/*\r
* Jalview - A Sequence Alignment Editor and Viewer\r
- * Copyright (C) 2006 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.appletgui;\r
\r
-import jalview.datamodel.*;\r
+import java.util.*;\r
\r
import java.awt.*;\r
\r
-import java.util.*;\r
-\r
+import jalview.datamodel.*;\r
\r
/**\r
* DOCUMENT ME!\r
*/\r
public class PaintRefresher\r
{\r
- static Hashtable components;\r
-\r
- /**\r
- * DOCUMENT ME!\r
- *\r
- * @param comp DOCUMENT ME!\r
- * @param al DOCUMENT ME!\r
- */\r
- public static void Register(Component comp, String seqSetId)\r
+ static Hashtable components;\r
+\r
+ /**\r
+ * DOCUMENT ME!\r
+ *\r
+ * @param comp DOCUMENT ME!\r
+ * @param al DOCUMENT ME!\r
+ */\r
+ public static void Register(Component comp, String seqSetId)\r
+ {\r
+ if (components == null)\r
{\r
- if (components == null)\r
- components = new Hashtable();\r
+ components = new Hashtable();\r
+ }\r
\r
- if (components.containsKey(seqSetId))\r
- {\r
- Vector comps = (Vector) components.get(seqSetId);\r
- if(!comps.contains(comp))\r
- {\r
- comps.addElement(comp);\r
- }\r
- }\r
- else\r
- {\r
- Vector vcoms = new Vector();\r
- vcoms.addElement(comp);\r
- components.put(seqSetId, vcoms);\r
- }\r
+ if (components.containsKey(seqSetId))\r
+ {\r
+ Vector comps = (Vector) components.get(seqSetId);\r
+ if (!comps.contains(comp))\r
+ {\r
+ comps.addElement(comp);\r
+ }\r
}\r
+ else\r
+ {\r
+ Vector vcoms = new Vector();\r
+ vcoms.addElement(comp);\r
+ components.put(seqSetId, vcoms);\r
+ }\r
+ }\r
\r
- public static void RemoveComponent(Component comp)\r
+ public static void RemoveComponent(Component comp)\r
+ {\r
+ if (components == null)\r
{\r
- if (components == null)\r
- return;\r
+ return;\r
+ }\r
\r
- Enumeration en = components.keys();\r
- while(en.hasMoreElements())\r
+ Enumeration en = components.keys();\r
+ while (en.hasMoreElements())\r
+ {\r
+ String id = en.nextElement().toString();\r
+ Vector comps = (Vector) components.get(id);\r
+ comps.removeElement(comp);\r
+ if (comps.size() == 0)\r
{\r
- String id = en.nextElement().toString();\r
- Vector comps = (Vector) components.get(id);\r
- comps.removeElement(comp);\r
- if(comps.size()==0)\r
- {\r
- components.remove(id);\r
- }\r
+ components.remove(id);\r
}\r
}\r
-\r
- public static void Refresh(Component source, String id)\r
+ }\r
+\r
+ public static void Refresh(Component source, String id)\r
+ {\r
+ Refresh(source, id, false, false);\r
+ }\r
+\r
+ public static void Refresh(Component source,\r
+ String id,\r
+ boolean alignmentChanged,\r
+ boolean validateSequences)\r
+ {\r
+ if (components == null)\r
{\r
- Refresh( source, id, false, false);\r
+ return;\r
}\r
\r
- public static void Refresh(Component source,\r
- String id,\r
- boolean alignmentChanged,\r
- boolean validateSequences)\r
+ Component comp;\r
+ Vector comps = (Vector) components.get(id);\r
+\r
+ if (comps == null)\r
{\r
- if (components == null)\r
- return;\r
+ return;\r
+ }\r
\r
- Component comp;\r
- Vector comps = (Vector) components.get(id);\r
+ Enumeration e = comps.elements();\r
+ while (e.hasMoreElements())\r
+ {\r
+ comp = (Component) e.nextElement();\r
\r
- if(comps==null)\r
+ if (comp == source)\r
{\r
- return;\r
+ continue;\r
}\r
\r
- Enumeration e = comps.elements();\r
- while (e.hasMoreElements())\r
+ if (!comp.isValid())\r
{\r
- comp = (Component) e.nextElement();\r
-\r
- if(comp==source)\r
- {\r
- continue;\r
- }\r
+ comps.removeElement(comp);\r
+ }\r
+ else if (validateSequences\r
+ && comp instanceof AlignmentPanel\r
+ && source instanceof AlignmentPanel)\r
+ {\r
+ validateSequences( ( (AlignmentPanel) source).av.alignment,\r
+ ( (AlignmentPanel) comp).av.alignment);\r
+ }\r
\r
- if (!comp.isValid())\r
- {\r
- comps.removeElement(comp);\r
- }\r
- else if(validateSequences\r
- && comp instanceof AlignmentPanel\r
- && source instanceof AlignmentPanel )\r
- {\r
- validateSequences( ((AlignmentPanel)source).av.alignment,\r
- ((AlignmentPanel)comp).av.alignment);\r
- }\r
+ if (comp instanceof AlignmentPanel && alignmentChanged)\r
+ {\r
+ ( (AlignmentPanel) comp).alignmentChanged();\r
+ }\r
\r
- if(comp instanceof AlignmentPanel && alignmentChanged)\r
- {\r
- ((AlignmentPanel)comp).alignmentChanged();\r
- }\r
+ comp.repaint();\r
+ }\r
+ }\r
\r
- comp.repaint();\r
- }\r
+ static void validateSequences(AlignmentI source, AlignmentI comp)\r
+ {\r
+ SequenceI[] a1;\r
+ if (source.getHiddenSequences().getSize() > 0)\r
+ {\r
+ a1 = source.getHiddenSequences().getFullAlignment().getSequencesArray();\r
+ }\r
+ else\r
+ {\r
+ a1 = source.getSequencesArray();\r
}\r
\r
- static void validateSequences(AlignmentI source, AlignmentI comp)\r
+ SequenceI[] a2;\r
+ if (comp.getHiddenSequences().getSize() > 0)\r
{\r
- SequenceI[] a1;\r
- if(source.getHiddenSequences().getSize()>0)\r
- a1 = source.getHiddenSequences().getFullAlignment().getSequencesArray();\r
- else\r
- a1 = source.getSequencesArray();\r
+ a2 = comp.getHiddenSequences().getFullAlignment().getSequencesArray();\r
+ }\r
+ else\r
+ {\r
+ a2 = comp.getSequencesArray();\r
+ }\r
\r
- SequenceI[] a2;\r
- if (comp.getHiddenSequences().getSize() > 0)\r
- a2 = comp.getHiddenSequences().getFullAlignment().getSequencesArray();\r
- else\r
- a2 = comp.getSequencesArray();\r
+ int i, iSize = a1.length, j, jSize = a2.length;\r
\r
- int i, iSize=a1.length, j, jSize=a2.length;\r
+ if (iSize == jSize)\r
+ {\r
+ return;\r
+ }\r
\r
- if(iSize == jSize)\r
- return;\r
+ boolean exists = false;\r
+ for (i = 0; i < iSize; i++)\r
+ {\r
+ exists = false;\r
\r
- boolean exists = false;\r
- for(i=0; i<iSize; i++)\r
+ for (j = 0; j < jSize; j++)\r
{\r
- exists = false;\r
-\r
- for(j=0; j<jSize; j++)\r
- if (a2[j]==a1[i] )\r
- {\r
- exists = true;\r
- break;\r
- }\r
+ if (a2[j] == a1[i])\r
+ {\r
+ exists = true;\r
+ break;\r
+ }\r
+ }\r
\r
- if(!exists)\r
+ if (!exists)\r
+ {\r
+ if (i < jSize)\r
{\r
- if (i < jSize)\r
- comp.getSequences().insertElementAt(a1[i], i);\r
- else\r
- comp.addSequence(a1[i]);\r
+ comp.getSequences().insertElementAt(a1[i], i);\r
+ }\r
+ else\r
+ {\r
+ comp.addSequence(a1[i]);\r
+ }\r
\r
- jSize++;\r
+ jSize++;\r
\r
- if (comp.getHiddenSequences().getSize() > 0)\r
- a2 = comp.getHiddenSequences().getFullAlignment().getSequencesArray();\r
- else\r
- a2 = comp.getSequencesArray();\r
+ if (comp.getHiddenSequences().getSize() > 0)\r
+ {\r
+ a2 = comp.getHiddenSequences().getFullAlignment().getSequencesArray();\r
+ }\r
+ else\r
+ {\r
+ a2 = comp.getSequencesArray();\r
}\r
}\r
+ }\r
\r
- iSize=a1.length;\r
- jSize=a2.length;\r
+ iSize = a1.length;\r
+ jSize = a2.length;\r
\r
- for(j=0; j<jSize; j++)\r
+ for (j = 0; j < jSize; j++)\r
+ {\r
+ exists = false;\r
+ for (i = 0; i < iSize; i++)\r
{\r
- exists = false;\r
- for(i=0; i<iSize; i++)\r
+ if (a2[j] == a1[i])\r
{\r
- if (a2[j]==a1[i])\r
- {\r
- exists = true;\r
- break;\r
- }\r
+ exists = true;\r
+ break;\r
}\r
+ }\r
\r
- if(!exists)\r
- {\r
- comp.deleteSequence(a2[j]);\r
- }\r
+ if (!exists)\r
+ {\r
+ comp.deleteSequence(a2[j]);\r
}\r
}\r
+ }\r
}\r
git://source.jalview.org / jalview.git / blobdiff