[Bioperl-l] Bio::SearchIO::amps and Bio::SearchIO::mrbayes_nexus

[Matthew Betts]

Hi,

I was thinking of writing a Bio::SearchIO module for AMPS block format. 
This is the format used by alscript and stamp. Both of these come with 
format converters, but would be useful for me to do it within bioperl. OK 
for me to write Bio::SearchIO::amps, or is there something else already? 
Is that name OK?

Secondly, MrBayes doesn't like some things in the Nexus format output by 
Bio::SearchIO::nexus (the 'symbols' parameter, and it expects 'end;' 
rather than 'endblock;') even though they're valid nexus... OK to copy 
Bio::SearchIO::nexus to Bio::SearchIO::mrbayes_nexus and make the 
necessary changes, or is there a better way? (Though a full nexus parser 
and flexible outputter looks like a nightmare...)

Thanks,

Matthew