/*
Copyright (c) 2006, 2007, The Cytoscape Consortium (www.cytoscape.org)
The Cytoscape Consortium is:
- Institute for Systems Biology
- University of California San Diego
- Memorial Sloan-Kettering Cancer Center
- Institut Pasteur
- Agilent Technologies
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; either version 2.1 of the License, or
any later version.
This library 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. The software and
documentation provided hereunder is on an "as is" basis, and the
Institute for Systems Biology and the Whitehead Institute
have no obligations to provide maintenance, support,
updates, enhancements or modifications. In no event shall the
Institute for Systems Biology and the Whitehead Institute
be liable to any party for direct, indirect, special,
incidental or consequential damages, including lost profits, arising
out of the use of this software and its documentation, even if the
Institute for Systems Biology and the Whitehead Institute
have been advised of the possibility of such damage. See
the GNU Lesser General Public License for more details.
You should have received a copy of the GNU Lesser General Public License
along with this library; if not, write to the Free Software Foundation,
Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA.
*/
package org.bridgedb.cytoscape.internal.ui;
import org.bridgedb.cytoscape.internal.IDMapperClient;
import org.bridgedb.cytoscape.internal.IDMapperClientImpl;
import org.bridgedb.IDMapperException;
import org.cytoscape.util.swing.FileUtil;
import org.cytoscape.io.CyFileFilter;
import java.io.File;
import java.util.Collections;
import javax.swing.DefaultComboBoxModel;
import javax.swing.JOptionPane;
import org.cytoscape.util.swing.FileChooserFilter;
import org.cytoscape.util.swing.OpenBrowser;
/**
*
* @author gjj
*/
public class RDBIDMappingClientConfigDialog extends javax.swing.JDialog {
/**
*
*/
private static final long serialVersionUID = 9140043093001072657L;
private enum DBType {
PGDB("BridgeDb Derby Embeded (.bridge)");
DBType(String name) {
this.name = name;
}
String name;
public String toString() {
return name;
}
}
/** Creates new form RDBIDMappingClientConfig */
public RDBIDMappingClientConfigDialog(javax.swing.JDialog parent,
FileUtil fileUtil, OpenBrowser openBrowser, boolean modal) {
super(parent, modal);
this.fileUtil = fileUtil;
this.openBrowser = openBrowser;
initComponents();
}
// public RDBIDMappingClientConfigDialog(javax.swing.JDialog parent, boolean
// modal,
// IDMapperClient client) {
// super(parent, modal);
// initComponents();
// this.client = client;
// if (client!=null) {
// IDMapperRdb idMapper = (IDMapperRdb)client.getIDMapper();
// if (idMapper instanceof SimpleGdb) {
// //TODO: initialize
// }
// }
// }
/**
* This method is called from within the constructor to initialize the form.
* WARNING: Do NOT modify this code. The content of this method is always
* regenerated by the Form Editor.
*/
// <editor-fold defaultstate="collapsed"
// <editor-fold defaultstate="collapsed" desc="Generated Code">//GEN-BEGIN:initComponents
private void initComponents() {
java.awt.GridBagConstraints gridBagConstraints;
javax.swing.JPanel namePanel = new javax.swing.JPanel();
nameComboBox = new javax.swing.JComboBox();
infoButton = new javax.swing.JButton();
pgdbPanel = new javax.swing.JPanel();
pgdbTextField = new javax.swing.JTextField();
javax.swing.JButton pgdbButton = new javax.swing.JButton();
javax.swing.JPanel okPanel = new javax.swing.JPanel();
okButton = new javax.swing.JButton();
cancelButton = new javax.swing.JButton();
setDefaultCloseOperation(javax.swing.WindowConstants.DISPOSE_ON_CLOSE);
setTitle("RDB-based ID Mapping Resources Configuration");
getContentPane().setLayout(new java.awt.GridBagLayout());
namePanel.setBorder(javax.swing.BorderFactory.createTitledBorder("Relational Database Type"));
namePanel.setLayout(new java.awt.GridBagLayout());
nameComboBox.setModel(new DefaultComboBoxModel(DBType.values()));
gridBagConstraints = new java.awt.GridBagConstraints();
gridBagConstraints.gridx = 1;
gridBagConstraints.gridy = 0;
gridBagConstraints.fill = java.awt.GridBagConstraints.HORIZONTAL;
gridBagConstraints.anchor = java.awt.GridBagConstraints.LINE_START;
gridBagConstraints.weightx = 1.0;
gridBagConstraints.insets = new java.awt.Insets(5, 10, 5, 5);
namePanel.add(nameComboBox, gridBagConstraints);
infoButton.setText("Download");
infoButton.addActionListener(new java.awt.event.ActionListener() {
public void actionPerformed(java.awt.event.ActionEvent evt) {
infoButtonActionPerformed(evt);
}
});
namePanel.add(infoButton, new java.awt.GridBagConstraints());
gridBagConstraints = new java.awt.GridBagConstraints();
gridBagConstraints.gridx = 0;
gridBagConstraints.gridy = 0;
gridBagConstraints.fill = java.awt.GridBagConstraints.HORIZONTAL;
gridBagConstraints.weightx = 1.0;
gridBagConstraints.insets = new java.awt.Insets(0, 5, 0, 5);
getContentPane().add(namePanel, gridBagConstraints);
pgdbPanel.setBorder(javax.swing.BorderFactory.createTitledBorder("BridgeDb File (.bridge)"));
pgdbPanel.setLayout(new java.awt.GridBagLayout());
pgdbTextField.setPreferredSize(new java.awt.Dimension(250, 20));
gridBagConstraints = new java.awt.GridBagConstraints();
gridBagConstraints.gridx = 1;
gridBagConstraints.gridy = 0;
gridBagConstraints.fill = java.awt.GridBagConstraints.HORIZONTAL;
gridBagConstraints.weightx = 1.0;
gridBagConstraints.insets = new java.awt.Insets(5, 5, 5, 5);
pgdbPanel.add(pgdbTextField, gridBagConstraints);
pgdbButton.setText("Select");
pgdbButton.addActionListener(new java.awt.event.ActionListener() {
public void actionPerformed(java.awt.event.ActionEvent evt) {
pgdbButtonActionPerformed(evt);
}
});
pgdbPanel.add(pgdbButton, new java.awt.GridBagConstraints());
gridBagConstraints = new java.awt.GridBagConstraints();
gridBagConstraints.gridx = 0;
gridBagConstraints.gridy = 1;
gridBagConstraints.fill = java.awt.GridBagConstraints.HORIZONTAL;
gridBagConstraints.weightx = 1.0;
gridBagConstraints.insets = new java.awt.Insets(5, 5, 5, 5);
getContentPane().add(pgdbPanel, gridBagConstraints);
okPanel.setLayout(new javax.swing.BoxLayout(okPanel, javax.swing.BoxLayout.LINE_AXIS));
okButton.setText(" OK ");
okButton.setToolTipText("");
okButton.addActionListener(new java.awt.event.ActionListener() {
public void actionPerformed(java.awt.event.ActionEvent evt) {
okButtonActionPerformed(evt);
}
});
okPanel.add(okButton);
cancelButton.setText("Cancel");
cancelButton.addActionListener(new java.awt.event.ActionListener() {
public void actionPerformed(java.awt.event.ActionEvent evt) {
cancelButtonActionPerformed(evt);
}
});
okPanel.add(cancelButton);
gridBagConstraints = new java.awt.GridBagConstraints();
gridBagConstraints.gridx = 0;
gridBagConstraints.gridy = 3;
gridBagConstraints.anchor = java.awt.GridBagConstraints.LINE_END;
gridBagConstraints.weightx = 1.0;
gridBagConstraints.insets = new java.awt.Insets(5, 5, 5, 5);
getContentPane().add(okPanel, gridBagConstraints);
pack();
}// </editor-fold>//GEN-END:initComponents
private void infoButtonActionPerformed(java.awt.event.ActionEvent evt) {//GEN-FIRST:event_infoButtonActionPerformed
DBType type = (DBType) nameComboBox.getSelectedItem();
if (type == DBType.PGDB) {
openBrowser.openURL("http://bridgedb.org/data/gene_database/");
}
}//GEN-LAST:event_infoButtonActionPerformed
private void pgdbButtonActionPerformed(java.awt.event.ActionEvent evt) {// GEN-FIRST:event_pgdbButtonActionPerformed
FileChooserFilter fileChooserFilter = new FileChooserFilter(
"BridgeDb Derby file", new String[]{"bridge"});
File source = fileUtil.getFile(this, "Select a BridgeDb file", FileUtil.LOAD,
Collections.singleton(fileChooserFilter));
if (source==null) {
return;
}
pgdbTextField.setText(source.getPath());
}// GEN-LAST:event_pgdbButtonActionPerformed
private void cancelButtonActionPerformed(java.awt.event.ActionEvent evt) {// GEN-FIRST:event_cancelButtonActionPerformed
setVisible(false);
}// GEN-LAST:event_cancelButtonActionPerformed
private void okButtonActionPerformed(java.awt.event.ActionEvent evt) {// GEN-FIRST:event_okButtonActionPerformed
if (verifyInput()) {
cancelled = false;
setVisible(false);
}
}// GEN-LAST:event_okButtonActionPerformed
public IDMapperClient getIDMappingClient() throws ClassNotFoundException,
IDMapperException {
String[] strs = getSettings();
String connStr = strs[0];
String className = strs[1];
String displayName = strs[2];
return new IDMapperClientImpl.Builder(connStr, className).displayName(
displayName).build();
}
private String[] getSettings() {
String connString, className;
DBType type = (DBType) nameComboBox.getSelectedItem();
if (type == DBType.PGDB) {
String url = pgdbTextField.getText();
connString = "idmapper-pgdb:" + url;
className = "org.bridgedb.rdb.IDMapperRdb";
return new String[] { connString, className, url };
} else {
throw new java.lang.IllegalStateException();
}
}
private boolean verifyInput() {
DBType type = (DBType) nameComboBox.getSelectedItem();
if (type == DBType.PGDB) {
String strURL = pgdbTextField.getText();
if (strURL == null || strURL.length() == 0) {
JOptionPane.showMessageDialog(this,
"Error: Please specify the URL of the input file");
return false;
}
File file = new File(strURL);
if (!file.exists()) {
JOptionPane.showMessageDialog(this,
"Error: the input file does not exist");
return false;
}
}
return true;
}
public boolean isCancelled() {
return cancelled;
}
private final FileUtil fileUtil;
private final OpenBrowser openBrowser;
private boolean cancelled = true;
// private IDMapperClient client;
// Variables declaration - do not modify//GEN-BEGIN:variables
private javax.swing.JButton cancelButton;
private javax.swing.JButton infoButton;
private javax.swing.JComboBox nameComboBox;
private javax.swing.JButton okButton;
private javax.swing.JPanel pgdbPanel;
private javax.swing.JTextField pgdbTextField;
// End of variables declaration//GEN-END:variables
}