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//
// @file addRenderInformation.java
// @brief Adds render information to the given SBML file
// @author Frank Bergmann
//
// This file is part of libSBML. Please visit http://sbml.org for more
// information about SBML, and the latest version of libSBML.
//
import org.sbml.libsbml.ColorDefinition;
import org.sbml.libsbml.Ellipse;
import org.sbml.libsbml.GradientStop;
import org.sbml.libsbml.Layout;
import org.sbml.libsbml.LayoutModelPlugin;
import org.sbml.libsbml.LinearGradient;
import org.sbml.libsbml.LocalRenderInformation;
import org.sbml.libsbml.Model;
import org.sbml.libsbml.RelAbsVector;
import org.sbml.libsbml.RenderExtension;
import org.sbml.libsbml.RenderLayoutPlugin;
import org.sbml.libsbml.RenderListOfLayoutsPlugin;
import org.sbml.libsbml.SBMLDocument;
import org.sbml.libsbml.Style;
import org.sbml.libsbml.libsbml;
public class addRenderInformation {
public static void addRenderInformationToPlugin(RenderLayoutPlugin rPlugin) {
if (rPlugin == null) {
System.err.println("could not add render information!");
System.exit(4);
}
LocalRenderInformation rInfo = rPlugin.createLocalRenderInformation();
rInfo.setId("info");
rInfo.setName("Example Render Information");
rInfo.setProgramName("RenderInformation Examples");
rInfo.setProgramVersion("1.0");
// add some colors
ColorDefinition color = rInfo.createColorDefinition();
color.setId("black");
color.setColorValue("#000000");
color = rInfo.createColorDefinition();
color.setId("silver");
color.setColorValue("#c0c0c0");
color = rInfo.createColorDefinition();
color.setId("white");
color.setColorValue("#FFFFFF");
// add a linear gradient from black to white to silver
LinearGradient gradient = rInfo.createLinearGradientDefinition();
gradient.setId("simpleGradient");
gradient.setPoint1(new RelAbsVector(), new RelAbsVector());
gradient.setPoint2(new RelAbsVector(0, 100), new RelAbsVector(0, 100));
GradientStop stop = gradient.createGradientStop();
stop.setOffset(new RelAbsVector());
stop.setStopColor("white");
stop = gradient.createGradientStop();
stop.setOffset(new RelAbsVector(0, 100));
stop.setStopColor("silver");
// add a species style that represents them as ellipses with the
// gradient above
Style style = rInfo.createStyle("ellipseStyle");
style.getGroup().setFillColor("simpleGradient");
style.getGroup().setStroke("black");
style.getGroup().setStrokeWidth(2.0);
style.addType("SPECIESGLYPH");
Ellipse ellipse = style.getGroup().createEllipse();
ellipse.setCenter2D(new RelAbsVector(0, 50), new RelAbsVector(0, 50));
ellipse.setRadii(new RelAbsVector(0, 50), new RelAbsVector(0, 50));
}
public static void main(String[] args) {
if (args.length != 2) {
System.err
.println("usage: addRenderInformation <input file> <output file>");
System.err
.println(" Adds a render information object to the input file.");
System.exit(1);
}
String inputFile = args[0];
String outputFile = args[1];
SBMLDocument doc = libsbml.readSBMLFromFile(inputFile);
long numErrors = doc.getNumErrors();
if (numErrors > 0) {
System.err.println("Encountered errors while reading the file. ");
System.err
.println("Please correct the following errors and try again.");
doc.printErrors();
System.exit(2);
}
Model model = doc.getModel();
LayoutModelPlugin plugin = (LayoutModelPlugin) model
.getPlugin("layout");
if (plugin == null || plugin.getNumLayouts() == 0) {
System.err
.println("The loaded model contains no layout information, please add these first.");
System.exit(3);
}
RenderListOfLayoutsPlugin lolPlugin = (RenderListOfLayoutsPlugin) plugin
.getListOfLayouts().getPlugin("render");
if (lolPlugin != null
&& lolPlugin.getNumGlobalRenderInformationObjects() > 0) {
System.out
.println("The loaded model contains global Render information. ");
}
// add render information to the first layout
Layout layout = plugin.getLayout(0);
RenderLayoutPlugin rPlugin = (RenderLayoutPlugin) layout
.getPlugin("render");
if (rPlugin != null
&& rPlugin.getNumLocalRenderInformationObjects() > 0) {
System.out
.println("The loaded model contains local Render information. ");
} else {
String uri = (doc.getLevel() == 2 ? RenderExtension.getXmlnsL2()
: RenderExtension.getXmlnsL3V1V1());
// enable render package
doc.enablePackage(uri, "render", true);
doc.setPackageRequired("render", false);
rPlugin = (RenderLayoutPlugin) layout.getPlugin("render");
addRenderInformationToPlugin(rPlugin);
libsbml.writeSBMLToFile(doc, outputFile);
}
System.exit(0);
}
}
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