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Restore travis builds #6

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cmungall opened this issue May 2, 2017 · 7 comments
Open

Restore travis builds #6

cmungall opened this issue May 2, 2017 · 7 comments
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@cmungall
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cmungall commented May 2, 2017

Should run within pyvenv

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cmungall commented May 2, 2017

This is quite tricky, perhaps because of scipy dependency

Processing scipy-0.19.0.zip
Writing /tmp/easy_install-1wagn_gi/scipy-0.19.0/setup.cfg
Running scipy-0.19.0/setup.py -q bdist_egg --dist-dir /tmp/easy_install-1wagn_gi/scipy-0.19.0/egg-dist-tmp-ff_9yxm1
/tmp/easy_install-1wagn_gi/scipy-0.19.0/setup.py:323: UserWarning: Unrecognized setuptools command, proceeding with generating Cython sources and expanding templates
  warnings.warn("Unrecognized setuptools command, proceeding with "
/home/travis/virtualenv/python3.5.2/lib/python3.5/site-packages/numpy/distutils/system_info.py:1532: UserWarning: 
    Atlas (http://math-atlas.sourceforge.net/) libraries not found.
    Directories to search for the libraries can be specified in the
    numpy/distutils/site.cfg file (section [atlas]) or by setting
    the ATLAS environment variable.
  warnings.warn(AtlasNotFoundError.__doc__)
/home/travis/virtualenv/python3.5.2/lib/python3.5/site-packages/numpy/distutils/system_info.py:1543: UserWarning: 
    Lapack (http://www.netlib.org/lapack/) libraries not found.
    Directories to search for the libraries can be specified in the
    numpy/distutils/site.cfg file (section [lapack]) or by setting
    the LAPACK environment variable.
  warnings.warn(LapackNotFoundError.__doc__)
/home/travis/virtualenv/python3.5.2/lib/python3.5/site-packages/numpy/distutils/system_info.py:1546: UserWarning: 
    Lapack (http://www.netlib.org/lapack/) sources not found.
    Directories to search for the sources can be specified in the
    numpy/distutils/site.cfg file (section [lapack_src]) or by setting
    the LAPACK_SRC environment variable.
  warnings.warn(LapackSrcNotFoundError.__doc__)
Running from scipy source directory.
non-existing path in 'scipy/integrate': 'quadpack.h'
error: no lapack/blas resources found

One option is a limited install and don't run any tests that depend on scipy

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May be related: Planteome/biolink-api#2 (comment)

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cmungall commented Jul 3, 2017

We probably want to do this: travis-ci/travis-ci#2650 (comment)

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cmungall commented Jul 3, 2017

arghh, can't persuade travis to come back on

image

but it refuses to trigger jobs

cmungall added a commit that referenced this issue Jul 21, 2017
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cmungall added a commit that referenced this issue Jul 22, 2017
@cmungall
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Filed a bug: travis-ci/travis-ci#8142

@cmungall cmungall changed the title Configure travis Restore travis builds Jul 22, 2017
@cmungall
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OK, travis issue fixed.

Now seems to be getting stuck installing pandas...

cmungall added a commit that referenced this issue Jul 22, 2017
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