protected Vector groups = new Vector();\r
protected ArrayList superGroup = new ArrayList();\r
protected char gapCharacter = '-';\r
+ public boolean featuresAdded = false;\r
\r
/** Make an alignment from an array of Sequences.\r
*\r
}\r
\r
/** Adds a sequence to the alignment. Recalculates maxLength and size.\r
- * Should put the new sequence in a sequence group!!!\r
*\r
* @param snew\r
*/\r
}\r
\r
/** Adds a sequence to the alignment. Recalculates maxLength and size.\r
- * Should put the new sequence in a sequence group!!!\r
- *\r
+ *\r
* @param snew\r
*/\r
public void setSequenceAt(int i,SequenceI snew) {\r
deleteSequence(oldseq);\r
\r
sequences.setElementAt(snew,i);\r
-\r
- ((SequenceGroup)groups.lastElement()).addSequence(snew);\r
}\r
\r
public Vector getGroups() {\r