scipy installation in ubuntu 14.04 failed

Question

I'm running Ubuntu 14.04 through VMWare Workstation 11 and virtual env and I've tried to install scipy via:

sudo pip install scipy

and got this as console output:

  Downloading scipy-0.17.0.tar.gz (12.4MB)
    100% |████████████████████████████████| 12.4MB 115kB/s 
Installing collected packages: scipy
  Running setup.py install for scipy ... error
    Complete output from command /usr/bin/python -u -c "import setuptools, tokenize;__file__='/tmp/pip-build-C9op9y/scipy/setup.py';exec(compile(getattr(tokenize, 'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" install --record /tmp/pip-4yRNRk-record/install-record.txt --single-version-externally-managed --compile:
    lapack_opt_info:
    openblas_lapack_info:
      libraries openblas not found in ['/usr/local/lib', '/usr/lib', '/usr/lib/x86_64-linux-gnu']
      NOT AVAILABLE

lapack_mkl_info:
mkl_info:
  libraries mkl,vml,guide not found in ['/usr/local/lib', '/usr/lib', '/usr/lib/x86_64-linux-gnu']
  NOT AVAILABLE

  NOT AVAILABLE

atlas_3_10_threads_info:
Setting PTATLAS=ATLAS
  libraries tatlas,tatlas not found in /usr/local/lib
  libraries lapack_atlas not found in /usr/local/lib
  libraries tatlas,tatlas not found in /usr/lib
  libraries lapack_atlas not found in /usr/lib
  libraries tatlas,tatlas not found in /usr/lib/x86_64-linux-gnu
  libraries lapack_atlas not found in /usr/lib/x86_64-linux-gnu
<class 'numpy.distutils.system_info.atlas_3_10_threads_info'>
  NOT AVAILABLE

atlas_3_10_info:
  libraries satlas,satlas not found in /usr/local/lib
  libraries lapack_atlas not found in /usr/local/lib
  libraries satlas,satlas not found in /usr/lib
  libraries lapack_atlas not found in /usr/lib
  libraries satlas,satlas not found in /usr/lib/x86_64-linux-gnu
  libraries lapack_atlas not found in /usr/lib/x86_64-linux-gnu
<class 'numpy.distutils.system_info.atlas_3_10_info'>
  NOT AVAILABLE

atlas_threads_info:
Setting PTATLAS=ATLAS
  libraries ptf77blas,ptcblas,atlas not found in /usr/local/lib
  libraries lapack_atlas not found in /usr/local/lib
  libraries ptf77blas,ptcblas,atlas not found in /usr/lib
  libraries lapack_atlas not found in /usr/lib
  libraries ptf77blas,ptcblas,atlas not found in /usr/lib/x86_64-linux-gnu
  libraries lapack_atlas not found in /usr/lib/x86_64-linux-gnu
<class 'numpy.distutils.system_info.atlas_threads_info'>
  NOT AVAILABLE

atlas_info:
  libraries f77blas,cblas,atlas not found in /usr/local/lib
  libraries lapack_atlas not found in /usr/local/lib
  libraries f77blas,cblas,atlas not found in /usr/lib
  libraries lapack_atlas not found in /usr/lib
  libraries f77blas,cblas,atlas not found in /usr/lib/x86_64-linux-gnu
  libraries lapack_atlas not found in /usr/lib/x86_64-linux-gnu
<class 'numpy.distutils.system_info.atlas_info'>
  NOT AVAILABLE

/usr/local/lib/python2.7/dist-packages/numpy/distutils/system_info.py:1542: 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__)
lapack_info:
  libraries lapack not found in ['/usr/local/lib', '/usr/lib', '/usr/lib/x86_64-linux-gnu']
  NOT AVAILABLE

/usr/local/lib/python2.7/dist-packages/numpy/distutils/system_info.py:1553: 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__)
lapack_src_info:
  NOT AVAILABLE

/usr/local/lib/python2.7/dist-packages/numpy/distutils/system_info.py:1556: 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__)
  NOT AVAILABLE

Running from scipy source directory.
Traceback (most recent call last):
  File "<string>", line 1, in <module>
  File "/tmp/pip-build-C9op9y/scipy/setup.py", line 265, in <module>
    setup_package()
  File "/tmp/pip-build-C9op9y/scipy/setup.py", line 262, in setup_package
    setup(**metadata)
  File "/usr/local/lib/python2.7/dist-packages/numpy/distutils/core.py", line 135, in setup
    config = configuration()
  File "/tmp/pip-build-C9op9y/scipy/setup.py", line 182, in configuration
    config.add_subpackage('scipy')
  File "/usr/local/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 1003, in add_subpackage
    caller_level = 2)
  File "/usr/local/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 972, in get_subpackage
    caller_level = caller_level + 1)
  File "/usr/local/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 909, in _get_configuration_from_setup_py
    config = setup_module.configuration(*args)
  File "scipy/setup.py", line 15, in configuration
    config.add_subpackage('linalg')
  File "/usr/local/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 1003, in add_subpackage
    caller_level = 2)
  File "/usr/local/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 972, in get_subpackage
    caller_level = caller_level + 1)
  File "/usr/local/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 909, in _get_configuration_from_setup_py
    config = setup_module.configuration(*args)
  File "scipy/linalg/setup.py", line 20, in configuration
    raise NotFoundError('no lapack/blas resources found')
numpy.distutils.system_info.NotFoundError: no lapack/blas resources found

----------------------------------------
Command "/usr/bin/python -u -c "import setuptools, tokenize;__file__='/tmp/pip-build-C9op9y/scipy/setup.py';exec(compile(getattr(tokenize, 'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" install --record /tmp/pip-4yRNRk-record/install-record.txt --single-version-externally-managed --compile" failed with error code 1 in /tmp/pip-build-C9op9y/scipy/
/usr/local/lib/python2.7/dist-packages/pip-8.1.1-py2.7.egg/pip/_vendor/requests/packages/urllib3/util/ssl_.py:120: InsecurePlatformWarning: A true SSLContext object is not available. This prevents urllib3 from configuring SSL appropriately and may cause certain SSL connections to fail. For more information, see https://urllib3.readthedocs.org/en/latest/security.html#insecureplatformwarning.
  InsecurePlatformWarning

Any idea what might cause this?

score 3 · Accepted Answer · answered Mar 31 '16 at 18:41

3

Clearly openBLAS isn't installed. You can get it from http://www.openblas.net/ and then compile it from source.

A much easier way to install scipy is of course just

apt-get install python-scipy

answered Mar 31 '16 at 18:41

joosteto

198
5

3

This works but is going to install a somewhat outdate version. One can do `apt-get build-dep python-scipy` and *then* pip install scipy – ev-br Apr 01 '16 at 15:25

score 1 · Answer 2 · edited May 23 '17 at 11:50

1

Take a look here, some external packages are needed.

The full install guide is over there, but the validated answer on the previous link provides good insights.

edited May 23 '17 at 11:50

Community

1
1

answered Mar 31 '16 at 18:41

Tym

90
8

scipy installation in ubuntu 14.04 failed

2 Answers2