private boolean optionRNADisplay() {
// les options d'affichages generales
if (_type.equals("gaspin")) {
_vp.getVARNAUI().UIToggleGaspinMode();
} else if (_type.equals("backbone")) {
_vp.getVARNAUI().UISetBackboneColor();
} else if (_type.equals("bonds")) {
Color c = JColorChooser.showDialog(_vp, "Choose new bonds color", _vp.getBackground());
if (c != null) {
_vp.setDefaultBPColor(c);
_vp.repaint();
}
} else if (_type.equals("basecolorforBP")) {
if (_source != null) {
if (_source instanceof JCheckBoxMenuItem) {
JCheckBoxMenuItem check = (JCheckBoxMenuItem) _source;
_vp.setUseBaseColorsForBPs(check.getState());
_vp.repaint();
}
}
} else if (_type.equals("bpstyle")) {
_vp.getVARNAUI().UISetBPStyle();
} else if (_type.equals("specialbasecolored")) {
_vp.getVARNAUI().UIToggleColorSpecialBases();
} else if (_type.equals("showwarnings")) {
_vp.getVARNAUI().UIToggleShowWarnings();
} else if (_type.equals("dashbasecolored")) {
_vp.getVARNAUI().UIToggleColorGapsBases();
} else if (_type.equals("numPeriod")) {
_vp.getVARNAUI().UISetNumPeriod();
} else if (_type.equals("eachKind")) {
if (_vp.getRNA().get_listeBases() != null) {
_vp.getVARNAUI().UIBaseTypeColor();
} else {
_vp.emitWarning("No base");
}
} else if (_type.equals("eachCouple")) {
if (_vp.getRNA().get_listeBases() != null && _vp.getRNA().get_listeBases().size() != 0) {
_vp.getVARNAUI().UIBasePairTypeColor();
} else {
_vp.emitWarning("No base");
}
} else if (_type.equals("eachBase")) {
if (_vp.getRNA().get_listeBases() != null && _vp.getRNA().get_listeBases().size() != 0) {
_vp.getVARNAUI().UIBaseAllColor();
} else {
_vp.emitWarning("No base");
}
} else if (_type.equals("specialBasesColor")) {
_vp.getVARNAUI().UIPickSpecialBasesColor();
} else if (_type.equals("dashBasesColor")) {
_vp.getVARNAUI().UIPickGapsBasesColor();
} else return colorBases();
return true;
}
private boolean optionView() {
if (_type.equals("background")) {
_vp.getVARNAUI().UISetBackground();
} else if (_type.equals("shownc")) {
_vp.getVARNAUI().UIToggleShowNCBP();
} else if (_type.equals("shownp")) {
_vp.getVARNAUI().UIToggleShowNonPlanar();
} else if (_type.equals("spaceBetweenBases")) {
_vp.getVARNAUI().UISetSpaceBetweenBases();
} else if (_type.equals("bpheightincrement")) {
_vp.getVARNAUI().UISetBPHeightIncrement();
} else if (_type.equals("borderSize")) {
_vp.getVARNAUI().UISetBorder();
} else if (_type.startsWith("zoom")) {
if (_type.equals("zoom")) {
_vp.getVARNAUI().UICustomZoom();
} else {
String factor = _type.substring("zoom".length());
double pc = Integer.parseInt(factor);
pc /= 100.0;
_vp.setZoom(new Double(pc));
_vp.repaint();
}
} else if (_type.equals("rotation")) {
_vp.getVARNAUI().UIGlobalRotation();
} else return false;
return true;
}
public void actionPerformed(ActionEvent e) {
_msbp.setEdge5(getEdge5());
_msbp.setEdge3(getEdge3());
_msbp.setStericity(getStericity());
_vp.repaint();
}
private boolean colorBases() {
// System.out.println(_type);
ArrayList<Integer> listBase = new ArrayList<Integer>();
String phrase = "Choose new " + _type;
if (_color.equals("InnerColor")) {
phrase += " inner color";
Color c = JColorChooser.showDialog(_vp, phrase, VARNAConfig.BASE_INNER_COLOR_DEFAULT);
if (c != null) {
listBase = listSwitchType(_type);
for (int i = 0; i < listBase.size(); i++) {
_vp.getRNA().get_listeBases().get(listBase.get(i)).getStyleBase().setBaseInnerColor(c);
}
_vp.repaint();
}
} else if (_color.equals("OutlineColor")) {
phrase += " outline color";
Color c = JColorChooser.showDialog(_vp, phrase, VARNAConfig.BASE_OUTLINE_COLOR_DEFAULT);
if (c != null) {
listBase = listSwitchType(_type);
for (int i = 0; i < listBase.size(); i++) {
_vp.getRNA().get_listeBases().get(listBase.get(i)).getStyleBase().setBaseOutlineColor(c);
}
_vp.repaint();
}
} else if (_color.equals("NameColor")) {
phrase += " name color";
Color c = JColorChooser.showDialog(_vp, phrase, VARNAConfig.BASE_NAME_COLOR_DEFAULT);
if (c != null) {
listBase = listSwitchType(_type);
for (int i = 0; i < listBase.size(); i++) {
_vp.getRNA().get_listeBases().get(listBase.get(i)).getStyleBase().setBaseNameColor(c);
}
_vp.repaint();
}
} else if (_color.equals("NumberColor")) {
phrase += " number color";
Color c = JColorChooser.showDialog(_vp, phrase, VARNAConfig.BASE_NUMBER_COLOR_DEFAULT);
if (c != null) {
listBase = listSwitchType(_type);
for (int i = 0; i < listBase.size(); i++) {
_vp.getRNA().get_listeBases().get(listBase.get(i)).getStyleBase().setBaseNumberColor(c);
}
_vp.repaint();
}
} else if (_color.equals("BPColor")) {
phrase += " base-pair color";
Color c = JColorChooser.showDialog(_vp, phrase, VARNAConfig.BASE_NUMBER_COLOR_DEFAULT);
if (c != null) {
listBase = listSwitchType(_type);
for (int i = 0; i < listBase.size(); i++) {
for (ModeleBP msbp : _vp.getRNA().getBPsAt(listBase.get(i))) {
if (msbp != null) {
msbp.getStyle().setCustomColor(c);
}
}
}
_vp.repaint();
}
} else if (_color.equals("BPColor")) {
phrase += " base-pair color";
Color c = JColorChooser.showDialog(_vp, phrase, VARNAConfig.BASE_NUMBER_COLOR_DEFAULT);
if (c != null) {
listBase = listSwitchType(_type);
for (int i = 0; i < listBase.size(); i++) {
ModeleBase mb = _vp.getRNA().get_listeBases().get(listBase.get(i));
if (mb.getElementStructure() != -1) {
mb.getStyleBP().getStyle().setCustomColor(c);
}
}
_vp.repaint();
}
} else if (_color.equals("BPThickness")) {
listBase = listSwitchType(_type);
// System.out.println(listBase.size());
ArrayList<ModeleBP> styleBPs = new ArrayList<ModeleBP>();
for (int i = 0; i < listBase.size(); i++) {
ModeleBase mb = _vp.getRNA().get_listeBases().get(listBase.get(i));
if (mb.getElementStructure() != -1) {
styleBPs.add(mb.getStyleBP());
}
}
VueBPThickness vbpt = new VueBPThickness(_vp, styleBPs);
if (JOptionPane.showConfirmDialog(
_vp, vbpt.getPanel(), "Set base pair(s) thickness", JOptionPane.OK_CANCEL_OPTION)
!= JOptionPane.OK_OPTION) {
vbpt.restoreThicknesses();
_vp.repaint();
}
} else return false;
return true;
}