} else {
PeptideShakerPathPreferences.setPathPreference(peptideShakerPathKey, pathInput.get(id));
}
} catch (Exception e) {
System.out.println("An error occurred when setting the path " + id + ".");
<BUG>e.printStackTrace();
}</BUG>
}
File destinationFile = new File(getJarFilePath(), UtilitiesPathPreferences.configurationFileName);
try {

} else {
UtilitiesPathPreferences.setPathPreference(utilitiesPathKey, pathInput.get(id));
}
} else {
PeptideShakerPathPreferences.setPathPreference(peptideShakerPathKey, pathInput.get(id));
}
} catch (Exception e) {
System.out.println("An error occurred when setting the path " + id + ".");
e.printStackTrace();
waitingHandler.setRunCanceled();
}
}
File destinationFile = new File(getJarFilePath(), UtilitiesPathPreferences.configurationFileName);
try {
