[Biopython-dev] Numeric dependencies, PDBParser.py

[Peter]

On Nov 29, 2007 9:50 PM, Jonathan Hilmer <jkhilmer at gmail.com> wrote:
> Sorry if this has been covered before, but I'm new to the list and
> haven't found anything searching through the archives.
>
> I'm trying to use BioPython with 2.5 but I see that that PDBParser
> requires Numeric.

Is there a problem installing Numeric? There is nothing to prevent you having
both Numeric and NumPy installed on the same machine.

> Is there any way to update this dependency besides
> running tools to automatically alter code
> (numpy.oldnumeric.alter_code1)?

Because Biopython also has some C code, moving the project as a whole
from Numeric to NumPy is non-trivial. You could try the patch on Bug 2251,

http://bugzilla.open-bio.org/show_bug.cgi?id=2251

Peter