol)
setInput() (ModuleDefinition method)
setOption() (Config static method)
setOutput() (ModuleDefinition method)
setPropertyValue() (SBOLObject method)
setReference() (ReferencedObject method)
SmallMoleculeActivationInteraction (class in sbol.libsbol)
SmallMoleculeInhibitionInteraction (class in sbol.libsbol)
stampTime() (DateTimeProperty method)
submit() (PartShop method)
summary() (Document method)
synthesize() (Sequence method)
T
Test (class in sbol.libsbol)
TestProperty (class in sbol.libsbol)
testRoundTrip() (in module sbol.libsbol)
testSBOL() (in module sbol.libsbol)
TextProperty (class in sbol.libsbol)
TopLevel (class in sbol.libsbol)
TranscriptionalActivationInteraction (class in sbol.libsbol)
TranscriptionalRepressionInteraction (class in sbol.libsbol)
U
update_uri() (SBOLObject method)
updateSequence() (ComponentDefinition method)
URIProperty (class in sbol.libsbol)
Usage (class in sbol.libsbol)
UsageProperty (class in sbol.libsbol)
V
validate() (ActivityProperty method)
(AgentProperty method)
(AnalysisProperty method)
(AssociationProperty method)
(AttachmentProperty method)
(BuildProperty method)
(CollectionProperty method)
(CombinatorialDerivationProperty method)
(ComponentDefinitionProperty method)
(ComponentProperty method)
(DesignProperty method)
(Document method)
(ExperimentProperty method)
(ExperimentalDataProperty method)
(FunctionalComponentProperty method)
(ImplementationProperty method)
(InteractionProperty method)
(LocationProperty method)
(MapsToProperty method)
(MeasurementProperty method)
(ModelProperty method)
(ModuleDefinitionProperty method)
(ModuleProperty method)
(ParticipationProperty method)
(PlanProperty method)
(SampleRosterProperty method)
(SequenceAnnotationProperty method)
(SequenceConstraintProperty method)
(SequenceProperty method)
(TestProperty method)
(UsageProperty method)
(VariableComponentProperty method)
VariableComponent (class in sbol.libsbol)
VariableComponentProperty (class in sbol.libsbol)
verifyTarget() (Analysis method)
VersionProperty (class in sbol.libsbol)
W
write() (ActivityProperty method)
(AgentProperty method)
(AnalysisProperty method)
(AssociationProperty method)
(AttachmentProperty method)
(BuildProperty method)
(CollectionProperty method)
(CombinatorialDerivationProperty method)
(ComponentDefinitionProperty method)
(ComponentProperty method)
(DesignProperty method)
(Document method)
(ExperimentProperty method)
(ExperimentalDataProperty method)
(FunctionalComponentProperty method)
(ImplementationProperty method)
(InteractionProperty method)
(LocationProperty method)
(MapsToProperty method)
(MeasurementProperty method)
(ModelProperty method)
(ModuleDefinitionProperty method)
(ModuleProperty method)
(ParticipationProperty method)
(PlanProperty method)
(SampleRosterProperty method)
(SequenceAnnotationProperty method)
(SequenceConstraintProperty method)
(SequenceProperty method)
(TestProperty method)
(UsageProperty method)
(VariableComponentProperty method)
writeString() (Document method)
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