[Biopython-dev] CI for Windows

[Peter Cock]

Hello all,

By copying the NumPy AppVeyor setup, I was able to get a useful
Windows test run on my first attempt for Biopython (running via my
personal fork, not the official GitHub repository):

https://github.com/numpy/numpy/blob/master/appveyor.yml

https://github.com/peterjc/biopython/blob/appveyor/.appveyor.yml

https://ci.appveyor.com/project/peterjc/biopython/build/0.0.1

Interestingly even though initially run with a minimal set of
dependencies this has shown up some errors under Python 3 - despite
not being reported as a failure (which I've since solved by calling
run_tests.py directly), logged here:

https://github.com/biopython/biopython/issues/1257

I went a little further and enabled the BioSQL tests and several other
Python dependencies:

https://ci.appveyor.com/project/peterjc/biopython/build/0.0.5

This still has a lot of scope for improvement.

Right now the tests seem not to be using the compiled bits of
Biopython (e.g. test_KDTree.py, likely a path issue, or down to using
pip over setup.py directly for the install).

It might make sense to share the same Tox setup we use for the Linux
TravisCI checks covering a range of Python versions and optional
dependencies.

Also, there is the possibility of using AppVeyor to build the Windows
installers and wheels for each release...

Peter



On Sat, Nov 19, 2016 at 11:02 PM, Peter Cock <p.j.a.cock at googlemail.com> wrote:
> Hi Shyam,
>
> I'm definitely interested!
>
> Ben Fulton (CC'd) had a look at this a while back,
> I'm not sure how close he got but we don't yet have
> anything included in the main Biopython repository
> on GitHub yet:
>
> https://github.com/benfulton/biopython/tree/appveyor
>
> On a related point, I hope to replace the only regular
> Windows Buildbot machine which is a very elderly
> 32 bit Windows XP machine with a Windows 7
> machine later this year:
>
> http://testing.open-bio.org/biopython/tgrid
>
> Peter
>
> On Sat, Nov 19, 2016 at 9:24 PM, Shyam Saladi <saladi at caltech.edu> wrote:
>> Hi all --
>>
>> Is there any interest in setting up continuous integration testing for
>> Windows? I recently did this for another, perhaps toy, software package
>> using AppVeyor and would be willing to try my hand with biopython.
>>
>> Thanks,
>> Shyam
>>