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org.bdgp.apps.dagedit.datamodel
Class Term  

java.lang.Object
  org.bdgp.apps.dagedit.datamodel.Term

All Implemented Interfaces:

java.lang.Cloneable, java.io.Serializable, javax.swing.undo.StateEditable

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public class Term

extends java.lang.Object

implements javax.swing.undo.StateEditable, java.lang.Cloneable, java.io.Serializable

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Field Summary
private static int	autoID
protected  java.util.Vector	categories
protected  java.util.Vector	children
protected  java.lang.String	comment
protected  java.util.Vector	danglingParents
private  boolean	debug
protected  java.lang.String	definition
protected  java.util.Vector	defReferences
protected  int	depth
protected  java.lang.String	id
private static int	idgen
protected  java.lang.String	idPrefix
private  int	intid
protected  java.util.Vector	parents
protected  int	productCount
protected  java.util.Vector	references
protected  boolean	root
protected  java.util.Vector	synonyms
protected  java.lang.String	term

 

Fields inherited from interface javax.swing.undo.StateEditable

RCSID

 

Constructor Summary

Term(java.lang.String term)

Term(java.lang.String term, java.lang.String id)

Term(java.lang.String term, java.lang.String id, boolean isRoot)

 

Method Summary
void	addCategory(TermCategory category)
void	addChild(TermRelationship relation)
void	addChild(Term child, TermRelationshipType type)
void	addDanglingParent(DanglingRelationship relation)
void	addDbxref(Dbxref ref)
void	addDefDbxref(Dbxref ref)
void	addParent(TermRelationship relation)
void	addParent(Term parent, TermRelationshipType type)
void	addSynonym(Synonym synonym)
boolean	belongsToCategory(TermCategory category)
java.lang.Object	clone()           This method may be called to create a new copy of the Object.
static Term	cloneParentTree(Term term)           Creates a clone of all the nodes down to term.
static Term	cloneSubtree(Term in)
int	compareTo(java.lang.Object in)
boolean	equals(Term other)
static java.lang.String	formatID(java.lang.String prefix, int id, int length)
static java.lang.String	formatID(java.lang.String prefix, java.lang.String idStr, int length)
java.util.Enumeration	getAllAncestors()
java.util.Enumeration	getAllAncestors(boolean includeSelf)
java.util.Hashtable	getAllAncestorsHash()
java.util.Hashtable	getAllAncestorsHash(boolean includeSelf)
java.util.Enumeration	getAllDescendants()
java.util.Enumeration	getAllDescendants(boolean includeSelf)
java.util.Hashtable	getAllDescendantsHash()
java.util.Hashtable	getAllDescendantsHash(boolean includeSelf)
java.util.Vector	getCategories()
java.util.Vector	getChildren()
java.lang.String	getComment()
java.util.Vector	getDanglingParents()
java.util.Vector	getDbxrefs()
java.util.Vector	getDefDbxrefs()
java.lang.String	getDefinition()
java.lang.String	getID()
java.lang.String	getIDPrefix()
java.lang.String	getIDSuffix()
java.util.Vector	getParents()
javax.swing.tree.TreePath[]	getPaths()
java.util.Vector	getPathsAsVector()
int	getProductCount()
java.util.Vector	getRelationshipsForChild(Term in)
java.util.Vector	getRelationshipsToParent(Term in)
Term	getRoot()
java.util.Vector	getSynonyms()
java.lang.String	getTerm()
private static void	getUniqueChildNodesHash(java.util.Hashtable hash, Term term)
private static void	getUniqueParentNodesHash(java.util.Hashtable hash, Term term)
boolean	hasAncestor(Term term)
private  boolean	hasAncestor(Term term, java.util.HashSet lookedAt)
int	hashCode()           Get a value that represents this Object, as uniquely as possible within the confines of an int.
boolean	isNonTriviallyObsolete()
private  boolean	isNonTriviallyObsolete(java.util.Hashtable lookedAt)
boolean	isObsolete()
boolean	isRoot()
void	removeAllChildren()
void	removeAllParents()
void	removeCategory(TermCategory category)
void	removeChild(Term child)
void	removeChild(TermRelationship relation)
void	removeDanglingParent(DanglingRelationship relation)
void	removeParent(Term parent)
void	removeParent(TermRelationship relation)
void	restoreState(java.util.Hashtable in)           Performs an edit action, taking any editable state information from the specified hash table.
void	setCategories(java.util.Vector categories)
void	setChildren(java.util.Vector children)
void	setComment(java.lang.String comment)
void	setDbxrefs(java.util.Vector refs)
void	setDefDbxrefs(java.util.Vector refs)
void	setDefinition(java.lang.String definition)
void	setID(java.lang.String id)
void	setID(java.lang.String prefix, java.lang.String id)
void	setIDPrefix(java.lang.String idPrefix)
void	setIDSuffix(java.lang.String id)
private  void	setIntID(int in)
void	setParents(java.util.Vector parents)
void	setProductCount(int in)
void	setRoot(boolean root)
void	setSynonyms(java.util.Vector synonyms)
void	setTerm(java.lang.String term)
void	storeState(java.util.Hashtable in)           Stores any editable state information into the specified hash table.
java.lang.String	toString()           Convert this Object to a human-readable String.

 

Methods inherited from class java.lang.Object

equals, finalize, getClass, notify, notifyAll, wait, wait, wait

 

Field Detail

autoID

private static int autoID

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term

protected java.lang.String term

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definition

protected java.lang.String definition

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comment

protected java.lang.String comment

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id

protected java.lang.String id

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idPrefix

protected java.lang.String idPrefix

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root

protected boolean root

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children

protected java.util.Vector children

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parents

protected java.util.Vector parents

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danglingParents

protected java.util.Vector danglingParents

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synonyms

protected java.util.Vector synonyms

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references

protected java.util.Vector references

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defReferences

protected java.util.Vector defReferences

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categories

protected java.util.Vector categories

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depth

protected int depth

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productCount

protected int productCount

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intid

private int intid

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idgen

private static int idgen

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debug

private boolean debug

Constructor Detail

Term

public Term(java.lang.String term)

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Term

public Term(java.lang.String term,
            java.lang.String id)

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Term

public Term(java.lang.String term,
            java.lang.String id,
            boolean isRoot)

Method Detail

addCategory

public void addCategory(TermCategory category)

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removeCategory

public void removeCategory(TermCategory category)

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belongsToCategory

public boolean belongsToCategory(TermCategory category)

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getCategories

public java.util.Vector getCategories()

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setCategories

public void setCategories(java.util.Vector categories)

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setRoot

public void setRoot(boolean root)

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isRoot

public boolean isRoot()

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getComment

public java.lang.String getComment()

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setComment

public void setComment(java.lang.String comment)

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formatID

public static java.lang.String formatID(java.lang.String prefix,
                                        int id,
                                        int length)

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formatID

public static java.lang.String formatID(java.lang.String prefix,
                                        java.lang.String idStr,
                                        int length)

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isObsolete

public boolean isObsolete()

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isNonTriviallyObsolete

public boolean isNonTriviallyObsolete()

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isNonTriviallyObsolete

private boolean isNonTriviallyObsolete(java.util.Hashtable lookedAt)

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getPaths

public javax.swing.tree.TreePath[] getPaths()

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getPathsAsVector

public java.util.Vector getPathsAsVector()

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getRelationshipsToParent

public java.util.Vector getRelationshipsToParent(Term in)

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getRelationshipsForChild

public java.util.Vector getRelationshipsForChild(Term in)

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toString

public java.lang.String toString()

Description copied from class: java.lang.Object

Convert this Object to a human-readable String. There are no limits placed on how long this String should be or what it should contain. We suggest you make it as intuitive as possible to be able to place it into System.out.println() 55 and such.

It is typical, but not required, to ensure that this method never completes abruptly with a java.lang.RuntimeException.

This method will be called when performing string concatenation with this object. If the result is null, string concatenation will instead use "null".

The default implementation returns getClass().getName() + "@" + Integer.toHexString(hashCode()).

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getProductCount

public int getProductCount()

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setProductCount

public void setProductCount(int in)

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equals

public boolean equals(Term other)

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hashCode

public int hashCode()

Description copied from class: java.lang.Object

Get a value that represents this Object, as uniquely as possible within the confines of an int.

There are some requirements on this method which subclasses must follow:

• Semantic equality implies identical hashcodes. In other words, if a.equals(b) is true, then a.hashCode() == b.hashCode() must be as well. However, the reverse is not necessarily true, and two objects may have the same hashcode without being equal.
• It must be consistent. Whichever value o.hashCode() returns on the first invocation must be the value returned on all later invocations as long as the object exists. Notice, however, that the result of hashCode may change between separate executions of a Virtual Machine, because it is not invoked on the same object.

Notice that since hashCode is used in java.util.Hashtable and other hashing classes, a poor implementation will degrade the performance of hashing (so don't blindly implement it as returning a constant!). Also, if calculating the hash is time-consuming, a class may consider caching the results.

The default implementation returns System.identityHashCode(this)

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getTerm

public java.lang.String getTerm()

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setTerm

public void setTerm(java.lang.String term)

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getDefinition

public java.lang.String getDefinition()

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setDefinition

public void setDefinition(java.lang.String definition)

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getIDPrefix

public java.lang.String getIDPrefix()

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setIDPrefix

public void setIDPrefix(java.lang.String idPrefix)

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getID

public java.lang.String getID()

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setID

public void setID(java.lang.String prefix,
                  java.lang.String id)

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setID

public void setID(java.lang.String id)

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getIDSuffix

public java.lang.String getIDSuffix()

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setIDSuffix

public void setIDSuffix(java.lang.String id)

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getChildren

public java.util.Vector getChildren()

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setChildren

public void setChildren(java.util.Vector children)

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setParents

public void setParents(java.util.Vector parents)

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addChild

public void addChild(Term child,
                     TermRelationshipType type)

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addChild

public void addChild(TermRelationship relation)

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removeChild

public void removeChild(Term child)

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removeChild

public void removeChild(TermRelationship relation)

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removeParent

public void removeParent(Term parent)

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removeParent

public void removeParent(TermRelationship relation)

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addParent

public void addParent(Term parent,
                      TermRelationshipType type)

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addParent

public void addParent(TermRelationship relation)

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getParents

public java.util.Vector getParents()

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removeAllParents

public void removeAllParents()

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addDanglingParent

public void addDanglingParent(DanglingRelationship relation)

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removeDanglingParent

public void removeDanglingParent(DanglingRelationship relation)

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getDanglingParents

public java.util.Vector getDanglingParents()

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removeAllChildren

public void removeAllChildren()

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getSynonyms

public java.util.Vector getSynonyms()

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addSynonym

public void addSynonym(Synonym synonym)

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setSynonyms

public void setSynonyms(java.util.Vector synonyms)

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getDbxrefs

public java.util.Vector getDbxrefs()

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addDbxref

public void addDbxref(Dbxref ref)

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setDbxrefs

public void setDbxrefs(java.util.Vector refs)

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getDefDbxrefs

public java.util.Vector getDefDbxrefs()

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addDefDbxref

public void addDefDbxref(Dbxref ref)

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setDefDbxrefs

public void setDefDbxrefs(java.util.Vector refs)

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hasAncestor

public boolean hasAncestor(Term term)

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hasAncestor

private boolean hasAncestor(Term term,
                            java.util.HashSet lookedAt)

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storeState

public void storeState(java.util.Hashtable in)

Description copied from interface: javax.swing.undo.StateEditable

Stores any editable state information into the specified hash table.

Specified by:

storeState in interface javax.swing.undo.StateEditable

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setIntID

private void setIntID(int in)

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clone

public java.lang.Object clone()

Description copied from class: java.lang.Object

This method may be called to create a new copy of the Object. The typical behavior is as follows:

• o == o.clone() is false
• o.getClass() == o.clone().getClass() is true
• o.equals(o) is true

However, these are not strict requirements, and may be violated if necessary. Of the three requirements, the last is the most commonly violated, particularly if the subclass does not override Object.equals(Object)>Object.equals(Object) 55 .

If the Object you call clone() on does not implement java.lang.Cloneable (which is a placeholder interface), then a CloneNotSupportedException is thrown. Notice that Object does not implement Cloneable; this method exists as a convenience for subclasses that do.

Object's implementation of clone allocates space for the new Object using the correct class, without calling any constructors, and then fills in all of the new field values with the old field values. Thus, it is a shallow copy. However, subclasses are permitted to make a deep copy.

All array types implement Cloneable, and override this method as follows (it should never fail):

 public Object clone()
 {
   try
     {
       super.clone();
     }
   catch (CloneNotSupportedException e)
     {
       throw new InternalError(e.getMessage());
     }
 }
 

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restoreState

public void restoreState(java.util.Hashtable in)

Description copied from interface: javax.swing.undo.StateEditable

Performs an edit action, taking any editable state information from the specified hash table.

Note to implementors of this interface: To increase efficiency, the StateEdit class StateEdit.removeRedundantState()>StateEdit.removeRedundantState() 55 removes redundant state information. Therefore, implementations of this interface must be prepared for the case where certain keys were stored into the table by StateEditable.storeState(java.util.Hashtable)>StateEditable.storeState(java.util.Hashtable) 55 , but are not present anymore when the restoreState method gets called.

Specified by:

restoreState in interface javax.swing.undo.StateEditable

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getRoot

public Term getRoot()

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getAllDescendants

public java.util.Enumeration getAllDescendants()

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getAllDescendants

public java.util.Enumeration getAllDescendants(boolean includeSelf)

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getUniqueChildNodesHash

private static void getUniqueChildNodesHash(java.util.Hashtable hash,
                                            Term term)

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getAllDescendantsHash

public java.util.Hashtable getAllDescendantsHash()

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getAllDescendantsHash

public java.util.Hashtable getAllDescendantsHash(boolean includeSelf)

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getAllAncestors

public java.util.Enumeration getAllAncestors()

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getAllAncestors

public java.util.Enumeration getAllAncestors(boolean includeSelf)

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getUniqueParentNodesHash

private static void getUniqueParentNodesHash(java.util.Hashtable hash,
                                             Term term)

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getAllAncestorsHash

public java.util.Hashtable getAllAncestorsHash()

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getAllAncestorsHash

public java.util.Hashtable getAllAncestorsHash(boolean includeSelf)

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cloneParentTree

public static Term cloneParentTree(Term term)

Creates a clone of all the nodes down to term. The leaves of the cloned tree are term, NOT a clone of term. This means that even though the cloned parents of term refer to term, term does not contain a reference to those parents

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cloneSubtree

public static Term cloneSubtree(Term in)

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compareTo

public int compareTo(java.lang.Object in)

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Overview  Package   Class  Use  Deprecated  Index
Home >> All >> org >> bdgp >> apps >> dagedit >> [ datamodel overview ]	PREV CLASS  NEXT CLASS
SUMMARY:  JAVADOC |  SOURCE |  DOWNLOAD | NESTED | FIELD | CONSTR | METHOD	DETAIL: FIELD | CONSTR | METHOD

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