Re: [gentoo-science] Trouble building scipy-0.14.0 against acml

[Bastian Löffler]

I still have this problem when updating to scipy-0.14.0. Ideas?

Am 09.06.2014 20:41, schrieb Bastian Löffler:
> Hi,
>
> this is
>
> /var/tmp/portage/sci-libs/scipy-0.14.0/work/scipy-0.14.0-python2_7/site.cfg:
>
> [blas]
> include_dirs =
> library_dirs = :/usr/lib64
> blas_libs =
> [lapack]
> library_dirs = //opt/acml5.3.1/gfortran64/lib:/usr/lib64
> lapack_libs = acml
>
> Buliding numpy is ago. This is any scipy update.
>
> Am 09.06.2014 13:51, schrieb François Bissey:
>> numpy not bumpy. Sorry for the noise.
>>
>> On 9/06/2014, at 23:42, François Bissey <frp.bissey@×××××.com> wrote:
>>
>>> Hi,
>>>
>>> Could you post the file:
>>> /var/tmp/portage/sci-libs/scipy-0.14.0/work/scipy-0.14.0-python2_7/site.cfg
>>> for our perusal? You obviously managed to merge bumpy which fundamentally
>>> should have the exact same problem.
>>> Was it just before scipy or a while ago?
>>>
>>> François
>>>
>>> On 9/06/2014, at 23:25, Bastian Löffler <Bastian_Loeffler@×××××.de> wrote:
>>>
>>>> Hi all,
>>>>
>>>> I can not build scipy 0.14.0 agaonst the currenct aclm since it
>>>> complains a missing blas:
>>>>
>>>> numpy.distutils.system_info.BlasNotFoundError:
>>>>    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.
>>>> * ERROR: sci-libs/scipy-0.14.0::gentoo failed (compile phase):
>>>> *   (no error message)
>>>> *
>>>> * Call stack:
>>>> *     ebuild.sh, line   93:  Called src_compile
>>>> *   environment, line 4075:  Called distutils-r1_src_compile
>>>> *   environment, line 1421:  Called _distutils-r1_run_foreach_impl
>>>> 'python_compile'
>>>> *   environment, line  312:  Called python_parallel_foreach_impl
>>>> 'distutils-r1_run_phase' 'python_compile'
>>>> *   environment, line 3808:  Called multibuild_parallel_foreach_variant
>>>> '_python_multibuild_wrapper' 'distutils-r1_run_phase' 'python_compile'
>>>> *   environment, line 2855:  Called multibuild_foreach_variant
>>>> '_multibuild_parallel' '_python_multibuild_wrapper'
>>>> 'distutils-r1_run_phase' 'python_compile'
>>>> *   environment, line 2798:  Called _multibuild_run
>>>> '_multibuild_parallel' '_python_multibuild_wrapper'
>>>> 'distutils-r1_run_phase' 'python_compile'
>>>> *   environment, line 2796:  Called _multibuild_parallel
>>>> '_python_multibuild_wrapper' 'distutils-r1_run_phase' 'python_compile'
>>>> *   environment, line 2846:  Called _python_multibuild_wrapper
>>>> 'distutils-r1_run_phase' 'python_compile'
>>>> *   environment, line  914:  Called distutils-r1_run_phase 'python_compile'
>>>> *   environment, line 1412:  Called python_compile
>>>> *   environment, line 3315:  Called distutils-r1_python_compile
>>>> 'config_fc' '--noopt' '--noarch'
>>>> *   environment, line 1292:  Called esetup.py 'build' 'config_fc'
>>>> '--noopt' '--noarch'
>>>> *   environment, line 1862:  Called die
>>>> * The specific snippet of code:
>>>> *       "${@}" || die
>>>> *
>>>> * If you need support, post the output of `emerge --info
>>>> '=sci-libs/scipy-0.14.0::gentoo'`,
>>>> * the complete build log and the output of `emerge -pqv
>>>> '=sci-libs/scipy-0.14.0::gentoo'`.
>>>> * The complete build log is located at
>>>> '/var/tmp/portage/sci-libs/scipy-0.14.0/temp/build.log'.
>>>> * The ebuild environment file is located at
>>>> '/var/tmp/portage/sci-libs/scipy-0.14.0/temp/environment'.
>>>> * Working directory:
>>>> '/var/tmp/portage/sci-libs/scipy-0.14.0/work/scipy-0.14.0-python2_7'
>>>> * S: '/var/tmp/portage/sci-libs/scipy-0.14.0/work/scipy-0.14.0'
>>>> /usr/lib64/portage/bin/isolated-functions.sh: line 226: kill: (6675) -
>>>> No such process
>>>> blas_opt_info:
>>>> system_info:
>>>>  NOT AVAILABLE
>>>>
>>>> blas_info:
>>>>  libraries  not found in ['/usr/lib64']
>>>>  NOT AVAILABLE
>>>>
>>>> blas_src_info:
>>>>  NOT AVAILABLE
>>>>
>>>> /usr/lib64/python3.3/distutils/dist.py:258: UserWarning: Unknown
>>>> distribution option: 'test_suite'
>>>>  warnings.warn(msg)
>>>> /usr/lib64/python3.3/site-packages/numpy/distutils/system_info.py:1511:
>>>> 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__)
>>>> /usr/lib64/python3.3/site-packages/numpy/distutils/system_info.py:566:
>>>> UserWarning: Specified path  is invalid.
>>>>  warnings.warn('Specified path %s is invalid.' % d)
>>>> /usr/lib64/python3.3/site-packages/numpy/distutils/system_info.py:1520:
>>>> 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__)
>>>> /usr/lib64/python3.3/site-packages/numpy/distutils/system_info.py:1523:
>>>> 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__)
>>>> Traceback (most recent call last):
>>>>  File "setup.py", line 237, in <module>
>>>>    setup_package()
>>>>  File "setup.py", line 234, in setup_package
>>>>    setup(**metadata)
>>>>  File "/usr/lib64/python3.3/site-packages/numpy/distutils/core.py",
>>>> line 135, in setup
>>>>    config = configuration()
>>>>  File "setup.py", line 173, in configuration
>>>>    config.add_subpackage('scipy')
>>>>  File
>>>> "/usr/lib64/python3.3/site-packages/numpy/distutils/misc_util.py", line
>>>> 966, in add_subpackage
>>>>    caller_level = 2)
>>>>  File
>>>> "/usr/lib64/python3.3/site-packages/numpy/distutils/misc_util.py", line
>>>> 935, in get_subpackage
>>>>    caller_level = caller_level + 1)
>>>>  File
>>>> "/usr/lib64/python3.3/site-packages/numpy/distutils/misc_util.py", line
>>>> 872, in _get_configuration_from_setup_py
>>>>    config = setup_module.configuration(*args)
>>>>  File "scipy/setup.py", line 12, in configuration
>>>>    config.add_subpackage('integrate')
>>>>  File
>>>> "/usr/lib64/python3.3/site-packages/numpy/distutils/misc_util.py", line
>>>> 966, in add_subpackage
>>>>    caller_level = 2)
>>>>  File
>>>> "/usr/lib64/python3.3/site-packages/numpy/distutils/misc_util.py", line
>>>> 935, in get_subpackage
>>>>    caller_level = caller_level + 1)
>>>>  File
>>>> "/usr/lib64/python3.3/site-packages/numpy/distutils/misc_util.py", line
>>>> 872, in _get_configuration_from_setup_py
>>>>    config = setup_module.configuration(*args)
>>>>  File "scipy/integrate/setup.py", line 12, in configuration
>>>>    blas_opt = get_info('blas_opt',notfound_action=2)
>>>>  File
>>>> "/usr/lib64/python3.3/site-packages/numpy/distutils/system_info.py",
>>>> line 340, in get_info
>>>>    return cl().get_info(notfound_action)
>>>>  File
>>>> "/usr/lib64/python3.3/site-packages/numpy/distutils/system_info.py",
>>>> line 499, in get_info
>>>>    raise self.notfounderror(self.notfounderror.__doc__)
>>>> numpy.distutils.system_info.BlasNotFoundError:
>>>>    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.
>>>> * ERROR: sci-libs/scipy-0.14.0::gentoo failed (compile phase):
>>>> *   (no error message)
>>>> *
>>>> * Call stack:
>>>> *     ebuild.sh, line   93:  Called src_compile
>>>> *   environment, line 4075:  Called distutils-r1_src_compile
>>>> *   environment, line 1421:  Called _distutils-r1_run_foreach_impl
>>>> 'python_compile'
>>>> *   environment, line  312:  Called python_parallel_foreach_impl
>>>> 'distutils-r1_run_phase' 'python_compile'
>>>> *   environment, line 3808:  Called multibuild_parallel_foreach_variant
>>>> '_python_multibuild_wrapper' 'distutils-r1_run_phase' 'python_compile'
>>>> *   environment, line 2855:  Called multibuild_foreach_variant
>>>> '_multibuild_parallel' '_python_multibuild_wrapper'
>>>> 'distutils-r1_run_phase' 'python_compile'
>>>> *   environment, line 2798:  Called _multibuild_run
>>>> '_multibuild_parallel' '_python_multibuild_wrapper'
>>>> 'distutils-r1_run_phase' 'python_compile'
>>>> *   environment, line 2796:  Called _multibuild_parallel
>>>> '_python_multibuild_wrapper' 'distutils-r1_run_phase' 'python_compile'
>>>> *   environment, line 2846:  Called _python_multibuild_wrapper
>>>> 'distutils-r1_run_phase' 'python_compile'
>>>> *   environment, line  914:  Called distutils-r1_run_phase 'python_compile'
>>>> *   environment, line 1412:  Called python_compile
>>>> *   environment, line 3315:  Called distutils-r1_python_compile
>>>> 'config_fc' '--noopt' '--noarch'
>>>> *   environment, line 1292:  Called esetup.py 'build' 'config_fc'
>>>> '--noopt' '--noarch'
>>>> *   environment, line 1862:  Called die
>>>> * The specific snippet of code:
>>>> *       "${@}" || die
>>>> *
>>>> * If you need support, post the output of `emerge --info
>>>> '=sci-libs/scipy-0.14.0::gentoo'`,
>>>> * the complete build log and the output of `emerge -pqv
>>>> '=sci-libs/scipy-0.14.0::gentoo'`.
>>>> * The complete build log is located at
>>>> '/var/tmp/portage/sci-libs/scipy-0.14.0/temp/build.log'.
>>>> * The ebuild environment file is located at
>>>> '/var/tmp/portage/sci-libs/scipy-0.14.0/temp/environment'.
>>>> * Working directory:
>>>> '/var/tmp/portage/sci-libs/scipy-0.14.0/work/scipy-0.14.0-python3_3'
>>>> * S: '/var/tmp/portage/sci-libs/scipy-0.14.0/work/scipy-0.14.0'
>>>> /usr/lib64/portage/bin/isolated-functions.sh: line 226: kill: (6675) -
>>>> No such process
>>>>
>>>>>>> Failed to emerge sci-libs/scipy-0.14.0, Log file:
>>>>
>>>>
>>>>
>>
>
>