Ticket #21972: scipy-0.17.1.p0.log

Found local metadata for scipy-0.17.1.p0
Using cached file /usr/local/src/sage-config/upstream/scipy-0.17.1.tar.gz
scipy-0.17.1.p0
====================================================
Setting up build directory for scipy-0.17.1.p0
Finished extraction
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Host system:
Linux tamiyo 3.17.7-gentoo #1 SMP PREEMPT Wed Dec 31 20:06:39 CET 2014 x86_64 Intel(R) Core(TM) i7-2640M CPU @ 2.80GHz GenuineIntel GNU/Linux
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C compiler: gcc
C compiler version:
Using built-in specs.
COLLECT_GCC=/usr/x86_64-pc-linux-gnu/gcc-bin/4.9.4/gcc
COLLECT_LTO_WRAPPER=/usr/libexec/gcc/x86_64-pc-linux-gnu/4.9.4/lto-wrapper
Target: x86_64-pc-linux-gnu
Configured with: /var/tmp/portage/sys-devel/gcc-4.9.4/work/gcc-4.9.4/configure --host=x86_64-pc-linux-gnu --build=x86_64-pc-linux-gnu --prefix=/usr --bindir=/usr/x86_64-pc-linux-gnu/gcc-bin/4.9.4 --includedir=/usr/lib/gcc/x86_64-pc-linux-gnu/4.9.4/include --datadir=/usr/share/gcc-data/x86_64-pc-linux-gnu/4.9.4 --mandir=/usr/share/gcc-data/x86_64-pc-linux-gnu/4.9.4/man --infodir=/usr/share/gcc-data/x86_64-pc-linux-gnu/4.9.4/info --with-gxx-include-dir=/usr/lib/gcc/x86_64-pc-linux-gnu/4.9.4/include/g++-v4 --with-python-dir=/share/gcc-data/x86_64-pc-linux-gnu/4.9.4/python --enable-languages=c,c++,fortran --enable-obsolete --enable-secureplt --disable-werror --with-system-zlib --enable-nls --without-included-gettext --enable-checking=release --with-bugurl=https://bugs.gentoo.org/ --with-pkgversion='Gentoo 4.9.4 p1.0, pie-0.6.4' --enable-libstdcxx-time --enable-shared --enable-threads=posix --enable-__cxa_atexit --enable-clocale=gnu --enable-multilib --with-multilib-list=m32,m64 --disable-altivec --disable-fixed-point --enable-targets=all --disable-libgcj --enable-libgomp --disable-libmudflap --disable-libssp --disable-libcilkrts --enable-vtable-verify --enable-libvtv --enable-lto --without-cloog --enable-libsanitizer
Thread model: posix
gcc version 4.9.4 (Gentoo 4.9.4 p1.0, pie-0.6.4) 
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Note: CFLAGS, CXXFLAGS and SHAREDFLAGS are taken from distutils,
      so their current settings are ignored.
/usr/local/src/sage-config/local/lib/python/distutils/dist.py:267: UserWarning: Unknown distribution option: 'install_requires'
  warnings.warn(msg)
/usr/local/src/sage-config/local/lib/python/distutils/dist.py:267: UserWarning: Unknown distribution option: 'setup_requires'
  warnings.warn(msg)
/usr/local/src/sage-config/local/lib/python/distutils/dist.py:267: UserWarning: Unknown distribution option: 'test_suite'
  warnings.warn(msg)
Installing package scipy using pip
Ignoring indexes: https://pypi.python.org/simple
Processing /usr/local/src/sage-config/local/var/tmp/sage/build/scipy-0.17.1.p0/src
  Running setup.py (path:/tmp/pip-iEUIgj-build/setup.py) egg_info for package from file:///usr/local/src/sage-config/local/var/tmp/sage/build/scipy-0.17.1.p0/src
    Running command python setup.py egg_info
    running egg_info
    creating pip-egg-info/scipy.egg-info
    writing pip-egg-info/scipy.egg-info/PKG-INFO
    writing top-level names to pip-egg-info/scipy.egg-info/top_level.txt
    writing dependency_links to pip-egg-info/scipy.egg-info/dependency_links.txt
    writing manifest file 'pip-egg-info/scipy.egg-info/SOURCES.txt'
    warning: manifest_maker: standard file '-c' not found

    reading manifest file 'pip-egg-info/scipy.egg-info/SOURCES.txt'
    reading manifest template 'MANIFEST.in'
    warning: no previously-included files matching '*_subr_*.f' found under directory 'scipy/linalg/src/id_dist/src'
    no previously-included directories found matching 'benchmarks/env'
    no previously-included directories found matching 'benchmarks/results'
    no previously-included directories found matching 'benchmarks/html'
    no previously-included directories found matching 'benchmarks/scipy'
    no previously-included directories found matching 'scipy/special/tests/data/boost'
    no previously-included directories found matching 'scipy/special/tests/data/gsl'
    no previously-included directories found matching 'doc/build'
    no previously-included directories found matching 'doc/source/generated'
    no previously-included directories found matching '*/__pycache__'
    warning: no previously-included files matching '*~' found anywhere in distribution
    warning: no previously-included files matching '*.bak' found anywhere in distribution
    warning: no previously-included files matching '*.swp' found anywhere in distribution
    warning: no previously-included files matching '*.pyo' found anywhere in distribution
    writing manifest file 'pip-egg-info/scipy.egg-info/SOURCES.txt'
  Source in /tmp/pip-iEUIgj-build has version 0.17.1, which satisfies requirement scipy==0.17.1 from file:///usr/local/src/sage-config/local/var/tmp/sage/build/scipy-0.17.1.p0/src
Installing collected packages: scipy
  Running setup.py install for scipy: started
    Running command /usr/local/src/sage-config/local/bin/python -u -c "import setuptools, tokenize;__file__='/tmp/pip-iEUIgj-build/setup.py';exec(compile(getattr(tokenize, 'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" install --record /tmp/pip-4E78U6-record/install-record.txt --single-version-externally-managed --compile
    lapack_opt_info:
    openblas_lapack_info:
    Disabled openblas_lapack_info: (OPENBLAS is None)
      libraries openblas not found in []
      NOT AVAILABLE

    lapack_mkl_info:
    mkl_info:
      libraries mkl,vml,guide not found in ['/usr/local/src/sage-config/local/lib', '/usr/local/lib64', '/usr/local/lib', '/usr/lib64', '/usr/lib', '/usr/lib/']
      NOT AVAILABLE

      NOT AVAILABLE

    atlas_3_10_threads_info:
    Disabled atlas_3_10_threads_info: (PTATLAS is None)
    <class 'numpy.distutils.system_info.atlas_3_10_threads_info'>
      NOT AVAILABLE

    atlas_3_10_info:
    Disabled atlas_3_10_info: (ATLAS is None)
    <class 'numpy.distutils.system_info.atlas_3_10_info'>
      NOT AVAILABLE

    atlas_threads_info:
    Disabled atlas_threads_info: (PTATLAS is None)
    <class 'numpy.distutils.system_info.atlas_threads_info'>
      NOT AVAILABLE

    atlas_info:
    Disabled atlas_info: (ATLAS is None)
    <class 'numpy.distutils.system_info.atlas_info'>
      NOT AVAILABLE

    /usr/local/src/sage-config/local/lib/python2.7/site-packages/numpy/distutils/system_info.py:1548: 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/src/sage-config/local/lib']
    Library lapack was not found. Ignoring
      libraries lapack not found in ['', '']
    Runtime library lapack was not found. Ignoring
      FOUND:
        libraries = ['openblas']
        library_dirs = ['/usr/local/src/sage-config/local/lib']
        language = f77

    blas_info:
      libraries openblas,openblas not found in ['/usr/local/src/sage-config/local/lib']
      NOT AVAILABLE

    /usr/local/src/sage-config/local/lib/python2.7/site-packages/numpy/distutils/system_info.py:1571: UserWarning:
        Blas (http://www.netlib.org/blas/) libraries not found.
        Directories to search for the libraries can be specified in the
        numpy/distutils/site.cfg file (section [blas]) or by setting
        the BLAS environment variable.
      warnings.warn(BlasNotFoundError.__doc__)
    blas_src_info:
      NOT AVAILABLE

    /usr/local/src/sage-config/local/lib/python2.7/site-packages/numpy/distutils/system_info.py:1574: UserWarning:
        Blas (http://www.netlib.org/blas/) sources not found.
        Directories to search for the sources can be specified in the
        numpy/distutils/site.cfg file (section [blas_src]) or by setting
        the BLAS_SRC environment variable.
      warnings.warn(BlasSrcNotFoundError.__doc__)
      NOT AVAILABLE

    Running from scipy source directory.
    Traceback (most recent call last):
      File "<string>", line 1, in <module>
      File "/tmp/pip-iEUIgj-build/setup.py", line 265, in <module>
        setup_package()
      File "/tmp/pip-iEUIgj-build/setup.py", line 262, in setup_package
        setup(**metadata)
      File "/usr/local/src/sage-config/local/lib/python2.7/site-packages/numpy/distutils/core.py", line 135, in setup
        config = configuration()
      File "/tmp/pip-iEUIgj-build/setup.py", line 182, in configuration
        config.add_subpackage('scipy')
      File "/usr/local/src/sage-config/local/lib/python2.7/site-packages/numpy/distutils/misc_util.py", line 1003, in add_subpackage
        caller_level = 2)
      File "/usr/local/src/sage-config/local/lib/python2.7/site-packages/numpy/distutils/misc_util.py", line 972, in get_subpackage
        caller_level = caller_level + 1)
      File "/usr/local/src/sage-config/local/lib/python2.7/site-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/src/sage-config/local/lib/python2.7/site-packages/numpy/distutils/misc_util.py", line 1003, in add_subpackage
        caller_level = 2)
      File "/usr/local/src/sage-config/local/lib/python2.7/site-packages/numpy/distutils/misc_util.py", line 972, in get_subpackage
        caller_level = caller_level + 1)
      File "/usr/local/src/sage-config/local/lib/python2.7/site-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
    Running setup.py install for scipy: finished with status 'error'
Cleaning up...
  Removing source in /tmp/pip-iEUIgj-build
Command "/usr/local/src/sage-config/local/bin/python -u -c "import setuptools, tokenize;__file__='/tmp/pip-iEUIgj-build/setup.py';exec(compile(getattr(tokenize, 'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" install --record /tmp/pip-4E78U6-record/install-record.txt --single-version-externally-managed --compile" failed with error code 1 in /tmp/pip-iEUIgj-build/
Exception information:
Traceback (most recent call last):
  File "/usr/local/src/sage-config/local/lib/python2.7/site-packages/pip/basecommand.py", line 215, in main
    status = self.run(options, args)
  File "/usr/local/src/sage-config/local/lib/python2.7/site-packages/pip/commands/install.py", line 317, in run
    prefix=options.prefix_path,
  File "/usr/local/src/sage-config/local/lib/python2.7/site-packages/pip/req/req_set.py", line 742, in install
    **kwargs
  File "/usr/local/src/sage-config/local/lib/python2.7/site-packages/pip/req/req_install.py", line 880, in install
    spinner=spinner,
  File "/usr/local/src/sage-config/local/lib/python2.7/site-packages/pip/utils/__init__.py", line 718, in call_subprocess
    % (command_desc, proc.returncode, cwd))
InstallationError: Command "/usr/local/src/sage-config/local/bin/python -u -c "import setuptools, tokenize;__file__='/tmp/pip-iEUIgj-build/setup.py';exec(compile(getattr(tokenize, 'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" install --record /tmp/pip-4E78U6-record/install-record.txt --single-version-externally-managed --compile" failed with error code 1 in /tmp/pip-iEUIgj-build/
Error installing scipy.

real    0m1.659s
user    0m1.234s
sys     0m0.366s
************************************************************************
Error installing package scipy-0.17.1.p0
************************************************************************
Please email sage-devel (http://groups.google.com/group/sage-devel)
explaining the problem and including the relevant part of the log file
  /usr/local/src/sage-config/logs/pkgs/scipy-0.17.1.p0.log
Describe your computer, operating system, etc.
If you want to try to fix the problem yourself, *don't* just cd to
/usr/local/src/sage-config/local/var/tmp/sage/build/scipy-0.17.1.p0 and type 'make' or whatever is appropriate.
Instead, the following commands setup all environment variables
correctly and load a subshell for you to debug the error:
  (cd '/usr/local/src/sage-config/local/var/tmp/sage/build/scipy-0.17.1.p0' && '/usr/local/src/sage-config/sage' --sh)
When you are done debugging, you can type "exit" to leave the subshell.
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