[BioPython] Parsing of phd file names in Ace

[Frank Kauff]

On Fri, 2004-02-06 at 10:56, Andrew Nunberg wrote:
> Something else I noticed.
> 
> If you make an ace file with phd2Ace.perl in the consed package, the
> resulting ace file breaks the parser
> 

I just fixed a problem with the previous parser where rt tags between
reads broke the parser. That could be the reason for your problem. If
the problem persists with the new parser, please send me the ace file
and I'd be happy to look at it. Unfortunately the specification for ace
files are not very precise about where certain tags are allowed to
appear etc. I assume we might be in for some more surprises with ace
files not generated by phrap itself :-)

Frank

> Andy
> 
> Oh, yes I will be using it quite a bit for  a while.
> 
> Also, has someone implimented a python API for Primer3 ? Something that will
> execute and parse the results?
> 
> I am currently using the Perl one and don¹t have time to switch that script
> to python
-- 
Frank Kauff
Dept. of Biology
Duke University
Box 90338
Durham, NC 27708
USA

Phone 919-660-7382
Fax 919-660-7293