[Biopython-dev] Pypy2 on Win7 x64, numpy problem

[Manlio Calvi]

I tried to install their Numpy (the Numpypy project) because I read
about their difficulties about porting Cpython Numpy but even with
that I get errors everywhere and don't compile it.
OK giving the tests ignore Numpy(py) I'll try to build biopython against it.



On Mon, Apr 28, 2014 at 2:51 PM, Peter Cock <p.j.a.cock at googlemail.com> wrote:
> On Mon, Apr 28, 2014 at 9:09 AM, Manlio Calvi <manlio.calvi at gmail.com> wrote:
>> Hi all,
>>
>> Yesterday, after a short break on compiling, I tried to build my pypy
>> 2 stack to run the biopython tests on it, the problem is on numpy, for
>> every thing I tried to compile their numpy version I failed, out of
>> curiosity I tried to compile numpy on pypy3 but get even worse. In the
>> end both don't compile, at this point I stopped after looking my pypy
>> envs are sane.
>>
>> Manlio
>
> NumPy has a ton of C code, and will not work on PyPy.
> Attempting to compile/install NumPy under PyPy is a waste
> of time.
>
> However, the PyPy team are reimplementing (some of)
> NumPy themselves as the NumPyPy project - see e.g.
> http://buildbot.pypy.org/numpy-status/latest.html
>
> Currently Biopython ignores NumPy (and NumPyPy) under
> PyPy - last time I did a proper test there were still too many
> things missing to make it worth the effort.
>
> However, this is something we should review - I would hope
> by now that at least the PDB parsing code might work - even
> if things like SVD and numpy.linalg are not available on PyPy.
>
> Similarly, NumPy won't work under Jython.
>
> Peter