private void updateOtherFileNames(BeautiOptions options) {
if (options.fileNameStem != null) {
// fileNameStemField.setText(options.fileNameStem);
options.logFileName = options.fileNameStem + ".log";
if (addTxt.isSelected()) options.logFileName = options.logFileName + ".txt";
logFileNameField.setText(options.logFileName);
// if (options.mapTreeFileName == null) {
// mapTreeFileNameField.setText(options.fileNameStem + ".MAP.tree");
// } else {
// mapTreeFileNameField.setText(options.mapTreeFileName);
// }
updateTreeFileNameList();
treeFileNameField.setText(displayTreeList(options.treeFileName));
if (options.substTreeLog) {
substTreeFileNameField.setText(displayTreeList(options.substTreeFileName));
} else {
substTreeFileNameField.setText("");
}
options.operatorAnalysisFileName = options.fileNameStem + ".ops";
if (addTxt.isSelected()) {
options.operatorAnalysisFileName = options.operatorAnalysisFileName + ".txt";
}
operatorAnalaysisFileNameField.setEnabled(options.operatorAnalysis);
if (options.operatorAnalysis) {
operatorAnalaysisFileNameField.setText(options.operatorAnalysisFileName);
} else {
operatorAnalaysisFileNameField.setText("");
}
// mapTreeLogCheck.setEnabled(true);
// mapTreeLogCheck.setSelected(options.mapTreeLog);
// mapTreeFileNameField.setEnabled(options.mapTreeLog);
substTreeLogCheck.setEnabled(true);
substTreeLogCheck.setSelected(options.substTreeLog);
} else {
// fileNameStemField.setText(fileNameStem);
// fileNameStemField.setEnabled(false);
logFileNameField.setText(DEFAULT_FILE_NAME_STEM + ".log");
treeFileNameField.setText(DEFAULT_FILE_NAME_STEM + "." + STARBEASTOptions.TREE_FILE_NAME);
// mapTreeLogCheck.setEnabled(false);
// mapTreeFileNameField.setEnabled(false);
// mapTreeFileNameField.setText("untitled");
substTreeLogCheck.setSelected(false);
substTreeFileNameField.setEnabled(false);
substTreeFileNameField.setText("");
operatorAnalaysisCheck.setSelected(false);
operatorAnalaysisFileNameField.setText("");
}
}
public void getOptions(BeautiOptions options) {
options.fileNameStem = fileNameStemField.getText();
options.logFileName = logFileNameField.getText();
// options.mapTreeLog = mapTreeLogCheck.isSelected();
// options.mapTreeFileName = mapTreeFileNameField.getText();
options.substTreeLog = substTreeLogCheck.isSelected();
updateTreeFileNameList();
options.operatorAnalysis = operatorAnalaysisCheck.isSelected();
options.operatorAnalysisFileName = operatorAnalaysisFileNameField.getText();
options.samplePriorOnly = samplePriorCheckBox.isSelected();
}