/*
* The MIT License (MIT)
*
* Copyright (c) 2007-2015 Broad Institute
*
* Permission is hereby granted, free of charge, to any person obtaining a copy
* of this software and associated documentation files (the "Software"), to deal
* in the Software without restriction, including without limitation the rights
* to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
* copies of the Software, and to permit persons to whom the Software is
* furnished to do so, subject to the following conditions:
*
* The above copyright notice and this permission notice shall be included in
* all copies or substantial portions of the Software.
*
*
* THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
* IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
* FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
* AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
* LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
* OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN
* THE SOFTWARE.
*/
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package org.broad.igv.ui.action;
import org.apache.log4j.Logger;
import org.broad.igv.Globals;
import org.broad.igv.prefs.IGVPreferences;
import org.broad.igv.prefs.PreferencesManager;
import org.broad.igv.ui.IGV;
import org.broad.igv.ui.util.FileDialogUtils;
import org.broad.igv.ui.util.MessageUtils;
import org.broad.igv.util.ResourceLocator;
import java.awt.event.ActionEvent;
import java.io.File;
import java.util.ArrayList;
import java.util.List;
/**
* @author jrobinso
*/
public class LoadFilesMenuAction extends MenuAction {
static Logger log = Logger.getLogger(LoadFilesMenuAction.class);
IGV igv;
public LoadFilesMenuAction(String label, int mnemonic, IGV igv) {
super(label, null, mnemonic);
this.igv = igv;
}
@Override
public void actionPerformed(ActionEvent e) {
loadFiles(chooseTrackFiles());
}
private File[] chooseTrackFiles() {
File lastDirectoryFile = PreferencesManager.getPreferences().getLastTrackDirectory();
// Get Track Files
final IGVPreferences prefs = PreferencesManager.getPreferences();
// Tracks. Simulates multi-file select
File[] trackFiles = FileDialogUtils.chooseMultiple("Select Files", lastDirectoryFile, null);
if (trackFiles != null && trackFiles.length > 0) {
File lastFile = trackFiles[0];
if (lastFile != null) {
PreferencesManager.getPreferences().setLastTrackDirectory(lastFile);
}
}
igv.resetStatusMessage();
return trackFiles;
}
private void loadFiles(File[] files) {
if (files != null && files.length > 0) {
List<File> validFileList = new ArrayList();
StringBuffer buffer = new StringBuffer();
buffer.append("File(s) not found: ");
boolean allFilesExist = true;
for (File file : files) {
if (!file.exists()) {
allFilesExist = false;
buffer.append("\n\t");
buffer.append(file.getAbsolutePath());
} else {
String path = file.getAbsolutePath();
if (path.endsWith(Globals.SESSION_FILE_EXTENSION)) {
// TODO -- a better test for session file than just the extension!
final String msg = "File " + path +
" appears to be an IGV Session file - " +
"please use the Open Session menu item " +
"to load it.";
log.error(msg);
MessageUtils.showMessage(msg);
} else {
validFileList.add(file);
}
}
}
files = validFileList.toArray(new File[validFileList.size()]);
if (!allFilesExist) {
final String msg = buffer.toString();
log.error(msg);
MessageUtils.showMessage(msg);
}
if (files.length > 0) {
// Create DataResouceLocators for the selected files
final List<ResourceLocator> locators = new ArrayList(files.length);
for (File f : files) {
locators.add(new ResourceLocator(f.getAbsolutePath()));
}
igv.loadTracks(locators);
}
}
}
}