--- /dev/null
+/*
+ VARNA is a tool for the automated drawing, visualization and annotation of the secondary structure of RNA, designed as a companion software for web servers and databases.
+ Copyright (C) 2008 Kevin Darty, Alain Denise and Yann Ponty.
+ electronic mail : Yann.Ponty@lri.fr
+ paper mail : LRI, bat 490 Universit� Paris-Sud 91405 Orsay Cedex France
+
+ This file is part of VARNA version 3.1.
+ VARNA version 3.1 is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License
+ as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+
+ VARNA version 3.1 is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY;
+ without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
+ See the GNU General Public License for more details.
+
+ You should have received a copy of the GNU General Public License along with VARNA version 3.1.
+ If not, see http://www.gnu.org/licenses.
+ */
+package fr.orsay.lri.varna.controlers;
+
+
+import java.awt.Color;
+import java.awt.event.ActionEvent;
+import java.awt.event.ActionListener;
+import java.io.File;
+import java.text.ParseException;
+import java.util.ArrayList;
+
+import javax.swing.JCheckBoxMenuItem;
+import javax.swing.JColorChooser;
+import javax.swing.JOptionPane;
+
+import fr.orsay.lri.varna.VARNAPanel;
+import fr.orsay.lri.varna.exceptions.ExceptionExportFailed;
+import fr.orsay.lri.varna.exceptions.ExceptionJPEGEncoding;
+import fr.orsay.lri.varna.exceptions.ExceptionNonEqualLength;
+import fr.orsay.lri.varna.exceptions.ExceptionPermissionDenied;
+import fr.orsay.lri.varna.exceptions.ExceptionWritingForbidden;
+import fr.orsay.lri.varna.interfaces.InterfaceVARNAListener;
+import fr.orsay.lri.varna.models.VARNAConfig;
+import fr.orsay.lri.varna.models.annotations.TextAnnotation;
+import fr.orsay.lri.varna.models.rna.ModeleBase;
+import fr.orsay.lri.varna.models.rna.ModeleBP;
+import fr.orsay.lri.varna.models.rna.RNA;
+import fr.orsay.lri.varna.views.VueBPThickness;
+import fr.orsay.lri.varna.views.VueMenu;
+
+/**
+ * This listener controls menu items
+ *
+ * @author darty
+ *
+ */
+public class ControleurMenu implements InterfaceVARNAListener,
+ ActionListener {
+
+ private VARNAPanel _vp;
+ @SuppressWarnings("unused")
+ private VueMenu _vm;
+ private String _type;
+ private String _color;
+ private Object _source;
+
+ /**
+ * Creates the menu listener
+ *
+ * @param _varnaPanel
+ * The VARNAPanel
+ */
+ public ControleurMenu(VARNAPanel _varnaPanel, VueMenu _vueMenu) {
+ _vp = _varnaPanel;
+ _vm = _vueMenu;
+ _vp.getRNA().addVARNAListener(this);
+ }
+
+ public void actionPerformed(ActionEvent e) {
+ String[] temp = e.getActionCommand().split(",");
+ _source = e.getSource();
+ _type = temp[0];
+ if (temp.length > 1)
+ _color = temp[1];
+ else
+ _color = "";
+ // selon l'option choisie dans le menu:
+ if (!optionRedraw())
+ if (!optionExport())
+ if (!optionImport())
+ if (!optionRNADisplay())
+ if (!optionTitle())
+ if (!optionColorMap())
+ if (!optionView())
+ if (!optionBase())
+ if (!optionBasePair())
+ if (!optionLoop())
+ if (!option3prime())
+ if (!option5prime())
+ if (!optionHelix())
+ if (!optionStem())
+ if (!optionBulge())
+ if (!optionAnnotation())
+ if (!optionEditRNA())
+ _vp.errorDialog(new Exception("Uknown action command '"+_type+"'"));
+ }
+
+ private boolean optionEditRNA()
+ {
+ if (_type.equals("editallbps")) {
+ _vp.getVARNAUI().UIEditAllBasePairs();
+ }
+ else if (_type.equals("editallbases")) {
+ _vp.getVARNAUI().UIEditAllBases();
+ }
+ else return false;
+ return true;
+ }
+
+ private boolean optionAnnotation() {
+ if (!_type.contains("annotation"))
+ return false;
+ // a partir du menu principale (gestion des annotations)
+ if (_type.equals("annotationsaddPosition")) {
+ _vp.getVARNAUI().UIAnnotationsAddPosition(_vp.getPopup().getSpawnPoint().x,_vp.getPopup().getSpawnPoint().y);
+ } else if (_type.equals("annotationsaddBase")) {
+ _vp.getVARNAUI().UIAnnotationsAddBase(_vp.getPopup().getSpawnPoint().x,_vp.getPopup().getSpawnPoint().y);
+ } else if (_type.equals("annotationsaddLoop")) {
+ _vp.getVARNAUI().UIAnnotationsAddLoop(_vp.getPopup().getSpawnPoint().x,_vp.getPopup().getSpawnPoint().y);
+ } else if (_type.equals("annotationsaddChemProb")) {
+ _vp.getVARNAUI().UIAnnotationsAddChemProb(_vp.getPopup().getSpawnPoint().x,_vp.getPopup().getSpawnPoint().y);
+ } else if (_type.equals("annotationsaddRegion")) {
+ _vp.getVARNAUI().UIAnnotationsAddRegion(_vp.getPopup().getSpawnPoint().x,_vp.getPopup().getSpawnPoint().y);
+ } else if (_type.equals("annotationsaddHelix")) {
+ _vp.getVARNAUI().UIAnnotationsAddHelix(_vp.getPopup().getSpawnPoint().x,_vp.getPopup().getSpawnPoint().y);
+ } else if (_type.equals("annotationsautohelices")) {
+ _vp.getVARNAUI().UIAutoAnnotateHelices();
+ } else if (_type.equals("annotationsautointerior")) {
+ _vp.getVARNAUI().UIAutoAnnotateInteriorLoops();
+ } else if (_type.equals("annotationsautoterminal")) {
+ _vp.getVARNAUI().UIAutoAnnotateTerminalLoops();
+ } else if (_type.equals("annotationsautohelices")) {
+ _vp.getVARNAUI().UIAutoAnnotateHelices();
+ } else if (_type.equals("annotationsremove")) {
+ _vp.getVARNAUI().UIAnnotationsRemove();
+ } else if (_type.equals("annotationsautoextremites")) {
+ _vp.getVARNAUI().UIAutoAnnotateStrandEnds();
+ } else if (_type.equals("annotationsedit")) {
+ _vp.getVARNAUI().UIAnnotationsEdit();
+ // a partir du menu selection (annotation la plus proche)
+ } else if (_type.equals("Selectionannotationremove")) {
+ _vp.getVARNAUI().UIAnnotationRemoveFromAnnotation(_vp.get_selectedAnnotation());
+ } else if (_type.equals("Selectionannotationedit")) {
+ _vp.getVARNAUI().UIAnnotationEditFromAnnotation(_vp.get_selectedAnnotation());
+
+ // a partir d'une structure(base, loop, helix) dans l'arn
+ // (annotation li� a la structure)
+ } else if (_type.endsWith("annotationadd")||_type.contains("annotationremove")||_type.contains("annotationedit"))
+ {
+ try {
+ TextAnnotation.AnchorType type = trouverAncrage();
+ ArrayList<Integer> listeIndex = new ArrayList<Integer>();
+ switch(type)
+ {
+ case BASE:
+ listeIndex.add(_vp.getNearestBase());
+ case LOOP:
+ if (_type.startsWith("loop1"))
+ listeIndex = _vp.getRNA().findLoopForward(_vp.getNearestBase());
+ else if (_type.startsWith("loop2"))
+ listeIndex = _vp.getRNA().findLoopBackward(_vp.getNearestBase());
+ else
+ listeIndex = _vp.getRNA().findLoop(_vp.getNearestBase());
+ break;
+ case HELIX:
+ listeIndex = _vp.getRNA().findHelix(_vp.getNearestBase());
+ break;
+ }
+ if (_type.endsWith("annotationadd"))
+ { _vp.getVARNAUI().UIAnnotationAddFromStructure(type,listeIndex); }
+ else if (_type.contains("annotationremove"))
+ { _vp.getVARNAUI().UIAnnotationRemoveFromStructure(trouverAncrage(),listeIndex); }
+ else if (_type.contains("annotationedit"))
+ { _vp.getVARNAUI().UIAnnotationEditFromStructure(trouverAncrage(),listeIndex); }
+
+ } catch (Exception e2) {
+ e2.printStackTrace();
+ }
+ } else
+ return false;
+ return true;
+ }
+
+ private TextAnnotation.AnchorType trouverAncrage() {
+ if (_type.contains("loop"))
+ return TextAnnotation.AnchorType.LOOP;
+ if (_type.contains("helix"))
+ return TextAnnotation.AnchorType.HELIX;
+ if (_type.contains("base"))
+ return TextAnnotation.AnchorType.BASE;
+ errorDialog(new Exception("probleme d'identification de l'ancrage"));
+ return TextAnnotation.AnchorType.POSITION;
+ }
+
+ private boolean option5prime() {
+ return colorBases();
+ }
+
+ private boolean option3prime() {
+ return colorBases();
+ }
+
+ private boolean optionBulge() {
+ return colorBases();
+ }
+
+ private boolean optionStem() {
+ return colorBases();
+ }
+
+ private boolean optionHelix() {
+ return colorBases();
+ }
+
+ 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;
+ }
+
+ private ArrayList<Integer> listSwitchType(String _type) {
+ if (_type.equals("helix"))
+ return _vp.getRNA().findHelix(_vp.getNearestBase());
+ if (_type.equals("current")) {
+ return _vp.getSelectionIndices();
+ }
+ if (_type.equals("allBases")) {
+ return _vp.getRNA().findAll();
+ }
+ if (_type.equals("loop1")) {
+ return _vp.getRNA().findLoopForward(_vp.getNearestBase());
+ }
+ if (_type.equals("loop2")) {
+ return _vp.getRNA().findLoopBackward(_vp.getNearestBase());
+ }
+ if (_type.equals("stem"))
+ return _vp.getRNA().findStem(_vp.getNearestBase());
+ if (_type.equals("base")) {
+ ArrayList<Integer> list = new ArrayList<Integer>();
+ list.add(_vp.getNearestBase());
+ return list;
+ }
+ if (_type.equals("basepair") || _type.equals("bpcolor")
+ || _type.equals("bp")) {
+ ArrayList<Integer> list = new ArrayList<Integer>();
+ int i = _vp.getNearestBase();
+ list.add(i);
+ ModeleBase mb = _vp.getRNA().get_listeBases().get(i);
+ int j = mb.getElementStructure();
+ if (mb.getElementStructure() != -1) {
+ list.add(i);
+ list.add(j);
+ }
+ return list;
+ }
+ if (_type.equals("5'"))
+ return _vp.getRNA().findNonPairedBaseGroup(_vp.getNearestBase());
+ if (_type.equals("3'"))
+ return _vp.getRNA().findNonPairedBaseGroup(_vp.getNearestBase());
+ if (_type.equals("bulge"))
+ return _vp.getRNA().findNonPairedBaseGroup(_vp.getNearestBase());
+ if (_type.equals("all"))
+ return _vp.getRNA().findAll();
+ return new ArrayList<Integer>();
+ }
+
+ private boolean optionLoop() {
+ return colorBases();
+ }
+
+ private boolean optionBase() {
+ if (_type.equals("baseChar")) {
+ _vp.getVARNAUI().UISetBaseCharacter();
+ return true;
+ } else {
+ return colorBases();
+ }
+ }
+
+ private boolean optionBasePair() {
+ if (_type.equals("basepair")) {
+ _vp.getVARNAUI().UIEditBasePair();
+ return true;
+ } else if (_type.equals("bpcolor")) {
+ _vp.getVARNAUI().UIColorBasePair();
+ return true;
+ } else if (_type.equals("thickness")) {
+ _vp.getVARNAUI().UIThicknessBasePair();
+ return true;
+ }
+ return false;
+ }
+
+
+
+ private boolean optionView() {
+ if (_type.equals("background")) {
+ _vp.getVARNAUI().UISetBackground();
+ } else if (_type.equals("shownc")) {
+ _vp.getVARNAUI().UIToggleShowNCBP();
+ } else if (_type.equals("showbackbone")) {
+ _vp.getVARNAUI().UIToggleDrawBackbone();
+ } 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 if (_type.equals("rescale")) {
+ _vp.getVARNAUI().UIGlobalRescale();
+ } else
+ return false;
+ return true;
+ }
+
+
+ private boolean optionTitle() {
+ if (_type.equals("titleDisplay")) {
+ _vp.getVARNAUI().UISetTitleFont();
+ } else if (_type.equals("setTitle")) {
+ _vp.getVARNAUI().UISetTitle();
+ } else if (_type.equals("titleColor")) {
+ _vp.getVARNAUI().UISetTitleColor();
+ } else
+ return false;
+ return true;
+ }
+
+
+ private boolean optionColorMap() {
+ if (_type.equals("toggleshowcolormap")) {
+ _vp.getVARNAUI().UIToggleColorMap();
+ } else if (_type.equals("colormapcaption")) {
+ _vp.getVARNAUI().UISetColorMapCaption();
+ } else if (_type.equals("colormapstyle")) {
+ _vp.getVARNAUI().UISetColorMapStyle();
+ } else if (_type.equals("colormaploadvalues")) {
+ _vp.getVARNAUI().UILoadColorMapValues();
+ } else if (_type.equals("colormapvalues")) {
+ _vp.getVARNAUI().UISetColorMapValues();
+ } else
+ return false;
+ return true;
+ }
+
+ 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 optionImport() {
+ if (_type.equals("userInput")) {
+ try {
+ _vp.getVARNAUI().UIManualInput();
+ } catch (ParseException e1) {
+ errorDialog(e1);
+ } catch (ExceptionNonEqualLength e2) {
+ errorDialog(e2);
+ }
+ } else if (_type.equals("file")) {
+ try {
+ _vp.getVARNAUI().UIFile();
+ } catch (ExceptionNonEqualLength e1) {
+ errorDialog(e1);
+ }
+ } else if (_type.equals("print")) {
+ _vp.getVARNAUI().UIPrint();
+ } else if (_type.equals("about")) {
+ _vp.getVARNAUI().UIAbout();
+ } else
+ return false;
+ return true;
+ }
+
+ private boolean optionRedraw() {
+ if (_type.equals("reset")) {
+ _vp.getVARNAUI().UIReset();
+ } else if (_type.equals("circular")) {
+ _vp.getVARNAUI().UICircular();
+ } else if (_type.equals("radiate")) {
+ _vp.getVARNAUI().UIRadiate();
+ } else if (_type.equals("naview")) {
+ _vp.getVARNAUI().UINAView();
+ } else if (_type.equals("varnaview")) {
+ _vp.getVARNAUI().UIVARNAView();
+ } else if (_type.equals("motifview")) {
+ _vp.getVARNAUI().UIMOTIFView();
+ } else if (_type.equals("line")) {
+ _vp.getVARNAUI().UILine();
+ } else if (_type.equals("flat")) {
+ _vp.getVARNAUI().UIToggleFlatExteriorLoop();
+ } else
+ return false;
+ return true;
+ }
+
+ private boolean optionExport() {
+ if (_type.equals("saveas")) {
+ try {
+ _vp.getVARNAUI().UISaveAs();
+ } catch (ExceptionExportFailed e1) {
+ errorDialog(e1);
+ } catch (ExceptionPermissionDenied e1) {
+ errorDialog(e1);
+ }
+ } else if (_type.equals("dbn")) {
+ try {
+ _vp.getVARNAUI().UISaveAsDBN();
+ } catch (ExceptionExportFailed e) {
+ errorDialog(e);
+ } catch (ExceptionPermissionDenied e) {
+ errorDialog(e);
+ }
+ } else if (_type.equals("bpseq")) {
+ try {
+ _vp.getVARNAUI().UISaveAsBPSEQ();
+ } catch (ExceptionExportFailed e) {
+ errorDialog(e);
+ } catch (ExceptionPermissionDenied e) {
+ errorDialog(e);
+ }
+ } else if (_type.equals("ct")) {
+ try {
+ _vp.getVARNAUI().UISaveAsCT();
+ } catch (ExceptionExportFailed e) {
+ errorDialog(e);
+ } catch (ExceptionPermissionDenied e) {
+ errorDialog(e);
+ }
+ } else if (_type.equals("eps")) {
+ try {
+ _vp.getVARNAUI().UIExportEPS();
+ } catch (ExceptionWritingForbidden e1) {
+ errorDialog(e1);
+ } catch (ExceptionExportFailed e) {
+ errorDialog(e);
+ }
+ } else if (_type.equals("tikz")) {
+ try {
+ _vp.getVARNAUI().UIExportTIKZ();
+ } catch (ExceptionWritingForbidden e1) {
+ errorDialog(e1);
+ } catch (ExceptionExportFailed e) {
+ errorDialog(e);
+ }
+ } else if (_type.equals("xfig")) {
+ try {
+ _vp.getVARNAUI().UIExportXFIG();
+ } catch (ExceptionWritingForbidden e1) {
+ errorDialog(e1);
+ } catch (ExceptionExportFailed e) {
+ errorDialog(e);
+ }
+ } else if (_type.equals("svg")) {
+ try {
+ _vp.getVARNAUI().UIExportSVG();
+ } catch (ExceptionWritingForbidden e1) {
+ errorDialog(e1);
+ } catch (ExceptionExportFailed e) {
+ errorDialog(e);
+ }
+ } else if (_type.equals("jpeg")) {
+ try {
+ _vp.getVARNAUI().UIExportJPEG();
+ } catch (ExceptionJPEGEncoding e1) {
+ errorDialog(e1);
+ } catch (ExceptionExportFailed e1) {
+ errorDialog(e1);
+ }
+ } else if (_type.equals("png")) {
+ try {
+ _vp.getVARNAUI().UIExportPNG();
+ } catch (ExceptionExportFailed e1) {
+ errorDialog(e1);
+ }
+ } else
+ return false;
+ return true;
+ }
+
+ /**
+ * Return the extension of a file, it means the string after the last dot of
+ * the file name
+ *
+ * @param f
+ * The file
+ * @return <code>null</code> if the file name have no dot<br>
+ * <code>ext</code> if the file name contains a dot
+ */
+ public String getExtension(File f) {
+ String s = f.getName();
+ return getExtension(s);
+ }
+
+ /**
+ * Return the extension of a string, it means the string after the last dot
+ * of the path
+ *
+ * @param s
+ * The strnig o the path
+ * @return <code>null</code> if the path have no dot<br>
+ * <code>ext</code> if the path contains a dot
+ */
+ public String getExtension(String s) {
+ String ext = null;
+ int i = s.lastIndexOf('.');
+
+ if (i > 0 && i < s.length() - 1) {
+ ext = s.substring(i + 1).toLowerCase();
+ }
+ return ext;
+ }
+
+ /**
+ * Open an error message dialog with the exception message
+ *
+ * @param e1
+ * The <code>Exception</code>
+ */
+ public void errorDialog(Exception e1) {
+ if (_vp.isErrorsOn())
+ JOptionPane.showMessageDialog(_vp, e1.getMessage(), "VARNA Error",
+ JOptionPane.ERROR_MESSAGE);
+ }
+
+ public void onStructureRedrawn() {
+ // TODO Auto-generated method stub
+
+ }
+
+ public void onWarningEmitted(String s) {
+ if (_vp.isErrorsOn())
+ JOptionPane.showMessageDialog(_vp,s, "VARNA Warning",
+ JOptionPane.ERROR_MESSAGE);
+ }
+
+ public void onLoad(String path) {
+ // TODO Auto-generated method stub
+
+ }
+
+ public void onLoaded() {
+ // TODO Auto-generated method stub
+
+ }
+
+ public void onUINewStructure(VARNAConfig v, RNA r) {
+ // TODO Auto-generated method stub
+
+ }
+
+ public void onZoomLevelChanged() {
+ // TODO Auto-generated method stub
+
+ }
+
+ public void onTranslationChanged() {
+ // TODO Auto-generated method stub
+
+ }
+
+
+}
git://source.jalview.org / jalview.git / blobdiff