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## Uses of Class
ru.biosoft.access.DataCollection

Packages that use DataCollection
biouml.editor |
biouml.model |
biouml.model.dynamics |
biouml.model.util |
biouml.modules.genenet.access |
biouml.modules.genenet.type |
biouml.modules.kegg.type |
biouml.modules.kegg.type.access |
biouml.modules.transpath.type |
biouml.modules.transpath.type.access |
biouml.standard.type |
ru.biosoft.access |
ru.biosoft.access.repository |
ru.biosoft.access.support |

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.

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