[Biopython-dev] Bio.File

João Rodrigues anaryin at gmail.com
Mon Oct 17 12:10:40 EDT 2011

Hi Peter,

To be honest, I didn't see much of a point to use the module but for
consistency's sake.

I grep'ed Bio.File in my biopython dir and I got a few more modules with
Bio.File, don't know if you were aware.

Bio/Application/__init__.py:from Bio import File
Bio/Blast/NCBIStandalone.py:from Bio import File
Bio/PDB/parse_pdb_header.py:from Bio import File
Bio/Phylo/_io.py:from Bio import File
Bio/SCOP/__init__.py:    from Bio import File

Just wanting to clear my doubts about this, thanks!


João [...] Rodrigues

2011/10/17 Peter Cock <p.j.a.cock at googlemail.com>

> On Mon, Oct 17, 2011 at 4:13 PM, João Rodrigues <anaryin at gmail.com> wrote:
> > Hey Peter, all,
> > Sorry to peek in. I was going over some code lately together with Eric
> and
> > he suggested I use Bio.File as it was done in plenty of Bio.*IO modules.
> > What is this deprecation about then?
> > Cheers,
> Hi João,
> Perhaps you misunderstood Eric, Bio.File is not used widely at all.
> See Michiel's email at the start of this thread:
> http://lists.open-bio.org/pipermail/biopython-dev/2011-September/009144.html
> Peter

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