/*\r
* Jalview - A Sequence Alignment Editor and Viewer\r
- * Copyright (C) 2005 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle\r
+ * Copyright (C) 2007 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle\r
*\r
* This program is free software; you can redistribute it and/or\r
* modify it under the terms of the GNU General Public License\r
*/\r
package jalview.gui;\r
\r
-import jalview.datamodel.*;\r
-\r
-import jalview.jbgui.*;\r
-\r
-import jalview.schemes.*;\r
-\r
-import java.awt.event.*;\r
-\r
import java.util.*;\r
\r
+import java.awt.event.*;\r
import javax.swing.*;\r
import javax.swing.event.*;\r
\r
+import jalview.datamodel.*;\r
+import jalview.jbgui.*;\r
+import jalview.schemes.*;\r
\r
/**\r
* DOCUMENT ME!\r
* @author $author$\r
* @version $Revision$\r
*/\r
-public class SliderPanel extends GSliderPanel\r
+public class SliderPanel\r
+ extends GSliderPanel\r
{\r
- static JInternalFrame conservationSlider;\r
- static JInternalFrame PIDSlider;\r
- AlignmentPanel ap;\r
- boolean forConservation = true;\r
- boolean forAnnotation = false;\r
- ColourSchemeI cs;\r
-\r
- /**\r
- * Creates a new SliderPanel object.\r
- *\r
- * @param ap DOCUMENT ME!\r
- * @param value DOCUMENT ME!\r
- * @param forConserve DOCUMENT ME!\r
- * @param cs DOCUMENT ME!\r
- */\r
- public SliderPanel(AlignmentPanel ap, int value, boolean forConserve,\r
- ColourSchemeI cs)\r
+ static JInternalFrame conservationSlider;\r
+ static JInternalFrame PIDSlider;\r
+ AlignmentPanel ap;\r
+ boolean forConservation = true;\r
+ ColourSchemeI cs;\r
+\r
+ /**\r
+ * Creates a new SliderPanel object.\r
+ *\r
+ * @param ap DOCUMENT ME!\r
+ * @param value DOCUMENT ME!\r
+ * @param forConserve DOCUMENT ME!\r
+ * @param cs DOCUMENT ME!\r
+ */\r
+ public SliderPanel(AlignmentPanel ap, int value, boolean forConserve,\r
+ ColourSchemeI cs)\r
+ {\r
+ this.ap = ap;\r
+ this.cs = cs;\r
+ forConservation = forConserve;\r
+ undoButton.setVisible(false);\r
+ applyButton.setVisible(false);\r
+\r
+ if (forConservation)\r
{\r
- this.ap = ap;\r
- this.cs = cs;\r
- forConservation = forConserve;\r
- undoButton.setVisible(false);\r
- applyButton.setVisible(false);\r
-\r
- if (forConservation)\r
- {\r
- label.setText("Enter value to increase conservation visibility");\r
- slider.setMinimum(0);\r
- slider.setMaximum(100);\r
- }\r
- else\r
- {\r
- label.setText("Enter % identity above which to colour residues");\r
- slider.setMinimum(0);\r
- slider.setMaximum(100);\r
- }\r
-\r
- slider.addChangeListener(new ChangeListener()\r
- {\r
- public void stateChanged(ChangeEvent evt)\r
- {\r
- valueField.setText(slider.getValue() + "");\r
- valueChanged(slider.getValue());\r
- }\r
- });\r
-\r
- slider.setValue(value);\r
- valueField.setText(value + "");\r
+ label.setText("Enter value to increase conservation visibility");\r
+ slider.setMinimum(0);\r
+ slider.setMaximum(100);\r
+ }\r
+ else\r
+ {\r
+ label.setText("Enter % identity above which to colour residues");\r
+ slider.setMinimum(0);\r
+ slider.setMaximum(100);\r
}\r
\r
- public SliderPanel(final AlignmentAnnotation annotation, final AlignmentPanel ap)\r
+ slider.addChangeListener(new ChangeListener()\r
{\r
- forAnnotation = true;\r
- undoButton.setVisible(false);\r
- applyButton.setVisible(false);\r
- allGroupsCheck.setVisible(false);\r
- label.setText("Adjust value - "+annotation.threshold.label);\r
-\r
- float range = annotation.graphMax * 1000 - annotation.graphMin * 1000;\r
-\r
- slider.setMinimum( (int) (annotation.graphMin * 1000));\r
- slider.setMaximum( (int) (annotation.graphMax * 1000));\r
- slider.setValue( (int) (annotation.threshold.value * 1000));\r
- valueField.setText( annotation.threshold.value + "");\r
- slider.setMajorTickSpacing( (int) (range / 10f));\r
- slider.setMinorTickSpacing( (int) (range / 100f));\r
- slider.setPaintTicks(true);\r
-\r
- JInternalFrame slideFrame = new JInternalFrame();\r
- slideFrame.setLayer(JLayeredPane.PALETTE_LAYER);\r
- Desktop.addInternalFrame(slideFrame,\r
- "Adjust " + annotation.label +" value",\r
- 250, 90);\r
-\r
- slideFrame.setContentPane(this);\r
- slider.addChangeListener(new ChangeListener()\r
+ public void stateChanged(ChangeEvent evt)\r
{\r
- public void stateChanged(ChangeEvent evt)\r
- {\r
- valueField.setText( ((float)slider.getValue()/1000f) + "");\r
- annotation.threshold.value = (float)slider.getValue()/1000f;\r
- ap.repaint();\r
- }\r
- });\r
-\r
+ valueField.setText(slider.getValue() + "");\r
+ valueChanged(slider.getValue());\r
+ }\r
+ });\r
+\r
+ slider.setValue(value);\r
+ valueField.setText(value + "");\r
+ }\r
+\r
+ /**\r
+ * DOCUMENT ME!\r
+ *\r
+ * @param ap DOCUMENT ME!\r
+ * @param cs DOCUMENT ME!\r
+ * @param source DOCUMENT ME!\r
+ *\r
+ * @return DOCUMENT ME!\r
+ */\r
+ public static int setConservationSlider(AlignmentPanel ap,\r
+ ColourSchemeI cs, String source)\r
+ {\r
+ SliderPanel sp = null;\r
+\r
+ if (conservationSlider == null)\r
+ {\r
+ sp = new SliderPanel(ap, cs.getConservationInc(), true, cs);\r
+ conservationSlider = new JInternalFrame();\r
+ conservationSlider.setContentPane(sp);\r
+ conservationSlider.setLayer(JLayeredPane.PALETTE_LAYER);\r
+ }\r
+ else\r
+ {\r
+ sp = (SliderPanel) conservationSlider.getContentPane();\r
+ sp.cs = cs;\r
}\r
\r
+ conservationSlider.setTitle("Conservation Colour Increment (" +\r
+ source + ")");\r
\r
- /**\r
- * DOCUMENT ME!\r
- *\r
- * @param ap DOCUMENT ME!\r
- * @param cs DOCUMENT ME!\r
- * @param source DOCUMENT ME!\r
- *\r
- * @return DOCUMENT ME!\r
- */\r
- public static int setConservationSlider(AlignmentPanel ap,\r
- ColourSchemeI cs, String source)\r
+ if (ap.av.alignment.getGroups() != null)\r
{\r
- SliderPanel sp = null;\r
-\r
- if (conservationSlider == null)\r
- {\r
- sp = new SliderPanel(ap, cs.getConservationInc(), true, cs);\r
- conservationSlider = new JInternalFrame();\r
- conservationSlider.setContentPane(sp);\r
- conservationSlider.setLayer(JLayeredPane.PALETTE_LAYER);\r
- }\r
- else\r
- {\r
- sp = (SliderPanel) conservationSlider.getContentPane();\r
- sp.cs = cs;\r
- }\r
+ sp.setAllGroupsCheckEnabled(true);\r
+ }\r
+ else\r
+ {\r
+ sp.setAllGroupsCheckEnabled(false);\r
+ }\r
\r
- conservationSlider.setTitle("Conservation Colour Increment (" +\r
- source + ")");\r
+ return sp.getValue();\r
+ }\r
\r
- if (ap.av.alignment.getGroups() != null)\r
- {\r
- sp.setAllGroupsCheckEnabled(true);\r
- }\r
- else\r
- {\r
- sp.setAllGroupsCheckEnabled(false);\r
- }\r
-\r
- return sp.getValue();\r
+ /**\r
+ * DOCUMENT ME!\r
+ */\r
+ public static void showConservationSlider()\r
+ {\r
+ try\r
+ {\r
+ PIDSlider.setClosed(true);\r
+ PIDSlider = null;\r
}\r
-\r
- /**\r
- * DOCUMENT ME!\r
- */\r
- public static void showConservationSlider()\r
+ catch (Exception ex)\r
{\r
- try\r
- {\r
- PIDSlider.setClosed(true);\r
- PIDSlider = null;\r
- }\r
- catch (Exception ex)\r
- {\r
- }\r
+ }\r
\r
- if (!conservationSlider.isVisible())\r
+ if (!conservationSlider.isVisible())\r
+ {\r
+ Desktop.addInternalFrame(conservationSlider,\r
+ conservationSlider.getTitle(), 420, 90, false);\r
+ conservationSlider.addInternalFrameListener(new javax.swing.event.\r
+ InternalFrameAdapter()\r
+ {\r
+ public void internalFrameClosed(\r
+ javax.swing.event.InternalFrameEvent e)\r
{\r
- Desktop.addInternalFrame(conservationSlider,\r
- conservationSlider.getTitle(), 420, 90, false);\r
- conservationSlider.addInternalFrameListener(new javax.swing.event.InternalFrameAdapter()\r
- {\r
- public void internalFrameClosed(\r
- javax.swing.event.InternalFrameEvent e)\r
- {\r
- conservationSlider = null;\r
- }\r
- });\r
- conservationSlider.setLayer(JLayeredPane.PALETTE_LAYER);\r
+ conservationSlider = null;\r
}\r
+ });\r
+ conservationSlider.setLayer(JLayeredPane.PALETTE_LAYER);\r
}\r
-\r
- /**\r
- * DOCUMENT ME!\r
- *\r
- * @param ap DOCUMENT ME!\r
- * @param cs DOCUMENT ME!\r
- * @param source DOCUMENT ME!\r
- *\r
- * @return DOCUMENT ME!\r
- */\r
- public static int setPIDSliderSource(AlignmentPanel ap, ColourSchemeI cs,\r
- String source)\r
+ }\r
+\r
+ /**\r
+ * DOCUMENT ME!\r
+ *\r
+ * @param ap DOCUMENT ME!\r
+ * @param cs DOCUMENT ME!\r
+ * @param source DOCUMENT ME!\r
+ *\r
+ * @return DOCUMENT ME!\r
+ */\r
+ public static int setPIDSliderSource(AlignmentPanel ap, ColourSchemeI cs,\r
+ String source)\r
+ {\r
+ SliderPanel pid = null;\r
+\r
+ int threshold = cs.getThreshold();\r
+\r
+ if (PIDSlider == null)\r
+ {\r
+ pid = new SliderPanel(ap, threshold, false, cs);\r
+ PIDSlider = new JInternalFrame();\r
+ PIDSlider.setContentPane(pid);\r
+ PIDSlider.setLayer(JLayeredPane.PALETTE_LAYER);\r
+ }\r
+ else\r
{\r
- SliderPanel pid = null;\r
+ pid = (SliderPanel) PIDSlider.getContentPane();\r
+ pid.cs = cs;\r
+ }\r
\r
- int threshold = cs.getThreshold();\r
+ PIDSlider.setTitle("Percentage Identity Threshold (" + source + ")");\r
\r
- if (PIDSlider == null)\r
- {\r
- pid = new SliderPanel(ap, threshold, false, cs);\r
- PIDSlider = new JInternalFrame();\r
- PIDSlider.setContentPane(pid);\r
- PIDSlider.setLayer(JLayeredPane.PALETTE_LAYER);\r
- }\r
- else\r
- {\r
- pid = (SliderPanel) PIDSlider.getContentPane();\r
- pid.cs = cs;\r
- }\r
+ if (ap.av.alignment.getGroups() != null)\r
+ {\r
+ pid.setAllGroupsCheckEnabled(true);\r
+ }\r
+ else\r
+ {\r
+ pid.setAllGroupsCheckEnabled(false);\r
+ }\r
\r
- PIDSlider.setTitle("Percentage Identity Threshold (" + source + ")");\r
+ return pid.getValue();\r
+ }\r
\r
- if (ap.av.alignment.getGroups() != null)\r
- {\r
- pid.setAllGroupsCheckEnabled(true);\r
- }\r
- else\r
- {\r
- pid.setAllGroupsCheckEnabled(false);\r
- }\r
-\r
- return pid.getValue();\r
+ /**\r
+ * DOCUMENT ME!\r
+ */\r
+ public static void showPIDSlider()\r
+ {\r
+ try\r
+ {\r
+ conservationSlider.setClosed(true);\r
+ conservationSlider = null;\r
}\r
-\r
- /**\r
- * DOCUMENT ME!\r
- */\r
- public static void showPIDSlider()\r
+ catch (Exception ex)\r
{\r
- try\r
- {\r
- conservationSlider.setClosed(true);\r
- conservationSlider = null;\r
- }\r
- catch (Exception ex)\r
- {\r
- }\r
+ }\r
\r
- if (!PIDSlider.isVisible())\r
+ if (!PIDSlider.isVisible())\r
+ {\r
+ Desktop.addInternalFrame(PIDSlider, PIDSlider.getTitle(), 420, 90,\r
+ false);\r
+ PIDSlider.setLayer(JLayeredPane.PALETTE_LAYER);\r
+ PIDSlider.addInternalFrameListener(new javax.swing.event.\r
+ InternalFrameAdapter()\r
+ {\r
+ public void internalFrameClosed(\r
+ javax.swing.event.InternalFrameEvent e)\r
{\r
- Desktop.addInternalFrame(PIDSlider, PIDSlider.getTitle(), 420, 90,\r
- false);\r
- PIDSlider.setLayer(JLayeredPane.PALETTE_LAYER);\r
- PIDSlider.addInternalFrameListener(new javax.swing.event.InternalFrameAdapter()\r
- {\r
- public void internalFrameClosed(\r
- javax.swing.event.InternalFrameEvent e)\r
- {\r
- PIDSlider = null;\r
- }\r
- });\r
- PIDSlider.setLayer(JLayeredPane.PALETTE_LAYER);\r
+ PIDSlider = null;\r
}\r
+ });\r
+ PIDSlider.setLayer(JLayeredPane.PALETTE_LAYER);\r
}\r
-\r
- /**\r
- * DOCUMENT ME!\r
- *\r
- * @param i DOCUMENT ME!\r
- */\r
- public void valueChanged(int i)\r
+ }\r
+\r
+ /**\r
+ * DOCUMENT ME!\r
+ *\r
+ * @param i DOCUMENT ME!\r
+ */\r
+ public void valueChanged(int i)\r
+ {\r
+ if (cs == null)\r
{\r
- if (cs == null)\r
- {System.out.println("cs is null");\r
- return;\r
- }\r
+ return;\r
+ }\r
\r
+ ColourSchemeI toChange = null;\r
+ Vector allGroups = null;\r
+ int groupIndex = 0;\r
\r
+ if (allGroupsCheck.isSelected())\r
+ {\r
+ allGroups = ap.av.alignment.getGroups();\r
+ groupIndex = allGroups.size() - 1;\r
+ }\r
+ else\r
+ {\r
+ toChange = cs;\r
+ }\r
\r
- ColourSchemeI toChange = null;\r
- Vector allGroups = null;\r
- int groupIndex = 0;\r
+ while (groupIndex > -1)\r
+ {\r
+ if (allGroups != null)\r
+ {\r
+ toChange = ( (SequenceGroup) allGroups.get(groupIndex)).cs;\r
\r
- if (allGroupsCheck.isSelected())\r
- {\r
- allGroups = ap.av.alignment.getGroups();\r
- groupIndex = allGroups.size() - 1;\r
- }\r
- else\r
+ if (toChange == null)\r
{\r
- toChange = cs;\r
- }\r
+ groupIndex--;\r
\r
+ continue;\r
+ }\r
+ }\r
\r
- while (groupIndex > -1)\r
+ if (forConservation)\r
+ {\r
+ if (toChange.conservationApplied())\r
{\r
- if (allGroups != null)\r
- {\r
- toChange = ((SequenceGroup) allGroups.get(groupIndex)).cs;\r
-\r
- if (toChange == null)\r
- {\r
- groupIndex--;\r
-\r
- continue;\r
- }\r
- }\r
-\r
- if (forConservation)\r
- {\r
- if (toChange.conservationApplied())\r
- {\r
- toChange.setConservationInc(i);\r
- }\r
- }\r
- else\r
- {\r
- toChange.setThreshold(i, ap.av.getIgnoreGapsConsensus());\r
- }\r
-\r
- groupIndex--;\r
+ toChange.setConservationInc(i);\r
}\r
+ }\r
+ else\r
+ {\r
+ toChange.setThreshold(i, ap.av.getIgnoreGapsConsensus());\r
+ }\r
\r
- ap.seqPanel.seqCanvas.repaint();\r
+ groupIndex--;\r
}\r
\r
- /**\r
- * DOCUMENT ME!\r
- *\r
- * @param b DOCUMENT ME!\r
- */\r
- public void setAllGroupsCheckEnabled(boolean b)\r
+ ap.seqPanel.seqCanvas.repaint();\r
+ }\r
+\r
+ /**\r
+ * DOCUMENT ME!\r
+ *\r
+ * @param b DOCUMENT ME!\r
+ */\r
+ public void setAllGroupsCheckEnabled(boolean b)\r
+ {\r
+ allGroupsCheck.setEnabled(b);\r
+ }\r
+\r
+ /**\r
+ * DOCUMENT ME!\r
+ *\r
+ * @param e DOCUMENT ME!\r
+ */\r
+ public void valueField_actionPerformed(ActionEvent e)\r
+ {\r
+ try\r
{\r
- allGroupsCheck.setEnabled(b);\r
+ int i = Integer.parseInt(valueField.getText());\r
+ slider.setValue(i);\r
}\r
-\r
- /**\r
- * DOCUMENT ME!\r
- *\r
- * @param e DOCUMENT ME!\r
- */\r
- public void valueField_actionPerformed(ActionEvent e)\r
+ catch (NumberFormatException ex)\r
{\r
- try\r
- {\r
- if (forAnnotation)\r
- {\r
- float f = Float.parseFloat(valueField.getText());\r
- slider.setValue( (int)( f * 1000 ));\r
- }\r
- else\r
- {\r
- int i = Integer.parseInt(valueField.getText());\r
- slider.setValue(i);\r
- }\r
- }\r
- catch (Exception ex)\r
- {\r
- valueField.setText(slider.getValue() + "");\r
- }\r
+ valueField.setText(slider.getValue() + "");\r
}\r
-\r
- /**\r
- * DOCUMENT ME!\r
- *\r
- * @param value DOCUMENT ME!\r
- */\r
- public void setValue(int value)\r
+ }\r
+\r
+ /**\r
+ * DOCUMENT ME!\r
+ *\r
+ * @param value DOCUMENT ME!\r
+ */\r
+ public void setValue(int value)\r
+ {\r
+ slider.setValue(value);\r
+ }\r
+\r
+ /**\r
+ * DOCUMENT ME!\r
+ *\r
+ * @return DOCUMENT ME!\r
+ */\r
+ public int getValue()\r
+ {\r
+ return Integer.parseInt(valueField.getText());\r
+ }\r
+\r
+ public void slider_mouseReleased(MouseEvent e)\r
+ {\r
+ if (ap.overviewPanel != null)\r
{\r
- slider.setValue(value);\r
+ ap.overviewPanel.updateOverviewImage();\r
}\r
+ }\r
\r
- /**\r
- * DOCUMENT ME!\r
- *\r
- * @return DOCUMENT ME!\r
- */\r
- public int getValue()\r
- {\r
- return Integer.parseInt(valueField.getText());\r
- }\r
}\r