Re: RE:Help running tests in python-biom-format

[Tim Booth <tbooth@ceh.ac.uk>]

Hi Andreas,

I second that - the tests run fine if I do:

cd python-biom-format-1.2.0/python-code
env PYTHONPATH=../build/lib.linux-x86_64-2.7/biom nosetests

Also, if I have python-biom-format installed then the commands work fine
and I can do:

cd ~ ; python -c 'import biom.sparsemat'

But within the python-code directory the above command fails, as it
picks up the local biom/sparsemat.py module but is missing
_sparsemat.so.

Or is that not working on Sid?

Cheers,

TIM

On Tue, 2013-11-12 at 10:32 +0000, PICCA Frederic-Emmanuel wrote:
> Hell andreas
> 
> for numexpr we are doing like this.
> you need to set the PYTHONPATh in order to find the extension
> 
> 
> override_dh_auto_test:
> ifeq (,$(filter nocheck,$(DEB_BUILD_OPTIONS)))
> 
>         set -e -x;\
>         for py in $(PY2VERS) $(PY3VERS); do \
>                 cd $(CURDIR)/build/lib.*-$$py;\
>                 env PYTHONPATH=. python$$py numexpr/tests/test_numexpr.py;\
>                 cd $(CURDIR)/build/lib.*-$$py-pydebug;\
>                 env PYTHONPATH=. python$$py-dbg numexpr/tests/test_numexpr.py;\
>         done
> 
> endif
> 
> 
> cheers
> 
> Fred

-- 
Tim Booth <tbooth@ceh.ac.uk>
NERC Environmental Bioinformatics Centre 

Centre for Ecology and Hydrology
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