alignment.deleteSequence(sequence);\r
}\r
\r
- public void showAll()\r
+ public Vector showAll()\r
{\r
+ Vector revealedSeqs = new Vector();\r
for(int i=0; i<alignment.getHeight()+hiddenSequences.size(); i++)\r
- showSequence(i);\r
+ {\r
+ Vector tmp = showSequence(i);\r
+ for(int t=0; t<tmp.size(); t++)\r
+ revealedSeqs.addElement(tmp.elementAt(t));\r
+ }\r
+ return revealedSeqs;\r
}\r
\r
- public void showSequence(int alignmentIndex)\r
+ public Vector showSequence(int alignmentIndex)\r
{\r
+ Vector revealedSeqs = new Vector();\r
SequenceI repSequence = alignment.getSequenceAt(alignmentIndex);\r
if(repSequence!=null\r
&& repSequence.getHiddenSequences()==null\r
SequenceI seq = (SequenceI)hiddenSequences.remove(new Integer(\r
index));\r
\r
+\r
if(seq!=null)\r
{\r
+ revealedSeqs.addElement(seq);\r
alignment.getSequences().insertElementAt(seq, alignmentIndex);\r
if(repSequence!=null)\r
{\r
}\r
}\r
}\r
+\r
+ return revealedSeqs;\r
}\r
\r
public Hashtable getHiddenSequences()\r