/* VARNA is a tool for the automated drawing, visualization and annotation of the secondary structure of RNA, designed as a companion software for web servers and databases. Copyright (C) 2008 Kevin Darty, Alain Denise and Yann Ponty. electronic mail : Yann.Ponty@lri.fr paper mail : LRI, bat 490 Université Paris-Sud 91405 Orsay Cedex France This file is part of VARNA version 3.1. VARNA version 3.1 is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version. VARNA version 3.1 is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details. You should have received a copy of the GNU General Public License along with VARNA version 3.1. If not, see http://www.gnu.org/licenses. */ package fr.orsay.lri.varna.models.rna; import java.awt.Color; import java.io.Serializable; import java.util.ArrayList; import java.util.Random; import javax.xml.transform.sax.TransformerHandler; import org.xml.sax.SAXException; import org.xml.sax.helpers.AttributesImpl; import fr.orsay.lri.varna.exceptions.ExceptionModeleStyleBaseSyntaxError; import fr.orsay.lri.varna.exceptions.ExceptionParameterError; import fr.orsay.lri.varna.models.VARNAConfig; import fr.orsay.lri.varna.utils.XMLUtils; public class ModeleBPStyle implements Serializable { /** * */ private static final long serialVersionUID = 3006493290669550139L; /** * */ private boolean _isCustomColored = false; private Color _color = VARNAConfig.DEFAULT_BOND_COLOR; private double _thickness = -1.0; private double _bent = 0.0; public static String XML_ELEMENT_NAME = "BPstyle"; public static String XML_VAR_CUSTOM_STYLED_NAME = "custom"; public static String XML_VAR_COLOR_NAME = "color"; public static String XML_VAR_THICKNESS_NAME = "thickness"; public static String XML_VAR_BENT_NAME = "bent"; public void toXML(TransformerHandler hd) throws SAXException { AttributesImpl atts = new AttributesImpl(); atts.addAttribute("","",XML_VAR_CUSTOM_STYLED_NAME,"CDATA",""+_isCustomColored); atts.addAttribute("","",XML_VAR_COLOR_NAME,"CDATA",XMLUtils.toHTMLNotation(_color)); atts.addAttribute("","",XML_VAR_THICKNESS_NAME,"CDATA",""+_thickness); atts.addAttribute("","",XML_VAR_BENT_NAME,"CDATA",""+_bent); hd.startElement("","",XML_ELEMENT_NAME,atts); hd.endElement("","",XML_ELEMENT_NAME); } public double getBent() { return _bent; } public boolean isBent() { return (_bent!=0.0); } public void setBent(double b) { _bent = b; } public ModeleBPStyle() { } public void setCustomColor(Color c) { _isCustomColored = true; _color = c; } public void useDefaultColor() { _isCustomColored = false; } public boolean isCustomColored() { return _isCustomColored; } public Color getCustomColor() { return _color; } /** * Returns the current custom color if such a color is defined to be used * (through setCustomColor), or returns the default color. * * @param def * - The default color is no custom color is defined * @return The color to be used to draw this base-pair */ public Color getColor(Color def) { if (isCustomColored()) { return _color; } else { return def; } } public double getThickness(double def) { if (_thickness > 0) return _thickness; else return def; } public void setThickness(double thickness) { _thickness = thickness; } }