org.ginsim.core.annotation

Class Annotation

java.lang.Object

java.util.AbstractCollection<E>

java.util.AbstractList<E>

java.util.ArrayList<AnnotationLink>

org.ginsim.core.annotation.Annotation

All Implemented Interfaces:

Serializable, Cloneable, Iterable<AnnotationLink>, Collection<AnnotationLink>, List<AnnotationLink>, RandomAccess, ListReorderListener, XMLize

public class Annotation
extends ArrayList<AnnotationLink>
implements XMLize, ListReorderListener

Generic annotation: some free text and a list of urls.

Author:

Aurelien Naldi

See Also:

Serialized Form

Field Summary

Fields inherited from class java.util.AbstractList

modCount

Constructor Summary

Constructors

Constructor and Description
Annotation() create an empty annotation.

Method Summary

Modifier and Type	Method and Description
void	addLink(String s, Graph graph)
void	appendToComment(String comment) Add the string containing the comments to the end of the actual comments.
Object	clone()
boolean	containsLink(AnnotationLink al)
boolean	containsLink(String s)
void	copyFrom(Annotation other)
void	deleted(int[] sel)
void	delLink(String s, Graph graph)
String	getComment() return the String containing the comments.
String	getHTMLComment()
String	getLink(int index) get the vector of url
List<AnnotationLink>	getLinkList()
boolean	isEmpty()
void	openLink(int index)
void	reordered(int[] mapping)
void	setComment(String comment) Set the string containing the comments.
void	setLink(String s, int index, Graph graph)
void	toXML(XMLWriter out) write the XML representation of this object to a file

Methods inherited from class java.util.ArrayList

add, add, addAll, addAll, clear, contains, ensureCapacity, forEach, get, indexOf, iterator, lastIndexOf, listIterator, listIterator, remove, remove, removeAll, removeIf, removeRange, replaceAll, retainAll, set, size, sort, spliterator, subList, toArray, toArray, trimToSize

Methods inherited from class java.util.AbstractList

equals, hashCode

Methods inherited from class java.util.AbstractCollection

containsAll, toString

Methods inherited from class java.lang.Object

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

Methods inherited from interface java.util.List

containsAll, equals, hashCode

Methods inherited from interface java.util.Collection

parallelStream, stream

Constructor Detail

Annotation

public Annotation()

create an empty annotation.

Method Detail

getLinkList

public List<AnnotationLink> getLinkList()

getLink

public String getLink(int index)

get the vector of url

Returns:

the vector of String (url).

openLink

public void openLink(int index)

addLink

public void addLink(String s,
                    Graph graph)

delLink

public void delLink(String s,
                    Graph graph)

setLink

public void setLink(String s,
                    int index,
                    Graph graph)

containsLink

public boolean containsLink(AnnotationLink al)

containsLink

public boolean containsLink(String s)

getComment

public String getComment()

return the String containing the comments.

Returns:

a String

setComment

public void setComment(String comment)

Set the string containing the comments.

Parameters:

comment - the new comment

appendToComment

public void appendToComment(String comment)

Add the string containing the comments to the end of the actual comments.

Parameters:

comment - the new comment

toXML

public void toXML(XMLWriter out)
           throws IOException

Description copied from interface: XMLize

write the XML representation of this object to a file

Specified by:

toXML in interface XMLize

Throws:

IOException

clone

public Object clone()

Overrides:

clone in class ArrayList<AnnotationLink>

copyFrom

public void copyFrom(Annotation other)

isEmpty

public boolean isEmpty()

Specified by:

isEmpty in interface Collection<AnnotationLink>

Specified by:

isEmpty in interface List<AnnotationLink>

Overrides:

isEmpty in class ArrayList<AnnotationLink>

Returns:

true if the annotation is empty

getHTMLComment

public String getHTMLComment()

reordered

public void reordered(int[] mapping)

Specified by:

reordered in interface ListReorderListener

deleted

public void deleted(int[] sel)

Specified by:

deleted in interface ListReorderListener