/*
Copyright @ 2003, The Institute for Genomic Research (TIGR).
All rights reserved.
*/

/***************************************************************************
 * Author:  Jerry Li
 * Name:  GenePixPanel (Version 1.0)
 * Date:  Created: 04/02/2003 and modified:  05/15/2003
 * Descp: the interface for GenePix output file as input for the ExpressConveter
 ***************************************************************************/

package org.tigr.microarray.converter;

import java.awt.GridBagLayout;
import java.awt.Dimension;
import java.awt.event.ActionListener;
import java.awt.event.ActionEvent;
import java.io.File;
import java.util.Vector;
import java.util.StringTokenizer;
import javax.swing.border.BevelBorder;
import javax.swing.event.ListSelectionListener;
import javax.swing.event.ListSelectionEvent;
import javax.swing.JCheckBox;
import javax.swing.JFileChooser;
import javax.swing.JLabel;
import javax.swing.JList;
import javax.swing.JPanel;
import javax.swing.JRadioButton;
import javax.swing.JSplitPane;
import javax.swing.JScrollPane;
import javax.swing.ListSelectionModel;

import org.tigr.util.io.IOUtil;
import org.tigr.util.awt.GBA;
import org.tigr.util.LongTextChanger;

public class GenePixPanel extends ConvertPanel {
  private JScrollPane gFilesSP;
  private JCheckBox keepAllCB;

  private boolean keepAll;
  private JList gFileList;

  public GenePixPanel(ExpressConverter ec) {
    super(ec);
    keepAll = false;
    createGUI();
  }

  /***************************************************************************
   * <b>Description: </b>
   *    removes a set of files from the selected list.
   ***************************************************************************/
  public void removeFileFromList(){
    int addrs[], i, indx;

    addrs = gFileList.getSelectedIndices();
    if(addrs.length > 0){
      for(i=0; i<addrs.length; i++){
        selectedFiles.remove(addrs[i]);
        outputFileNames.remove(addrs[i]);
      }
      gFileList.setListData(selectedFiles);
      gOutputFileList.setListData(outputFileNames);
      if(outputFileNames.size() > 0){
        gOutputFileList.setSelectedIndex(0);
      }
      gFileNumLB.setText(NUM_FILE + selectedFiles.size());
    }
  }

  /****************************************************************************
   * <b>Description: </b>
   *   set the interface to its original status.
   **************************************************************************/
   public void reset(){
    selectedFiles.removeAllElements();
    outputFileNames.removeAllElements();
    gFileNumLB.setText(NUM_FILE);

    gFileList.setListData(selectedFiles);
    gOutputFileList.setListData(outputFileNames);

    wantSort = true;
    keepAll = false;
    outputReady = false;

    sortCB.setSelected(wantSort);
    keepAllCB.setSelected(keepAll);
    parent.activateButton(outputReady, outputReady);
  }

  /***************************************************************************
   * <b>Description: </b>
   *    places the selected file names to both genepix and output file lists.
   **************************************************************************/
  public void setSelectedFiles(String[] newFiles){
    int num, i;
    String temp = new String("");

    num = newFiles.length;

    for(i=0; i<num; i++){
      if(!selectedFiles.contains(newFiles[i])){
        selectedFiles.add(newFiles[i]);
        outputFileNames.add(IOUtil.dropExtension(newFiles[i]) + "." + FILE_TYPE[outputType]);
      }
    }
    gFileList.setListData(selectedFiles);
    gOutputFileList.setListData(outputFileNames);
    gOutputFileList.setSelectedIndex(0);
    gFileNumLB.setText(NUM_FILE + selectedFiles.size());
  }

  /****************************************************************************
   * <b>Description: </b>
   *    alters the interface to meet the requirement for output file type.
   * <p><b>Parameter: </b>
   * <br> index -- the selected index of the combobox.
   ***************************************************************************/
  public void adjustGUI(int index){
    int numFiles;
    String tmpName = new String("");

    outputType = index;

    if(outputType == TAV_OUT){
      gOutputFileLB.setText(TAV_FILE);
      keepAllCB.setEnabled(true);
      this.activeIntensityWay(false);
    } else {
      gOutputFileLB.setText(MEV_FILE);
      keepAllCB.setEnabled(false);
      this.activeIntensityWay(true);
    }
    numFiles = outputFileNames.size();

    for(int i=0; i<numFiles; i++){
      tmpName = (String)outputFileNames.elementAt(i);
      tmpName = IOUtil.dropExtension(tmpName);
      tmpName += "." + FILE_TYPE[outputType];
      outputFileNames.setElementAt(tmpName, i);
    }
    validate();
  }

  /***************************************************************************
   * <b>Description: </b>
   *    changes the number of input and output files based on testing on the
   *    system to see if an exsiting file is to be overwritten.
   * <p><b>Paramters: </b>
   * <br> inFiles -- the input files.
   * <br> outFiles -- the output files.
   ***************************************************************************/
  public void changeFileList(Vector inFiles, Vector outFiles){
    selectedFiles = inFiles;
    outputFileNames = outFiles;
    gFileList.setListData(inFiles);
    gOutputFileList.setListData(outFiles);
    gFileNumLB.setText(NUM_FILE + selectedFiles.size());
  }

  public Vector getOutputFileNames() { return outputFileNames; }
  public Vector getSelectedFiles() { return selectedFiles; }
  public boolean isOutputReady() { return outputReady; }
  public boolean keepAllInformation() { return keepAll; }

  /*****************************************************************************
   * <b>Description: </b>
   *    create a GUI for program
   ****************************************************************************/
  protected void createGUI(){
    this.setLayout(new GridBagLayout());

    gInputFileLB = new JLabel("GenePix Files:");

    gFileList = new JList();
    gFileList.setBorder(gLow);
    actionHandler(gFileList);
    actionHandler(gOutputFileList);

    gFilesSP = new JScrollPane(gFileList);

    keepAllCB = new JCheckBox("Keep All Information in the GenePix Files.");
    keepAllCB.setToolTipText("Attach all anotation info at the end.");
    keepAllCB.setSelected(keepAll);
    keepAllCB.addActionListener(new ActionListener(){
      public void actionPerformed(ActionEvent ce){
        if(keepAllCB.isSelected()){
          keepAll = true;
        } else {
          keepAll = false;
        }
      }
    });

    gba.add(this, gFileSplitPane, 0, 0, 2, 1, 1, 1, GBA.B, GBA.C, 5, 5, 10, 5);
    gba.add(this, sortCB, 0, 1, 1, 1, 1, 0, GBA.H, GBA.C, 10, 15, 3, 5);
    gba.add(this, keepAllCB, 0, 2, 1, 1, 1, 0, GBA.H, GBA.C, 3, 15, 3, 5);
    gba.add(this, gIntenPanel, 1, 1, 1, 2, 1, 0, GBA.H, GBA.W, 10, 0, 3, 5);

    gba.add(gInputPL, gInputFileLB, 0, 0, 1, 1, 1, 0, GBA.H, GBA.C, 5, 10, 5, 2);
    gba.add(gInputPL, gFilesSP, 0, 1, 1, 1, 1, 1, GBA.B, GBA.C, 1, 2, 5, 2);
  }
}