Package | Description |
---|---|
owltools.gaf.lego |
Modifier and Type | Method and Description |
---|---|
void |
MolecularModelManager.addAnnotations(String modelId,
org.semanticweb.owlapi.model.IRI subject,
Set<org.semanticweb.owlapi.model.OWLAnnotation> annotations,
METADATA metadata) |
void |
MolecularModelManager.addAnnotations(String modelId,
Set<org.semanticweb.owlapi.model.OWLAnnotation> annotations,
METADATA metadata) |
void |
MolecularModelManager.addAnnotations(String modelId,
Set<org.semanticweb.owlapi.model.OWLObjectPropertyAssertionAxiom> axioms,
Set<org.semanticweb.owlapi.model.OWLAnnotation> annotations,
METADATA metadata) |
org.semanticweb.owlapi.model.OWLNamedIndividual |
MolecularModelManager.addAnnotations(String modelId,
String iid,
Set<org.semanticweb.owlapi.model.OWLAnnotation> annotations,
METADATA metadata) |
List<org.semanticweb.owlapi.model.OWLNamedIndividual> |
MolecularModelManager.addAnnotations(String modelId,
String pid,
String iid,
String jid,
Set<org.semanticweb.owlapi.model.OWLAnnotation> annotations,
METADATA metadata) |
org.semanticweb.owlapi.model.OWLNamedIndividual |
MolecularModelManager.addDataProperties(String modelId,
String iid,
Map<org.semanticweb.owlapi.model.OWLDataProperty,Set<org.semanticweb.owlapi.model.OWLLiteral>> dataProperties,
METADATA token) |
void |
MolecularModelManager.addEnabledBy(String modelId,
org.semanticweb.owlapi.model.OWLNamedIndividual i,
org.semanticweb.owlapi.model.OWLClassExpression enabler)
Deprecated.
|
void |
MolecularModelManager.addEnabledBy(String modelId,
String iid,
String eid)
Deprecated.
|
List<org.semanticweb.owlapi.model.OWLNamedIndividual> |
MolecularModelManager.addFact(String modelId,
OBOUpperVocabulary vocabElement,
String iid,
String jid,
Set<org.semanticweb.owlapi.model.OWLAnnotation> annotations,
METADATA metadata)
|
List<org.semanticweb.owlapi.model.OWLNamedIndividual> |
MolecularModelManager.addFact(String modelId,
String pid,
String iid,
String jid,
Set<org.semanticweb.owlapi.model.OWLAnnotation> annotations,
METADATA metadata)
|
List<org.semanticweb.owlapi.model.OWLNamedIndividual> |
MolecularModelManager.addFactNonReasoning(String modelId,
String pid,
String iid,
String jid,
Set<org.semanticweb.owlapi.model.OWLAnnotation> annotations,
METADATA metadata)
|
void |
MolecularModelManager.addOccursIn(String modelId,
org.semanticweb.owlapi.model.OWLNamedIndividual i,
org.semanticweb.owlapi.model.OWLClassExpression enabler)
Deprecated.
|
void |
MolecularModelManager.addOccursIn(String modelId,
String iid,
String eid)
Deprecated.
|
void |
MolecularModelManager.addPartOf(String modelId,
org.semanticweb.owlapi.model.OWLNamedIndividual i,
org.semanticweb.owlapi.model.OWLNamedIndividual j,
Set<org.semanticweb.owlapi.model.OWLAnnotation> annotations)
Deprecated.
|
void |
MolecularModelManager.addPartOf(String modelId,
String iid,
String jid,
Set<org.semanticweb.owlapi.model.OWLAnnotation> annotations)
Deprecated.
|
void |
MolecularModelManager.addType(String modelId,
String iid,
String cid,
METADATA metadata)
|
void |
MolecularModelManager.addType(String modelId,
String iid,
String pid,
String cid,
METADATA metadata)
|
org.semanticweb.owlapi.model.OWLNamedIndividual |
MolecularModelManager.addTypeNonReasoning(String modelId,
String iid,
org.semanticweb.owlapi.model.OWLClassExpression clsExp,
METADATA metadata) |
org.semanticweb.owlapi.model.OWLNamedIndividual |
MolecularModelManager.addTypeNonReasoning(String modelId,
String iid,
String pid,
org.semanticweb.owlapi.model.OWLClassExpression ce,
METADATA metadata) |
ModelContainer |
MolecularModelManager.checkModelId(String modelId) |
org.apache.commons.lang3.tuple.Pair<String,org.semanticweb.owlapi.model.OWLNamedIndividual> |
MolecularModelManager.createIndividual(String modelId,
String cid,
Set<org.semanticweb.owlapi.model.OWLAnnotation> annotations,
METADATA metadata)
|
org.apache.commons.lang3.tuple.Pair<String,org.semanticweb.owlapi.model.OWLNamedIndividual> |
MolecularModelManager.createIndividualNonReasoning(String modelId,
org.semanticweb.owlapi.model.OWLClassExpression ce,
Set<org.semanticweb.owlapi.model.OWLAnnotation> annotations,
METADATA metadata)
|
org.apache.commons.lang3.tuple.Pair<String,org.semanticweb.owlapi.model.OWLNamedIndividual> |
MolecularModelManager.createIndividualNonReasoning(String modelId,
String cid,
Set<org.semanticweb.owlapi.model.OWLAnnotation> annotations,
METADATA metadata)
|
CoreMolecularModelManager.DeleteInformation |
MolecularModelManager.deleteIndividual(String modelId,
String iid,
METADATA metadata)
Deletes an individual and return all IRIs used as an annotation value
|
void |
MolecularModelManager.deleteIndividualNonReasoning(String modelId,
org.semanticweb.owlapi.model.IRI iri,
METADATA metadata)
Deletes an individual
|
CoreMolecularModelManager.DeleteInformation |
MolecularModelManager.deleteIndividualNonReasoning(String modelId,
String iid,
METADATA metadata)
Deletes an individual and return all IRIs used as an annotation value
|
String |
MolecularModelManager.exportModel(String modelId)
Export the ABox for the given modelId in the default
OWLOntologyFormat . |
String |
MolecularModelManager.exportModelLegacy(String modelId,
String format)
Export the model (ABox) for the given modelId in a legacy format, such as GAF or GPAD.
|
String |
MolecularModelManager.generateModel(String pid,
String db,
METADATA metadata)
|
Set<org.semanticweb.owlapi.model.OWLNamedIndividual> |
MolecularModelManager.getIndividualsByQuery(String modelId,
String qs) |
org.semanticweb.owlapi.model.OWLNamedIndividual |
MolecularModelManager.getNamedIndividual(String modelId,
String iid) |
boolean |
UndoAwareMolecularModelManager.redo(String modelId,
String userId)
Redo latest change for the given model.
|
void |
MolecularModelManager.removeAnnotations(String modelId,
Set<org.semanticweb.owlapi.model.OWLAnnotation> annotations,
METADATA metadata) |
org.semanticweb.owlapi.model.OWLNamedIndividual |
MolecularModelManager.removeAnnotations(String modelId,
String iid,
Set<org.semanticweb.owlapi.model.OWLAnnotation> annotations,
METADATA metadata) |
List<org.semanticweb.owlapi.model.OWLNamedIndividual> |
MolecularModelManager.removeAnnotations(String modelId,
String pid,
String iid,
String jid,
Set<org.semanticweb.owlapi.model.OWLAnnotation> annotations,
METADATA metadata) |
org.semanticweb.owlapi.model.OWLNamedIndividual |
MolecularModelManager.removeDataProperties(String modelId,
String iid,
Map<org.semanticweb.owlapi.model.OWLDataProperty,Set<org.semanticweb.owlapi.model.OWLLiteral>> dataProperties,
METADATA token) |
List<org.semanticweb.owlapi.model.OWLNamedIndividual> |
MolecularModelManager.removeFact(String modelId,
String pid,
String iid,
String jid,
METADATA metadata) |
org.apache.commons.lang3.tuple.Pair<List<org.semanticweb.owlapi.model.OWLNamedIndividual>,Set<org.semanticweb.owlapi.model.IRI>> |
MolecularModelManager.removeFactNonReasoning(String modelId,
String pid,
String iid,
String jid,
METADATA metadata) |
void |
MolecularModelManager.removeType(String modelId,
String iid,
String cid,
METADATA metadata)
|
org.semanticweb.owlapi.model.OWLNamedIndividual |
MolecularModelManager.removeTypeNonReasoning(String modelId,
String iid,
org.semanticweb.owlapi.model.OWLClassExpression clsExp,
METADATA metadata) |
void |
MolecularModelManager.saveModel(String modelId,
Set<org.semanticweb.owlapi.model.OWLAnnotation> annotations,
METADATA metadata)
Save a model to disk.
|
boolean |
UndoAwareMolecularModelManager.undo(String modelId,
String userId)
Undo latest change for the given model.
|
void |
MolecularModelManager.updateAnnotation(String modelId,
org.semanticweb.owlapi.model.IRI subject,
org.semanticweb.owlapi.model.OWLAnnotation annotation,
METADATA metadata) |
void |
MolecularModelManager.updateAnnotation(String modelId,
org.semanticweb.owlapi.model.OWLAnnotation annotation,
METADATA metadata) |
Set<org.semanticweb.owlapi.model.OWLObjectPropertyAssertionAxiom> |
MolecularModelManager.updateAnnotation(String modelId,
Set<org.semanticweb.owlapi.model.OWLObjectPropertyAssertionAxiom> axioms,
org.semanticweb.owlapi.model.OWLAnnotation annotation,
METADATA metadata) |
org.semanticweb.owlapi.model.OWLNamedIndividual |
MolecularModelManager.updateAnnotation(String modelId,
String iid,
org.semanticweb.owlapi.model.OWLAnnotation annotation,
METADATA metadata) |
List<org.semanticweb.owlapi.model.OWLNamedIndividual> |
MolecularModelManager.updateAnnotation(String modelId,
String pid,
String iid,
String jid,
org.semanticweb.owlapi.model.OWLAnnotation annotation,
METADATA metadata) |
void |
MolecularModelManager.updateImports(String modelId)
This method will check the given model and update the import declarations.
|
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