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/*
* ----------------------------------------------------------------------------
* This file is part of JSBML. Please visit
* for the latest version of JSBML and more information about SBML.
*
* Copyright (C) 2009-2017 jointly by the following organizations:
* 1. The University of Tuebingen, Germany
* 2. EMBL European Bioinformatics Institute (EBML-EBI), Hinxton, UK
* 3. The California Institute of Technology, Pasadena, CA, USA
* 4. The University of California, San Diego, La Jolla, CA, USA
* 5. The Babraham Institute, Cambridge, UK
*
* This library is free software; you can redistribute it and/or modify it
* under the terms of the GNU Lesser General Public License as published by
* the Free Software Foundation. A copy of the license agreement is provided
* in the file named "LICENSE.txt" included with this software distribution
* and also available online as .
* ----------------------------------------------------------------------------
*/
package org.sbml.jsbml.ext.layout;
import java.text.MessageFormat;
import javax.swing.tree.TreeNode;
import org.sbml.jsbml.AbstractSBase;
import org.sbml.jsbml.ListOf;
/**
* The {@link Curve} class describes how to connect elements in a diagram defined with
* the use of the {@link Layout} package. A curve is fully specified by a mandatory
* listOfCurveSegments element and is used in four places in the {@link Layout}
* package: {@link SpeciesReferenceGlyph}, {@link ReactionGlyph},
* {@link ReferenceGlyph}, and {@link GeneralGlyph}.
*
* @author Nicolas Rodriguez
* @author Andreas Dräger
* @since 1.0
*/
public class Curve extends AbstractSBase implements ICurve {
/**
* Generated serial version identifier.
*/
private static final long serialVersionUID = -5435135643993920570L;
/**
*
*/
ListOf listOfCurveSegments;
/**
*
*/
public Curve() {
super();
initDefaults();
}
/**
* @param curve
*
*/
public Curve(Curve curve) {
super(curve);
if (curve.isSetListOfCurveSegments()) {
setListOfCurveSegments(curve.getListOfCurveSegments().clone());
}
}
/**
*
* @param level
* @param version
*/
public Curve(int level, int version) {
super(level, version);
initDefaults();
}
/* (non-Javadoc)
* @see org.sbml.jsbml.ext.layout.ICurve#addCurveSegment(org.sbml.jsbml.ext.layout.CurveSegment)
*/
@Override
public boolean addCurveSegment(CurveSegment curveSegment) {
return getListOfCurveSegments().add(curveSegment);
}
/* (non-Javadoc)
* @see org.sbml.jsbml.ext.layout.ICurve#addCurveSegment(int, org.sbml.jsbml.ext.layout.CurveSegment)
*/
@Override
public void addCurveSegment(int index, CurveSegment element) {
getListOfCurveSegments().add(index, element);
}
/* (non-Javadoc)
* @see org.sbml.jsbml.AbstractSBase#clone()
*/
@Override
public Curve clone() {
return new Curve(this);
}
/**
* Creates a new {@link LineSegment} instance, adds it to this {@link Curve} and returns it.
*
* @return the new {@link LineSegment} instance
*/
public LineSegment createLineSegment() {
LineSegment cs = new LineSegment(getLevel(), getVersion());
addCurveSegment(cs);
return cs;
}
/**
*
* @param start
* @param end
* @return
*/
public LineSegment createLineSegment(Point start, Point end) {
LineSegment cs = createLineSegment();
cs.setStart(start);
cs.setEnd(end);
return cs;
}
/* (non-Javadoc)
* @see org.sbml.jsbml.ext.layout.ICurve#createCubicBezier()
*/
@Override
public CubicBezier createCubicBezier() {
CubicBezier cs = new CubicBezier(getLevel(), getVersion());
addCurveSegment(cs);
return cs;
}
/**
*
* @param start
* @param basePoint1
* @param basePoint2
* @param end
* @return
*/
public CubicBezier createCubicBezier(Point start, Point basePoint1, Point basePoint2, Point end) {
CubicBezier cs = createCubicBezier();
cs.setStart(start);
cs.setBasePoint1(basePoint1);
cs.setBasePoint2(basePoint2);
cs.setEnd(end);
return cs;
}
/* (non-Javadoc)
* @see org.sbml.jsbml.AbstractNamedSBase#equals(java.lang.Object)
*/
@Override
public boolean equals(Object object) {
boolean equals = super.equals(object);
if (equals) {
Curve curve = (Curve) object;
equals &= curve.isSetListOfCurveSegments() == isSetListOfCurveSegments();
if (equals && isSetListOfCurveSegments()) {
equals &= curve.getListOfCurveSegments().equals(getListOfCurveSegments());
}
}
return equals;
}
/* (non-Javadoc)
* @see org.sbml.jsbml.AbstractSBase#getChildAt(int)
*/
@Override
public TreeNode getChildAt(int index) {
if (index < 0) {
throw new IndexOutOfBoundsException(Integer.toString(index));
}
int count = super.getChildCount(), pos = 0;
if (index < count) {
return super.getChildAt(index);
} else {
index -= count;
}
if (isSetListOfCurveSegments()) {
if (pos == index) {
return getListOfCurveSegments();
}
pos++;
}
throw new IndexOutOfBoundsException(MessageFormat.format(
resourceBundle.getString("IndexExceedsBoundsException"),
index, Math.min(pos, 0)));
}
/* (non-Javadoc)
* @see org.sbml.jsbml.AbstractSBase#getChildCount()
*/
@Override
public int getChildCount() {
int count = super.getChildCount();
if (isSetListOfCurveSegments()) {
count++;
}
return count;
}
/* (non-Javadoc)
* @see org.sbml.jsbml.ext.layout.ICurve#getCurveSegment(int)
*/
@Override
public CurveSegment getCurveSegment(int n) {
return getListOfCurveSegments().get(n);
}
/* (non-Javadoc)
* @see org.sbml.jsbml.ext.layout.ICurve#getCurveSegmentCount()
*/
@Override
public int getCurveSegmentCount() {
return isSetListOfCurveSegments() ? getListOfCurveSegments().size() : 0;
}
/* (non-Javadoc)
* @see org.sbml.jsbml.ext.layout.ICurve#getListOfCurveSegments()
*/
@Override
public ListOf getListOfCurveSegments() {
if (listOfCurveSegments == null) {
listOfCurveSegments = new ListOf(getLevel(), getVersion());
listOfCurveSegments.setPackageVersion(-1);
// changing the ListOf package name from 'core' to 'layout'
listOfCurveSegments.setPackageName(null);
listOfCurveSegments.setPackageName(LayoutConstants.shortLabel);
listOfCurveSegments.setSBaseListType(ListOf.Type.other);
listOfCurveSegments.setOtherListName(LayoutConstants.listOfCurveSegments);
registerChild(listOfCurveSegments);
}
return listOfCurveSegments;
}
/* (non-Javadoc)
* @see org.sbml.jsbml.AbstractSBase#hashCode()
*/
@Override
public int hashCode() {
final int prime = 929;
int hashCode = super.hashCode();
if (isSetListOfCurveSegments()) {
hashCode += prime * getListOfCurveSegments().hashCode();
}
return hashCode;
}
/**
*
*/
private void initDefaults() {
setPackageVersion(-1);
packageName = LayoutConstants.shortLabel;
}
/* (non-Javadoc)
* @see org.sbml.jsbml.NamedSBase#isIdMandatory()
*/
@Override
public boolean isIdMandatory() {
return false;
}
/* (non-Javadoc)
* @see org.sbml.jsbml.ext.layout.ICurve#isSetListOfCurveSegments()
*/
@Override
public boolean isSetListOfCurveSegments() {
return (listOfCurveSegments != null) && (listOfCurveSegments.size() > 0);
}
/* (non-Javadoc)
* @see org.sbml.jsbml.ext.layout.ICurve#removeCurveSegment(org.sbml.jsbml.ext.layout.CurveSegment)
*/
@Override
public boolean removeCurveSegment(CurveSegment cs) {
if (!isSetListOfCurveSegments()) {
throw new IndexOutOfBoundsException(Integer.toString(0));
}
return getListOfCurveSegments().remove(cs);
}
/**
*
* @param i
* @return
*/
public CurveSegment removeCurveSegment(int i) {
if (!isSetListOfCurveSegments()) {
throw new IndexOutOfBoundsException(Integer.toString(i));
}
return getListOfCurveSegments().remove(i);
}
/* (non-Javadoc)
* @see org.sbml.jsbml.ext.layout.ICurve#setListOfCurveSegments(org.sbml.jsbml.ListOf)
*/
@Override
public void setListOfCurveSegments(ListOf listOfCurveSegments) {
unsetListOfCurveSegments();
this.listOfCurveSegments = listOfCurveSegments;
if (this.listOfCurveSegments != null) {
listOfCurveSegments.setPackageVersion(-1);
// changing the ListOf package name from 'core' to 'layout'
listOfCurveSegments.setPackageName(null);
listOfCurveSegments.setPackageName(LayoutConstants.shortLabel);
listOfCurveSegments.setSBaseListType(ListOf.Type.other);
listOfCurveSegments.setOtherListName(LayoutConstants.listOfCurveSegments);
}
registerChild(this.listOfCurveSegments);
}
/* (non-Javadoc)
* @see org.sbml.jsbml.ext.layout.ICurve#unsetListOfCurveSegments()
*/
@Override
public boolean unsetListOfCurveSegments() {
if (listOfCurveSegments != null) {
ListOf oldListOfCurveSegments = listOfCurveSegments;
listOfCurveSegments = null;
oldListOfCurveSegments.fireNodeRemovedEvent();
return true;
}
return false;
}
}
