Matcher

[Peter Rice]

Vilanova,David,LAUSANNE,NRC/BS wrote:
> Dear all,
> I was wondering if matcher program accepts a sequence via stdin.
>  
> the following exemple doesn't work for me.
>  
> matcher -sequencea 'ATGCGA' -sequenceb 'ATCTAGATATGCGA'
> 
>>cannot open ATGCGA file for read.
> 
>  
> Is there anyway to submit a sequence via stdin ???

You don't mean stdin (that can only read one sequence anyway) ... you mean 
"can I specify a sequence on the command line?"

Yes!!!! You need the "asis" special format.

matcher -sequencea 'asis::ATGCGA' -sequenceb 'asis::ATCTAGATATGCGA'

(assuming your shell allows the command line to be long enough for your 
sequences :-)

Hope this helps

Peter

-- 
------------------------------------------------
Peter Rice, LION Bioscience Ltd, Cambridge, UK
peter.rice at uk.lionbioscience.com +44 1223 224723