Package de.unirostock.sems.bives.cellml.algorithm

Class CellMLDiffAnnotator

java.lang.Object

de.unirostock.sems.bives.algorithm.DiffAnnotator

de.unirostock.sems.bives.algorithm.general.DefaultDiffAnnotator

de.unirostock.sems.bives.cellml.algorithm.CellMLDiffAnnotator

public class CellMLDiffAnnotator
extends de.unirostock.sems.bives.algorithm.general.DefaultDiffAnnotator

Author:

Martin Scharm

Field Summary

Fields

Modifier and Type	Field	Description
static Pattern	creationDatePath	The XPATH to a machine readable annotation.
static Pattern	modificationDatePath	The XPATH to a machine readable annotation.

Constructor Summary

Constructors

Constructor	Description
CellMLDiffAnnotator()

Method Summary

Modifier and Type	Method	Description
de.unirostock.sems.comodi.Change	annotateDeletion(de.unirostock.sems.xmlutils.ds.TreeNode node, org.jdom2.Element diffNode, de.unirostock.sems.comodi.ChangeFactory changeFac)
de.unirostock.sems.comodi.Change	annotateInsertion(de.unirostock.sems.xmlutils.ds.TreeNode node, org.jdom2.Element diffNode, de.unirostock.sems.comodi.ChangeFactory changeFac)
de.unirostock.sems.comodi.Change	annotateMove(de.unirostock.sems.xmlutils.ds.TreeNode nodeA, de.unirostock.sems.xmlutils.ds.TreeNode nodeB, org.jdom2.Element diffNode, de.unirostock.sems.comodi.ChangeFactory changeFac, boolean permutation)
void	annotatePatch(String rootId, de.unirostock.sems.comodi.ChangeFactory changeFac)
de.unirostock.sems.comodi.Change	annotateUpdateAttribute(de.unirostock.sems.xmlutils.ds.TreeNode nodeA, de.unirostock.sems.xmlutils.ds.TreeNode nodeB, String attributeName, org.jdom2.Element diffNode, de.unirostock.sems.comodi.ChangeFactory changeFac)
de.unirostock.sems.comodi.Change	annotateUpdateText(de.unirostock.sems.xmlutils.ds.TextNode nodeA, de.unirostock.sems.xmlutils.ds.TextNode nodeB, org.jdom2.Element diffNode, de.unirostock.sems.comodi.ChangeFactory changeFac)

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Detail

creationDatePath

public static final Pattern creationDatePath

The XPATH to a machine readable annotation.

modificationDatePath

public static final Pattern modificationDatePath

The XPATH to a machine readable annotation.

Constructor Detail

CellMLDiffAnnotator

public CellMLDiffAnnotator()

Method Detail

annotateDeletion

public de.unirostock.sems.comodi.Change annotateDeletion(de.unirostock.sems.xmlutils.ds.TreeNode node,
                                                         org.jdom2.Element diffNode,
                                                         de.unirostock.sems.comodi.ChangeFactory changeFac)

Overrides:

annotateDeletion in class de.unirostock.sems.bives.algorithm.general.DefaultDiffAnnotator

annotateInsertion

public de.unirostock.sems.comodi.Change annotateInsertion(de.unirostock.sems.xmlutils.ds.TreeNode node,
                                                          org.jdom2.Element diffNode,
                                                          de.unirostock.sems.comodi.ChangeFactory changeFac)

Overrides:

annotateInsertion in class de.unirostock.sems.bives.algorithm.general.DefaultDiffAnnotator

annotateMove

public de.unirostock.sems.comodi.Change annotateMove(de.unirostock.sems.xmlutils.ds.TreeNode nodeA,
                                                     de.unirostock.sems.xmlutils.ds.TreeNode nodeB,
                                                     org.jdom2.Element diffNode,
                                                     de.unirostock.sems.comodi.ChangeFactory changeFac,
                                                     boolean permutation)

Overrides:

annotateMove in class de.unirostock.sems.bives.algorithm.general.DefaultDiffAnnotator

annotateUpdateAttribute

public de.unirostock.sems.comodi.Change annotateUpdateAttribute(de.unirostock.sems.xmlutils.ds.TreeNode nodeA,
                                                                de.unirostock.sems.xmlutils.ds.TreeNode nodeB,
                                                                String attributeName,
                                                                org.jdom2.Element diffNode,
                                                                de.unirostock.sems.comodi.ChangeFactory changeFac)

Overrides:

annotateUpdateAttribute in class de.unirostock.sems.bives.algorithm.general.DefaultDiffAnnotator

annotateUpdateText

public de.unirostock.sems.comodi.Change annotateUpdateText(de.unirostock.sems.xmlutils.ds.TextNode nodeA,
                                                           de.unirostock.sems.xmlutils.ds.TextNode nodeB,
                                                           org.jdom2.Element diffNode,
                                                           de.unirostock.sems.comodi.ChangeFactory changeFac)

Overrides:

annotateUpdateText in class de.unirostock.sems.bives.algorithm.general.DefaultDiffAnnotator

annotatePatch

public void annotatePatch(String rootId,
                          de.unirostock.sems.comodi.ChangeFactory changeFac)

Overrides:

annotatePatch in class de.unirostock.sems.bives.algorithm.general.DefaultDiffAnnotator