Package | Description |
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org.biopax.paxtools.controller |
This package contains various methods and algorithms for traversing and manipulating the model.
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org.biopax.paxtools.examples |
This package contains several examples that uses Paxtools to demonstrate basic functionality.
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org.biopax.paxtools.io |
This package contains classes that handle IO operations including reading and writing BioPAX from files and streams..
|
org.biopax.paxtools.io.jena |
This package contains a Jena bases reader/writer for reading BioPAX files.
|
Modifier and Type | Class and Description |
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class |
EditorMapImpl
This is the base adapter for all editor maps.
|
class |
SimpleEditorMap
Provides a simple editor map for a level with a given factory.
|
Modifier and Type | Field and Description |
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protected EditorMap |
Traverser.editorMap |
Modifier and Type | Method and Description |
---|---|
static EditorMap |
SimpleEditorMap.buildCustomEditorMap(BioPAXLevel level,
InputStream stream) |
Constructor and Description |
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AbstractTraverser(EditorMap editorMap,
Filter<PropertyEditor>... filters) |
Cloner(EditorMap map,
BioPAXFactory factory) |
Completer(EditorMap map) |
Fetcher(EditorMap editorMap,
Filter<PropertyEditor>... filters)
Constructor.
|
Integrator(EditorMap editorMap,
Model target,
Model... sources) |
Merger(EditorMap map) |
ShallowCopy(EditorMap map)
Deprecated.
use Level based constructor instead.
|
SimpleMerger(EditorMap map) |
SimpleMerger(EditorMap map,
Filter<BioPAXElement> mergeObjPropOf) |
Traverser(EditorMap editorMap,
Visitor visitor,
Filter<PropertyEditor>... filters)
The full constructor.
|
TraverserBilinked(EditorMap editorMap,
Visitor visitor,
PropertyFilterBilinked... filters)
Constructor.
|
Modifier and Type | Method and Description |
---|---|
static void |
Tutorial.merge(EditorMap editorMap,
Model srcModel2,
Model srcModel1) |
Modifier and Type | Field and Description |
---|---|
protected EditorMap |
BioPAXIOHandlerAdapter.editorMap |
Modifier and Type | Method and Description |
---|---|
EditorMap |
BioPAXIOHandlerAdapter.getEditorMap() |
EditorMap |
BioPAXIOHandler.getEditorMap() |
Modifier and Type | Method and Description |
---|---|
void |
BioPAXIOHandlerAdapter.setEditorMap(EditorMap editorMap) |
void |
BioPAXIOHandler.setEditorMap(EditorMap editorMap) |
Modifier and Type | Class and Description |
---|---|
class |
JenaEditorMap
This class is an editor map that uses Jena to read BioPAX OWL definition and creates property
editors for BioPAX interfaces.
|
Copyright © 2015 BioPAX. All rights reserved.