coderet

[Edgar Crowdy]

Claude Beazley wrote:
> I've noticed that most emboss apps that produce a sequence file use the -outseq parameter whereas coderet seems to use -seqout shouldn't this be kept consistant?

"seqout" is an ACD datatype, and codret is using a datatype name as a 
parameter name, which is probably not a great idea. But, as much as I'm 
all for consistency, I think you have to assume that parameter names could 
be anything.  "outseq" is a popular parameter name for output files of 
type "seqout", "seqoutall", and "seqoutset", and is actually only used 
about 20 times in EMBOSS.

-- 
Edgar Crowdy, Programmer                crowdy at bioinfo.sickkids.on.ca
Centre for Computational Biology, Hospital for Sick Children, Toronto