Robin -
How about overloading the constructor? That way if you provide a TreeMap the result
is ordered. If not you get what you get. Many classes are dependent on SimpleAlignment
so it may not pay to change it too much.
- Mark
-----Original Message-----
From: Emig, Robin [mailto:[EMAIL PROTECTED]
Sent: Mon 15/09/2003 3:04 p.m.
To: bio java
Cc:
Subject: [Biojava-l] Simple alignment
Is there any objection to making SimpleAlignment take a TreeMap
instead of a simple Map? The reason is that order of the sequences in the alignment is
often of importance. I suppose the alternative is to create a new alignment called
OrderedAlignment.
-Robin
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