Uses of DataCollection in biouml.editor

 

Constructors in biouml.editor with parameters of type DataCollection

CreateReactionDialog.CreateReactionDialog(JFrame frame, String title, ViewEditorPane viewEditor, DataCollection parent, Point point)

DataCollectionAddUndo.DataCollectionAddUndo(DataElement elementWillAdd, DataCollection parent)

DataCollectionRemoveUndo.DataCollectionRemoveUndo(DataElement elementWillRemove, DataCollection parent)

NewDiagramDialog.NewDiagramDialog(JFrame frame, String title, DataCollection repository, Module module)

NewDiagramElementDialog.NewDiagramElementDialog(JFrame frame, String title, DataCollection parent, Diagram diagram, Class clazz)

 

Methods in biouml.editor with parameters of type DataCollection
static Diagram	NewDiagramDialog.createDiagram(DiagramType type, String diagramName, DataCollection origin)
static Diagram	NewDiagramDialog.createDiagram(String diagramTypeClassName, String diagramName, DataCollection origin)

 

Uses of DataCollection in biouml.model

 

Classes in biouml.model that implement DataCollection
class	Compartment           General definition of the compartment as a container for nodes and edges between them.

 

Constructors in biouml.model with parameters of type DataCollection

Compartment.Compartment(DataCollection parent, Base kernel)

Compartment.Compartment(DataCollection parent, String id, Base kernel)

Diagram.Diagram(DataCollection origin, Base kernel, DiagramType type)           Creates the diagram of the specified type.

DiagramElement.DiagramElement(DataCollection parent, Base kernel)           Constructs the diagram element.

DiagramElement.DiagramElement(DataCollection parent, String name, Base kernel)           Constructs the diagram element.

Edge.Edge(DataCollection parent, Base kernel, Node input, Node output)

Edge.Edge(DataCollection parent, String id, Base kernel, Node input, Node output)

EquivalentNodeGroup.EquivalentNodeGroup(DataCollection parent, String name)

Module.Module(DataCollection primaryCollection, Properties properties)           Constructs derived data collection with primary collection.

Node.Node(DataCollection parent, Base kernel)

Node.Node(DataCollection parent, String name, Base kernel)

 

Methods in biouml.model that return DataCollection
DataCollection	Module.getCategory(Class clazz)
DataCollection	Module.getDiagrams()
static DataCollection	Node.findCommonOrigin(DataCollection first, DataCollection second)

 

Methods in biouml.model with parameters of type DataCollection
void	Compartment.propagateElementChanged(DataCollection source, DataCollectionEvent primaryEvent)
void	Compartment.propagateElementWillChange(DataCollection source, DataCollectionEvent primaryEvent)
DiagramElement	Diagram.clone(DataCollection origin, String newName)
static DataCollection	Node.findCommonOrigin(DataCollection first, DataCollection second)

 

Uses of DataCollection in biouml.model.dynamics

 

Constructors in biouml.model.dynamics with parameters of type DataCollection

Constant.Constant(String name, EModel model, DataCollection origin)           EModel is needed to be notified about constant changes.

Variable.Variable(DataCollection origin, DiagramElement diagramElement, double initialValue)

VariablesDataCollection.VariablesDataCollection(DataCollection parent, Diagram diagram)

 

Methods in biouml.model.dynamics that return DataCollection
DataCollection	EModel.getConstants()
DataCollection	EModel.getVariables()

 

Uses of DataCollection in biouml.model.util

 

Methods in biouml.model.util that return DataCollection
static DataCollection	Framework.getRepository()

 

Methods in biouml.model.util with parameters of type DataCollection
Diagram	DiagramXMLReader.read(DataCollection origin, Module module)

 

Uses of DataCollection in biouml.modules.genenet.access

 

Constructors in biouml.modules.genenet.access with parameters of type DataCollection

MglDataCollection.MglDataCollection(DataCollection origin, Properties properties)

 

Uses of DataCollection in biouml.modules.genenet.type

 

Constructors in biouml.modules.genenet.type with parameters of type DataCollection

Cell.Cell(DataCollection origin, String name)

Compartment.Compartment(DataCollection origin, String name)

DiagramDescription.DiagramDescription(DataCollection origin, String name)

Expert.Expert(DataCollection origin, String name)

Gene.Gene(DataCollection origin, String name)

Proces.Proces(DataCollection origin, String name)

Protein.Protein(DataCollection origin, String name)

Reaction.Reaction(DataCollection origin, String name)

RNA.RNA(DataCollection origin, String name)

Substance.Substance(DataCollection origin, String name)

 

Uses of DataCollection in biouml.modules.kegg.type

 

Constructors in biouml.modules.kegg.type with parameters of type DataCollection

Compound.Compound(DataCollection origin, String name)

Enzyme.Enzyme(DataCollection origin, String name)

 

Uses of DataCollection in biouml.modules.kegg.type.access

 

Methods in biouml.modules.kegg.type.access with parameters of type DataCollection
Diagram	DiagramReader.read(DataCollection origin, String name, Module module)

 

Uses of DataCollection in biouml.modules.transpath.type

 

Constructors in biouml.modules.transpath.type with parameters of type DataCollection

Molecule.Molecule(DataCollection origin, String name)

Reaction.Reaction(DataCollection origin, String name)

 

Uses of DataCollection in biouml.modules.transpath.type.access

 

Constructors in biouml.modules.transpath.type.access with parameters of type DataCollection

DummyRelationDataCollection.DummyRelationDataCollection(DataCollection origin, Properties properties)

 

Uses of DataCollection in biouml.standard.type

 

Constructors in biouml.standard.type with parameters of type DataCollection

BaseSupport.BaseSupport(String name, DataCollection parent, String type)

BaseSupport.BaseSupport(String name, DataCollection parent)

Cell.Cell(DataCollection parent, String name)

Compartment.Compartment(DataCollection origin, String name)

DiagramDescription.DiagramDescription(DataCollection parent, String name)

Gene.Gene(DataCollection origin, String name)

LiteratureReference.LiteratureReference(DataCollection parent, String name)

Protein.Protein(DataCollection origin, String name)

Reaction.Reaction(DataCollection origin, String name, ReactionType reactionType)

Reaction.Reaction(DataCollection origin, String name)

Relation.Relation(DataCollection origin, String name, String relationType)

Relation.Relation(DataCollection origin, String name)

RNA.RNA(DataCollection origin, String name)

Species.Species(DataCollection parent, String name)

Substance.Substance(DataCollection origin, String name)

 

Methods in biouml.standard.type that return DataCollection
DataCollection	ReferrerBeanInfo.LiteratureReferencesEditor.getDataCollection()

 

Uses of DataCollection in ru.biosoft.access

 

Subinterfaces of DataCollection in ru.biosoft.access
interface	CollectionUnion           Collection that is union of several collections.

 

Classes in ru.biosoft.access that implement DataCollection
class	AbstractDataCollection           This abstract class provides default implementations for most of the methods in the DataCollection interface.

 

Constructors in ru.biosoft.access with parameters of type DataCollection

AbstractDataCollection.AbstractDataCollection(DataCollection parent, Properties properties)           Constructs data collection with parent.

DataCollectionUnion.DataCollectionUnion(DataCollection dc, Properties properties)           Make union of all collections contained in specified data collection.

DataCollectionUnion2.DataCollectionUnion2(DataCollection dc, Properties properties)

DataCollectionUnion2.DataCollectionUnion2(DataCollection [] collections, Properties properties)

DataElementRef.DataElementRef(String name, DataCollection origin, String elementName)

DataElementSupport.DataElementSupport(String name, DataCollection origin)           Construct data element.

DerivedDataCollection.DerivedDataCollection(DataCollection parent, Properties properties)           Constructs derived data collection with primary collection.

Entry.Entry(DataCollection parent, String name, File pFile, long pOffset, long pSize)           Construct big data element with TEXT_FORMAT.

Entry.Entry(DataCollection pParent, String pName, String pData, String pFormat)           Construct data element.

Entry.Entry(DataCollection pParent, String pName, String pData)           Construct data element with TEXT_FORMAT.

EntryCollection.EntryCollection(DataCollection parent, Properties properties)           Standard data collection constructor.

FileCollection.FileCollection(DataCollection parent, Properties properties)           Constructs data collection with parent.

FileDataElement.FileDataElement(String name, DataCollection origin, File parent)           Constructs FileDataElement with specified name,parent DataCollection,and parent subdirectory

FileDataElement.FileDataElement(String name, DataCollection origin, String parent)           Constructs FileDataElement with specified name,parent DataCollection,and name of parent subdirectory

FileEntryCollection.FileEntryCollection(DataCollection parent, Properties properties)           Loads the data collection and its indexes (currently only for id).

FileEntryCollection2.FileEntryCollection2(DataCollection parent, Properties properties)

FilteredDataCollection.FilteredDataCollection(DataCollection primaryDC, Properties properties)           Create collection with specified properties.

LocalRepository.LocalRepository(DataCollection parent, Properties properties)           Constructs LocalRepository.

MutableDataElementSupport.MutableDataElementSupport(String name, DataCollection origin)

SQLDataCollection.SQLDataCollection(DataCollection parent, Properties properties)           Standart constructor for creating data collection.

TransformedDataCollection.TransformedDataCollection(DataCollection parent, Properties properties)           Constructs transformed data collection with parent.

VectorDataCollection.VectorDataCollection(DataCollection parent, Properties properties)           Constructs an VectorDataCollection object with specified properties.

 

Methods in ru.biosoft.access that return DataCollection
DataCollection	AbstractTransformer.getPrimaryCollection()           Gets primary data collection connected with transformer.
DataCollection	AbstractTransformer.getTransformedCollection()           Gets transformed data collection connected with transformer.
static DataCollection	CollectionFactory.createCollection(DataCollection parent, Properties properties)           Register the DataCollection in CollectionFactory.
static DataCollection	CollectionFactory.createRepository(String path)
static DataCollection	CollectionFactory.createTempMemoryCollection()
static DataCollection	CollectionFactory.createTransformedCollection(String completeName, String name, String imgName, String childrenImage, String fileFilter, String transformerClass, String startTag, String idTag, String endTag, String subDir)
static DataCollection	CollectionFactory.createTransformedCollection(String completeName, String name, String imgName, String fileFilter, String transformerClass, String startTag, String idTag, String endTag, String subDir)
static DataCollection	CollectionFactory.createTransformedCollection(String path, String name, String fileFilter, String transformerClass, String startTag, String idTag, String endTag)
static DataCollection	CollectionFactory.createTransformedCollection(String path, String name, String transformerClass, String startTag, String idTag, String endTag)
static DataCollection	CollectionFactory.getDataCollection(String completeName)           Returns the data collection with the speicified name.
DataCollection	DataElement.getOrigin()           Returns the collection this element belongs to.
DataCollection	DataElementSupport.getOrigin()           Return origin data collection for this data element.
DataCollection	LocalRepository.createDataCollection(String name, Properties properties, String subDir, String configName, File[] files, boolean copy, CreateDataCollectionController controller)           Creates new DataCollection with specified subdir (if not null) and config file name.
DataCollection	MutableDataElementSupport.getOrigin()
DataCollection	QuerySystem.doNativeQuery(String query)
DataCollection	QuerySystem.doQuery(String query)
DataCollection	Repository.createDataCollection(String name, Properties properties, String subDir, String configName, File[] files, boolean copy, CreateDataCollectionController controller)           Creates new DataCollection.
DataCollection	Transformer.getPrimaryCollection()           Return data collection which contain output data element.
DataCollection	Transformer.getTransformedCollection()           Return data collection which contain input data element.

 

Methods in ru.biosoft.access with parameters of type DataCollection
void	AbstractDataCollection.propagateElementChanged(DataCollection source, DataCollectionEvent primaryEvent)
void	AbstractDataCollection.propagateElementWillChange(DataCollection source, DataCollectionEvent primaryEvent)
void	AbstractTransformer.init(DataCollection primaryCollection, DataCollection transformedCollection)           Initialize transformer for support optional methods.
static void	CollectionFactory.copyDataCollection(DataCollection source, DataCollection dest, FunctionJobControl jc)
static DataCollection	CollectionFactory.createCollection(DataCollection parent, Properties properties)           Register the DataCollection in CollectionFactory.
static void	CollectionFactory.destroyCollection(DataCollection dataCollection)           Unregister the DataCollection in CollectionFactory.
void	CollectionUnion.addCollection(DataCollection dc)           Add all elements from specified collection to union.
void	DataCollection.propagateElementChanged(DataCollection source, DataCollectionEvent primaryEvent)
void	DataCollection.propagateElementWillChange(DataCollection source, DataCollectionEvent primaryEvent)
void	DataCollectionUnion.addCollection(DataCollection dc)
void	DataCollectionUnion2.addCollection(DataCollection child)
boolean	SQLTransformer.init(DataCollection owner)           Initialize transformer.
void	Transformer.init(DataCollection dcInput, DataCollection dcOutput)           Initialize transformer for support optional methods.

 

Uses of DataCollection in ru.biosoft.access.repository

 

Constructors in ru.biosoft.access.repository with parameters of type DataCollection

RepositoryPane.RepositoryPane(DataCollection repository, boolean usePropertyInspector)

RepositoryPane2.RepositoryPane2(DataCollection repository, boolean usePropertyInspector)

 

Methods in ru.biosoft.access.repository that return DataCollection
DataCollection	RepositoryPane.getRootDataCollection()
DataCollection	RepositoryPane2.getRootDataCollection()

 

Uses of DataCollection in ru.biosoft.access.support

 

Constructors in ru.biosoft.access.support with parameters of type DataCollection

DatabaseEntry.DatabaseEntry(DataCollection origin, String name, Entry entry)

DataCollectionMultyChoiceDialog.DataCollectionMultyChoiceDialog(Component parent, String title, DataCollection dc, String[] selectedValues, boolean isSorted)

DataCollectionMultyChoicePane.DataCollectionMultyChoicePane(DataCollection dc, String[] selectedValues, boolean isSorted)

NameListToListModelAdapter.NameListToListModelAdapter(DataCollection dataCollection)

NewDataElementDialog.NewDataElementDialog(Component parent, String title, DataCollection dc)

 

Methods in ru.biosoft.access.support that return DataCollection
DataCollection	DatabaseEntry.getOrigin()
abstract DataCollection	DataCollectionMultyChoicePropertyEditor.getDataCollection()           Should return the DataCollection containing possible values.