Hello,
I am a newbie trying to integrate Jmol into an application, I tried using the
method stated onJmol wiki which is the Integration.java
and i can't seem to load any model files (.ent etc) and all i have is a black
screen.Is there any way for me to open a protein file or a clearer method of
intergrating Jmol onto my stand-available?
Here's a sample of my code. I'm not sure what is
wrong.-------------------------------------------------------------------------------------------------------package
org.jmol;
import java.awt.*;import javax.swing.*;import java.awt.BorderLayout;import
java.awt.Container;import java.awt.Dimension;import java.awt.Graphics;import
java.awt.Rectangle;import java.awt.event.WindowAdapter;import
java.awt.event.WindowEvent;
import javax.swing.JFrame;import javax.swing.JPanel;
import org.jmol.adapter.smarter.SmarterJmolAdapter;import
org.jmol.api.JmolViewer;import org.jmol.util.Logger;import
org.jmol.api.JmolCallbackListener;
public class Integration extends JFrame { /* * Demonstrates
a simple way to include an optional console along with the applet. *
*/ public static void main(String[] argv) { JFrame frame =
new JFrame("Integration"); frame.addWindowListener(new
ApplicationCloser()); frame.setSize(1443,873);
Container contentPane = frame.getContentPane(); JmolPanel jmolPanel =
new JmolPanel(); jmolPanel.setPreferredSize(new Dimension(200, 200));
// main panel -- Jmol panel on top
JPanel panel = new JPanel(); panel.setLayout(new
BorderLayout()); panel.add(jmolPanel);
// main panel -- console panel on bottom
JPanel panel2 = new JPanel(); panel2.setLayout(new
BorderLayout()); panel2.setPreferredSize(new Dimension(400, 100));
JTabbedPane tab = new JTabbedPane(); panel2.add(tab,
BorderLayout.CENTER); JButton button = new JButton("1");
tab.add("Tab 1", button); button = new JButton("2");
tab.add("Tab 2", button);
panel.add("South", panel2);
contentPane.add(panel); frame.setVisible(true);
// sample start-up script String strError =
jmolPanel.viewer.openFile("D:\\project1\\Testing 2\\caffeine.xyz");
//Viewer String view1 = viewer.openStringInline(strXyzHOH);
System.out.println("hello1"); System.out.println("strError is
\""+strError+"\""); System.out.println("viewer is
\""+jmolPanel.viewer+"\""); System.out.println("hello2");
if (strError == null) System.out.println("ERROR"); else
Logger.error("oh no"); } final static String
strXyzHOH = "3\n" + "water\n" + "O 0.0 0.0 0.0\n"
+ "H 0.76923955 -0.59357141 0.0\n" + "H -0.76923955
-0.59357141 0.0\n"; static class ApplicationCloser extends
WindowAdapter { @Override public void
windowClosing(WindowEvent e) { System.exit(0); }
} static class JmolPanel extends JPanel {
JmolViewer viewer;
private final Dimension currentSize = new Dimension();
private final Rectangle rectClip = new Rectangle(); // ignored by Jmol
JmolPanel() { viewer =
JmolViewer.allocateViewer(this,new
SmarterJmolAdapter(),null,null,null,null,null); }
@Override public void paint(Graphics g) {
getSize(currentSize); g.getClipBounds(rectClip);
viewer.renderScreenImage(g, currentSize, rectClip);
}
}}---------------------------------------------------------------------------------
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