Overview | Package | Class | Use | Tree | Deprecated | Help
PREV NEXT | FRAMES NO FRAMES

## Uses of Interface
biouml.standard.type.Base

Packages that use Base
biouml.model |
biouml.plugins.cellml |
biouml.plugins.ginsim |
biouml.plugins.sbml |
biouml.standard |
biouml.standard.diagram |
biouml.standard.filter |
biouml.standard.type |
biouml.workbench.diagram |

Uses of Base in biouml.model

Fields in biouml.model declared as Base
`protected Base` | `DiagramElement.kernel`

Methods in biouml.model that return Base
`Base` | `NodeInfo.getBase()`
`Base[]` | `EquivalentNodeGroup.getKernels()` We would like to get access for kernels through the property to display it in property inspector.
`Base` | `DiagramElement.getKernel()`

Methods in biouml.model with parameters of type Base
`Compartment` | `QueryEngineSupport.getCompartment(Node start, Base kernel)` Should return the most suitable compartment where new node should be located.
`protected Node` | `QueryEngineSupport.findNearestNode(Compartment c, Node node, Base kernel)`
`void` | `DiagramElement.setKernel(Base kernel)`
`void` | `Diagram.setKernel(Base newKernel)`
`boolean` | `DefaultDiagramViewBuilder.isReaction(Base kernel)`
`boolean` | `Compartment.containsKernel(Base kernel)`
`java.util.List` | `Compartment.getKernelNodes(Base kernel)`

Constructors in biouml.model with parameters of type Base
`NodeInfo(Base base)`
`Node(DataCollection parent, java.lang.String name, Base kernel)`
`Node(DataCollection parent, Base kernel)`
`Edge(DataCollection parent, java.lang.String id, Base kernel, Node input, Node output)`
`Edge(DataCollection parent, Base kernel, Node input, Node output)`
`DiagramElement(DataCollection parent, java.lang.String name, Base kernel)` Constructs the diagram element.
`DiagramElement(DataCollection parent, Base kernel)` Constructs the diagram element.
`Diagram(DataCollection origin, Base kernel, DiagramType type)` Creates the diagram of the specified type.
`Compartment(DataCollection parent, java.lang.String id, Base kernel)`
`Compartment(DataCollection parent, Base kernel)`

Uses of Base in biouml.plugins.cellml

Classes in biouml.plugins.cellml that implement Base
`class` | `Species` This is a wrapper class to handle RDF elemenet assotiated with CellML component.

Uses of Base in biouml.plugins.ginsim

Classes in biouml.plugins.ginsim that implement Base
`class` | `GinSimEdgeKernel`
`class` | `GinSimNodeKernel`

Uses of Base in biouml.plugins.sbml

Classes in biouml.plugins.sbml that implement Base
`class` | `Specie`

Uses of Base in biouml.standard

Methods in biouml.standard with parameters of type Base
`boolean` | `PathwayQueryEngine.isSmallMolecule(Base base, java.lang.Object obj)`

Uses of Base in biouml.standard.diagram

Fields in biouml.standard.diagram declared as Base
`protected Base` | `SemanticRelationPane.relation`

Methods in biouml.standard.diagram with parameters of type Base
`DiagramElement` | `PathwaySemanticController.createDiagramElement(Base kernel, java.util.Set elements)`
`protected Node` | `PathwaySemanticController.getNode(Base kernel, java.util.Set elements)`
`protected Brush` | `PathwayDiagramViewBuilder.getReactionBrush(Base reaction, PathwayDiagramViewOptions options)`

Uses of Base in biouml.standard.filter

Methods in biouml.standard.filter with parameters of type Base
`protected boolean` | `HideAction.isReaction(Base kernel)`

Uses of Base in biouml.standard.type

Subinterfaces of Base in biouml.standard.type
`interface` | `Relation` Intermediary class to generalize what is common for all relations/edges as well as to define common constants.

Classes in biouml.standard.type that implement Base
`class` | `BaseSupport` Base class for all data element types.
`class` | `Biopolymer`
`class` | `Cell` Stub
`class` | `Compartment` Stub
`class` | `Concept`
`class` | `Constant` Some constant that can be used in kinetic or other equations.
`class` | `DatabaseInfo` Many data elements can refer to other databases through its database references field.
`class` | `DiagramInfo` Defines common properties for diagram description.
`class` | `DiagramReference`
`class` | `Function` Molecular function is an activity or task performed by a gene product or other biological entity.
`class` | `Gene` Stub
`class` | `GenericEntity`
`class` | `Molecule`
`class` | `Process` Biological process is a biological goal that requires more than one function.
`class` | `Protein` Stub
`class` | `Reaction`
`class` | `Referrer` Extention of GenericEntity that contains references to other databases and literature sources.
`class` | `RNA` Stub
`class` | `SemanticRelation` SemanticRelatio specified semantic relationships between concepts (kernels) assotiated with two nodes on the diagram.
`class` | `SpecieReference` SpecieReference specifies role of molecule involved in the `Reaction`.
`class` | `State` State, stage or variant of biological system or its subunits.
`class` | `Stub`
`static class` | `Stub.Note`
`static class` | `Stub.NoteLink`
`class` | `Substance` Stub

Uses of Base in biouml.workbench.diagram

Methods in biouml.workbench.diagram that return Base
`Base` | `DiagramElementInfo.getKernel()`

Methods in biouml.workbench.diagram with parameters of type Base
`protected void` | `DiagramDocument.saveKernel(Base de)`

Overview | Package | Class | Use | Tree | Deprecated | Help
PREV NEXT | FRAMES NO FRAMES

Copyright © 2001-2003 Biosof.Ru. All Rights Reserved.