[Biopython] Read sequence from file

[Horea Chrristian]

Then why not add an argument to control that behaviour? 

Cheers?


On Fre, 2015-02-27 at 09:07 +0000, Peter Cock wrote:

> On Fri, Feb 27, 2015 at 4:42 AM, Horea Chrristian <h.chr at mail.ru> wrote:
> > Many thanks,
> >
> > from Bio.Seq import Seq
> > from Bio.Alphabet import generic_dna
> > with open("my_example.txt") as handle:
> >     my_seq = Seq(handle.read().strip(), generic_dna)
> >
> > solves it just fine. I would want one sequence regardless the line breaks,
> > but that is not relly that important.
> 
> Then try:
> 
> my_seq = Seq("".join(handle.read().strip().split()), generic_dna)
> 
> > What do you mean by "Right now" - will this likely change soon?
> >
> > Chhers,
> 
> We could add a "raw" format to Bio.SeqIO if there was a clear
> motivating use-case or user demand. I'm a little wary because
> of ambiguities like if some people would expect multiple lines
> to be separate sequences or not.
> 
> Regards,
> 
> Peter


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