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

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

[Bastian Löffler]

[-- Attachment #1: Type: text/plain, Size: 8239 bytes --]


	

	

	

	



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:





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

[François Bissey]

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@arcor.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:
> 
> 
> 
> 
> 

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

[François Bissey]

numpy not bumpy. Sorry for the noise.

On 9/06/2014, at 23:42, François Bissey <frp.bissey@gmail.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@arcor.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:
>> 
>> 
>> 
>> 
>> 
> 
> 

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

[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@gmail.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@arcor.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:
>>>
>>>
>>>
>>>
>>
>
>

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

[François Bissey]

OK, thanks for the file. I think it is a bug in the pkgconfig file for 
blas with acml. You should also have 
library_dirs = //opt/acml5.3.1/gfortran64/lib:/usr/lib64
in the blas section, not just in the lapack one. Do you have a 
Gentoo bugzilla account? If not I'll fill the report.

Francois

On Mon, 09 Jun 2014 20:41:35 Bastian Löffler wrote:
> 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@gmail.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.c
> >> fg
> >> 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@arcor.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:

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

[François Bissey]

I just checked the acml ebuild and it looks like it does the right thing.
Can you give me the output of the following commands:
eselect blas list
pkg-config --libs-only-L blas
cat /usr/lib64/pkgconfig/blas.pc
ls -la /usr/lib64/pkgconfig/blas.pc

Francois 

On Tue, 10 Jun 2014 09:33:37 François Bissey wrote:
> OK, thanks for the file. I think it is a bug in the pkgconfig file for
> blas with acml. You should also have
> library_dirs = //opt/acml5.3.1/gfortran64/lib:/usr/lib64
> in the blas section, not just in the lapack one. Do you have a
> Gentoo bugzilla account? If not I'll fill the report.
> 
> Francois
> 
> On Mon, 09 Jun 2014 20:41:35 Bastian Löffler wrote:
> > Hi,
> > 
> > this is
> > 
> > /var/tmp/portage/sci-libs/scipy-0.14.0/work/scipy-0.14.0-python2_7/site.cf
> > g:
> > 
> > [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@gmail.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
> > >> .c
> > >> fg
> > >> 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@arcor.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:

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@gmail.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@arcor.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:
>>>>
>>>>
>>>>
>>
>
>

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

[François Bissey]

You obviously didn't read my last two emails.

Francois

On Sun, 15 Jun 2014 16:22:43 Bastian Löffler wrote:
> 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.cf
> > g:
> > 
> > [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@gmail.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@arcor.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:

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

[Bastian Löffler]

I did. I posted site.cfg an regarding numpy: Installing this was some
time ago. Its an scipy update making trouble.

Regards Bastian


Am 15.06.2014 23:13, schrieb François Bissey:
> You obviously didn't read my last two emails.
>
> Francois
>
> On Sun, 15 Jun 2014 16:22:43 Bastian Löffler wrote:
>> 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.cf
>>> g:
>>>
>>> [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@gmail.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@arcor.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:
>
>

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

[François Bissey]

It looks like one of my messages didn't make it to the list but that one did:
http://article.gmane.org/gmane.linux.gentoo.science/2148

My final opinion on the matter looking at your site.cfg is that you don't have
a blas eselected at all and that's not a valid configuration.
eselect blas list
will tell you all the implementation of blas available choose the one
that match your current lapack one.

Francois

On Sun, 15 Jun 2014 23:20:30 Bastian Löffler wrote:
> I did. I posted site.cfg an regarding numpy: Installing this was some
> time ago. Its an scipy update making trouble.
> 
> Regards Bastian
> 
> Am 15.06.2014 23:13, schrieb François Bissey:
> > You obviously didn't read my last two emails.
> > 
> > Francois
> > 
> > On Sun, 15 Jun 2014 16:22:43 Bastian Löffler wrote:
> >> 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.
> >>> cf
> >>> g:
> >>> 
> >>> [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@gmail.com> wrote:
> >>>>> Hi,
> >>>>> 
> >>>>> Could you post the file:
> >>>>> /var/tmp/portage/sci-libs/scipy-0.14.0/work/scipy-0.14.0-python2_7/sit
> >>>>> e.
> >>>>> 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@arcor.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:151
> >>>>>> 1:
> >>>>>> 
> >>>>>> 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:152
> >>>>>> 0:
> >>>>>> 
> >>>>>> 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:152
> >>>>>> 3:
> >>>>>> 
> >>>>>> 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:

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

[Bastian Löffler]

Well of course i checked that:

eselect blas list
Available providers for blas:
  [1]   acml-gfortran64 *
  [2]   acml-gfortran64-openmp
  [3]   eigen
  [4]   reference

SO my blas is acml-gfortran64.


Am 15.06.2014 23:27, schrieb François Bissey:
> It looks like one of my messages didn't make it to the list but that one did:
> http://article.gmane.org/gmane.linux.gentoo.science/2148
>
> My final opinion on the matter looking at your site.cfg is that you don't have
> a blas eselected at all and that's not a valid configuration.
> eselect blas list
> will tell you all the implementation of blas available choose the one
> that match your current lapack one.
>
> Francois
>
> On Sun, 15 Jun 2014 23:20:30 Bastian Löffler wrote:
>> I did. I posted site.cfg an regarding numpy: Installing this was some
>> time ago. Its an scipy update making trouble.
>>
>> Regards Bastian
>>
>> Am 15.06.2014 23:13, schrieb François Bissey:
>>> You obviously didn't read my last two emails.
>>>
>>> Francois
>>>
>>> On Sun, 15 Jun 2014 16:22:43 Bastian Löffler wrote:
>>>> 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.
>>>>> cf
>>>>> g:
>>>>>
>>>>> [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@gmail.com> wrote:
>>>>>>> Hi,
>>>>>>>
>>>>>>> Could you post the file:
>>>>>>> /var/tmp/portage/sci-libs/scipy-0.14.0/work/scipy-0.14.0-python2_7/sit
>>>>>>> e.
>>>>>>> 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@arcor.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:151
>>>>>>>> 1:
>>>>>>>>
>>>>>>>> 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:152
>>>>>>>> 0:
>>>>>>>>
>>>>>>>> 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:152
>>>>>>>> 3:
>>>>>>>>
>>>>>>>> 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:
>
>

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

[François Bissey]

OK so it looks sane, let's do some more sanity check as in the email 
I linked:
pkg-config --libs-only-L blas
cat /usr/lib64/pkgconfig/blas.pc
ls -la /usr/lib64/pkgconfig/blas.pc


On Sun, 15 Jun 2014 23:30:22 Bastian Löffler wrote:
> Well of course i checked that:
> 
> eselect blas list
> Available providers for blas:
>   [1]   acml-gfortran64 *
>   [2]   acml-gfortran64-openmp
>   [3]   eigen
>   [4]   reference
> 
> SO my blas is acml-gfortran64.
> 

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

[Bastian Löffler]

pkg-config --libs-only-L blas
-L//opt/acml5.3.1/gfortran64/lib

cat /usr/lib64/pkgconfig/blas.pc
prefix=//opt/acml5.3.1/gfortran64
libdir=${prefix}/lib
includedir=${prefix}/include
Name: acml-gfortran64
Description: AMD Core Math Library for amd64 CPUs
Version: 5.3.1
URL:
http://developer.amd.com/tools/cpu-development/amd-core-math-library-acml/
Libs: -L${libdir} -lacml
Libs.private: -lm -lrt
Cflags: -I${includedir}

ls -la /usr/lib64/pkgconfig/blas.pc
lrwxrwxrwx 1 root root 73 14. Jan 00:04 /usr/lib64/pkgconfig/blas.pc ->
../../../etc/env.d/alternatives/blas/_current/usr/lib64/pkgconfig/blas.pc
 

Am 15.06.2014 23:32, schrieb François Bissey:
> OK so it looks sane, let's do some more sanity check as in the email 
> I linked:
> pkg-config --libs-only-L blas
> cat /usr/lib64/pkgconfig/blas.pc
> ls -la /usr/lib64/pkgconfig/blas.pc
>
>
> On Sun, 15 Jun 2014 23:30:22 Bastian Löffler wrote:
>> Well of course i checked that:
>>
>> eselect blas list
>> Available providers for blas:
>>   [1]   acml-gfortran64 *
>>   [2]   acml-gfortran64-openmp
>>   [3]   eigen
>>   [4]   reference
>>
>> SO my blas is acml-gfortran64.
>>
>
>
>

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

[François Bissey]

Out of curiosity and to jog my brain can you send the equivalent for lapack?

Something is definitely going wrong when the site.cfg is generated.

Francois


On Sun, 15 Jun 2014 23:40:13 Bastian Löffler wrote:
> pkg-config --libs-only-L blas
> -L//opt/acml5.3.1/gfortran64/lib
> 
> cat /usr/lib64/pkgconfig/blas.pc
> prefix=//opt/acml5.3.1/gfortran64
> libdir=${prefix}/lib
> includedir=${prefix}/include
> Name: acml-gfortran64
> Description: AMD Core Math Library for amd64 CPUs
> Version: 5.3.1
> URL:
> http://developer.amd.com/tools/cpu-development/amd-core-math-library-acml/
> Libs: -L${libdir} -lacml
> Libs.private: -lm -lrt
> Cflags: -I${includedir}
> 
> ls -la /usr/lib64/pkgconfig/blas.pc
> lrwxrwxrwx 1 root root 73 14. Jan 00:04 /usr/lib64/pkgconfig/blas.pc ->
> ../../../etc/env.d/alternatives/blas/_current/usr/lib64/pkgconfig/blas.pc
> 
> Am 15.06.2014 23:32, schrieb François Bissey:
> > OK so it looks sane, let's do some more sanity check as in the email
> > I linked:
> > pkg-config --libs-only-L blas
> > cat /usr/lib64/pkgconfig/blas.pc
> > ls -la /usr/lib64/pkgconfig/blas.pc
> > 
> > On Sun, 15 Jun 2014 23:30:22 Bastian Löffler wrote:
> >> Well of course i checked that:
> >> 
> >> eselect blas list
> >> 
> >> Available providers for blas:
> >>   [1]   acml-gfortran64 *
> >>   [2]   acml-gfortran64-openmp
> >>   [3]   eigen
> >>   [4]   reference
> >> 
> >> SO my blas is acml-gfortran64.

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

[François Bissey]

And 
pkg-config --libs-only-L cblas blas
since that's what is actually parsed by the ebuild. Have you
any cblas eselected? If yes which one.

Francois

On Mon, 16 Jun 2014 13:19:57 François Bissey wrote:
> Out of curiosity and to jog my brain can you send the equivalent for lapack?
> 
> Something is definitely going wrong when the site.cfg is generated.
> 
> Francois
> 
> On Sun, 15 Jun 2014 23:40:13 Bastian Löffler wrote:
> > pkg-config --libs-only-L blas
> > -L//opt/acml5.3.1/gfortran64/lib
> > 
> > cat /usr/lib64/pkgconfig/blas.pc
> > prefix=//opt/acml5.3.1/gfortran64
> > libdir=${prefix}/lib
> > includedir=${prefix}/include
> > Name: acml-gfortran64
> > Description: AMD Core Math Library for amd64 CPUs
> > Version: 5.3.1
> > URL:
> > http://developer.amd.com/tools/cpu-development/amd-core-math-library-acml/
> > Libs: -L${libdir} -lacml
> > Libs.private: -lm -lrt
> > Cflags: -I${includedir}
> > 
> > ls -la /usr/lib64/pkgconfig/blas.pc
> > lrwxrwxrwx 1 root root 73 14. Jan 00:04 /usr/lib64/pkgconfig/blas.pc ->
> > ../../../etc/env.d/alternatives/blas/_current/usr/lib64/pkgconfig/blas.pc
> > 
> > Am 15.06.2014 23:32, schrieb François Bissey:
> > > OK so it looks sane, let's do some more sanity check as in the email
> > > I linked:
> > > pkg-config --libs-only-L blas
> > > cat /usr/lib64/pkgconfig/blas.pc
> > > ls -la /usr/lib64/pkgconfig/blas.pc
> > > 
> > > On Sun, 15 Jun 2014 23:30:22 Bastian Löffler wrote:
> > >> Well of course i checked that:
> > >> 
> > >> eselect blas list
> > >> 
> > >> Available providers for blas:
> > >>   [1]   acml-gfortran64 *
> > >>   [2]   acml-gfortran64-openmp
> > >>   [3]   eigen
> > >>   [4]   reference
> > >> 
> > >> SO my blas is acml-gfortran64.

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

[Bastian Löffler]

Hi,

this is for lapack:

pkg-config --libs-only-L lapack
-L//opt/acml5.3.1/gfortran64/lib

cat /usr/lib64/pkgconfig/lapack.pc
prefix=//opt/acml5.3.1/gfortran64
libdir=${prefix}/lib
includedir=${prefix}/include
Name: acml-gfortran64
Description: AMD Core Math Library for amd64 CPUs
Version: 5.3.1
URL:
http://developer.amd.com/tools/cpu-development/amd-core-math-library-acml/
Libs: -L${libdir} -lacml
Libs.private: -lm -lrt
Cflags: -I${includedir}

ls -la /usr/lib64/pkgconfig/lapack.pc
lrwxrwxrwx 1 root root 77 14. Jan 00:04 /usr/lib64/pkgconfig/lapack.pc
->
../../../etc/env.d/alternatives/lapack/_current/usr/lib64/pkgconfig/lapack.pc

and this is

pkg-config --libs-only-L cblas blas

Package cblas was not found in the pkg-config search path.
Perhaps you should add the directory containing `cblas.pc'
to the PKG_CONFIG_PATH environment variable
No package 'cblas' found

I have no cblas eselected.

Am 16.06.2014 03:27, schrieb François Bissey:
> And 
> pkg-config --libs-only-L cblas blas
> since that's what is actually parsed by the ebuild. Have you
> any cblas eselected? If yes which one.
>
> Francois
>
> On Mon, 16 Jun 2014 13:19:57 François Bissey wrote:
>> Out of curiosity and to jog my brain can you send the equivalent for lapack?
>>
>> Something is definitely going wrong when the site.cfg is generated.
>>
>> Francois
>>
>> On Sun, 15 Jun 2014 23:40:13 Bastian Löffler wrote:
>>> pkg-config --libs-only-L blas
>>> -L//opt/acml5.3.1/gfortran64/lib
>>>
>>> cat /usr/lib64/pkgconfig/blas.pc
>>> prefix=//opt/acml5.3.1/gfortran64
>>> libdir=${prefix}/lib
>>> includedir=${prefix}/include
>>> Name: acml-gfortran64
>>> Description: AMD Core Math Library for amd64 CPUs
>>> Version: 5.3.1
>>> URL:
>>> http://developer.amd.com/tools/cpu-development/amd-core-math-library-acml/
>>> Libs: -L${libdir} -lacml
>>> Libs.private: -lm -lrt
>>> Cflags: -I${includedir}
>>>
>>> ls -la /usr/lib64/pkgconfig/blas.pc
>>> lrwxrwxrwx 1 root root 73 14. Jan 00:04 /usr/lib64/pkgconfig/blas.pc ->
>>> ../../../etc/env.d/alternatives/blas/_current/usr/lib64/pkgconfig/blas.pc
>>>
>>> Am 15.06.2014 23:32, schrieb François Bissey:
>>>> OK so it looks sane, let's do some more sanity check as in the email
>>>> I linked:
>>>> pkg-config --libs-only-L blas
>>>> cat /usr/lib64/pkgconfig/blas.pc
>>>> ls -la /usr/lib64/pkgconfig/blas.pc
>>>>
>>>> On Sun, 15 Jun 2014 23:30:22 Bastian Löffler wrote:
>>>>> Well of course i checked that:
>>>>>
>>>>> eselect blas list
>>>>>
>>>>> Available providers for blas:
>>>>>   [1]   acml-gfortran64 *
>>>>>   [2]   acml-gfortran64-openmp
>>>>>   [3]   eigen
>>>>>   [4]   reference
>>>>>
>>>>> SO my blas is acml-gfortran64.
>
>

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

[François Bissey]

OK we have a culprit. You need to eselect a cblas.
There is no way that the message you get from
pkg-config --libs-only-L cblas blas

will be parsed to anything useful.

Francois


On Mon, 16 Jun 2014 18:04:42 Bastian Löffler wrote:
> Hi,
> 
> this is for lapack:
> 
> pkg-config --libs-only-L lapack
> -L//opt/acml5.3.1/gfortran64/lib
> 
> cat /usr/lib64/pkgconfig/lapack.pc
> prefix=//opt/acml5.3.1/gfortran64
> libdir=${prefix}/lib
> includedir=${prefix}/include
> Name: acml-gfortran64
> Description: AMD Core Math Library for amd64 CPUs
> Version: 5.3.1
> URL:
> http://developer.amd.com/tools/cpu-development/amd-core-math-library-acml/
> Libs: -L${libdir} -lacml
> Libs.private: -lm -lrt
> Cflags: -I${includedir}
> 
> ls -la /usr/lib64/pkgconfig/lapack.pc
> lrwxrwxrwx 1 root root 77 14. Jan 00:04 /usr/lib64/pkgconfig/lapack.pc
> ->
> ../../../etc/env.d/alternatives/lapack/_current/usr/lib64/pkgconfig/lapack.p
> c
> 
> and this is
> 
> pkg-config --libs-only-L cblas blas
> 
> Package cblas was not found in the pkg-config search path.
> Perhaps you should add the directory containing `cblas.pc'
> to the PKG_CONFIG_PATH environment variable
> No package 'cblas' found
> 
> I have no cblas eselected.
> 
> Am 16.06.2014 03:27, schrieb François Bissey:
> > And
> > pkg-config --libs-only-L cblas blas
> > since that's what is actually parsed by the ebuild. Have you
> > any cblas eselected? If yes which one.
> > 
> > Francois
> > 
> > On Mon, 16 Jun 2014 13:19:57 François Bissey wrote:
> >> Out of curiosity and to jog my brain can you send the equivalent for
> >> lapack?
> >> 
> >> Something is definitely going wrong when the site.cfg is generated.
> >> 
> >> Francois
> >> 
> >> On Sun, 15 Jun 2014 23:40:13 Bastian Löffler wrote:
> >>> pkg-config --libs-only-L blas
> >>> -L//opt/acml5.3.1/gfortran64/lib
> >>> 
> >>> cat /usr/lib64/pkgconfig/blas.pc
> >>> prefix=//opt/acml5.3.1/gfortran64
> >>> libdir=${prefix}/lib
> >>> includedir=${prefix}/include
> >>> Name: acml-gfortran64
> >>> Description: AMD Core Math Library for amd64 CPUs
> >>> Version: 5.3.1
> >>> URL:
> >>> http://developer.amd.com/tools/cpu-development/amd-core-math-library-acm
> >>> l/
> >>> Libs: -L${libdir} -lacml
> >>> Libs.private: -lm -lrt
> >>> Cflags: -I${includedir}
> >>> 
> >>> ls -la /usr/lib64/pkgconfig/blas.pc
> >>> lrwxrwxrwx 1 root root 73 14. Jan 00:04 /usr/lib64/pkgconfig/blas.pc ->
> >>> ../../../etc/env.d/alternatives/blas/_current/usr/lib64/pkgconfig/blas.p
> >>> c
> >>> 
> >>> Am 15.06.2014 23:32, schrieb François Bissey:
> >>>> OK so it looks sane, let's do some more sanity check as in the email
> >>>> I linked:
> >>>> pkg-config --libs-only-L blas
> >>>> cat /usr/lib64/pkgconfig/blas.pc
> >>>> ls -la /usr/lib64/pkgconfig/blas.pc
> >>>> 
> >>>> On Sun, 15 Jun 2014 23:30:22 Bastian Löffler wrote:
> >>>>> Well of course i checked that:
> >>>>> 
> >>>>> eselect blas list
> >>>>> 
> >>>>> Available providers for blas:
> >>>>>   [1]   acml-gfortran64 *
> >>>>>   [2]   acml-gfortran64-openmp
> >>>>>   [3]   eigen
> >>>>>   [4]   reference
> >>>>> 
> >>>>> SO my blas is acml-gfortran64.

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

[Bastian Löffler]

still the same issue here. Some news?

Am 16.06.2014 03:27, schrieb François Bissey:
> And 
> pkg-config --libs-only-L cblas blas
> since that's what is actually parsed by the ebuild. Have you
> any cblas eselected? If yes which one.
>
> Francois
>
> On Mon, 16 Jun 2014 13:19:57 François Bissey wrote:
>> Out of curiosity and to jog my brain can you send the equivalent for lapack?
>>
>> Something is definitely going wrong when the site.cfg is generated.
>>
>> Francois
>>
>> On Sun, 15 Jun 2014 23:40:13 Bastian Löffler wrote:
>>> pkg-config --libs-only-L blas
>>> -L//opt/acml5.3.1/gfortran64/lib
>>>
>>> cat /usr/lib64/pkgconfig/blas.pc
>>> prefix=//opt/acml5.3.1/gfortran64
>>> libdir=${prefix}/lib
>>> includedir=${prefix}/include
>>> Name: acml-gfortran64
>>> Description: AMD Core Math Library for amd64 CPUs
>>> Version: 5.3.1
>>> URL:
>>> http://developer.amd.com/tools/cpu-development/amd-core-math-library-acml/
>>> Libs: -L${libdir} -lacml
>>> Libs.private: -lm -lrt
>>> Cflags: -I${includedir}
>>>
>>> ls -la /usr/lib64/pkgconfig/blas.pc
>>> lrwxrwxrwx 1 root root 73 14. Jan 00:04 /usr/lib64/pkgconfig/blas.pc ->
>>> ../../../etc/env.d/alternatives/blas/_current/usr/lib64/pkgconfig/blas.pc
>>>
>>> Am 15.06.2014 23:32, schrieb François Bissey:
>>>> OK so it looks sane, let's do some more sanity check as in the email
>>>> I linked:
>>>> pkg-config --libs-only-L blas
>>>> cat /usr/lib64/pkgconfig/blas.pc
>>>> ls -la /usr/lib64/pkgconfig/blas.pc
>>>>
>>>> On Sun, 15 Jun 2014 23:30:22 Bastian Löffler wrote:
>>>>> Well of course i checked that:
>>>>>
>>>>> eselect blas list
>>>>>
>>>>> Available providers for blas:
>>>>>   [1]   acml-gfortran64 *
>>>>>   [2]   acml-gfortran64-openmp
>>>>>   [3]   eigen
>>>>>   [4]   reference
>>>>>
>>>>> SO my blas is acml-gfortran64.
>
>

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

[François Bissey]

Did you eselect a cblas as I suggested in:

http://article.gmane.org/gmane.linux.gentoo.science/2159

Francois

On Thu, 26 Jun 2014 22:39:24 Bastian Löffler wrote:
> still the same issue here. Some news?
> 
> Am 16.06.2014 03:27, schrieb François Bissey:
> > And
> > pkg-config --libs-only-L cblas blas
> > since that's what is actually parsed by the ebuild. Have you
> > any cblas eselected? If yes which one.
> > 
> > Francois
> > 
> > On Mon, 16 Jun 2014 13:19:57 François Bissey wrote:
> >> Out of curiosity and to jog my brain can you send the equivalent for
> >> lapack?
> >> 
> >> Something is definitely going wrong when the site.cfg is generated.
> >> 
> >> Francois
> >> 
> >> On Sun, 15 Jun 2014 23:40:13 Bastian Löffler wrote:
> >>> pkg-config --libs-only-L blas
> >>> -L//opt/acml5.3.1/gfortran64/lib
> >>> 
> >>> cat /usr/lib64/pkgconfig/blas.pc
> >>> prefix=//opt/acml5.3.1/gfortran64
> >>> libdir=${prefix}/lib
> >>> includedir=${prefix}/include
> >>> Name: acml-gfortran64
> >>> Description: AMD Core Math Library for amd64 CPUs
> >>> Version: 5.3.1
> >>> URL:
> >>> http://developer.amd.com/tools/cpu-development/amd-core-math-library-acm
> >>> l/
> >>> Libs: -L${libdir} -lacml
> >>> Libs.private: -lm -lrt
> >>> Cflags: -I${includedir}
> >>> 
> >>> ls -la /usr/lib64/pkgconfig/blas.pc
> >>> lrwxrwxrwx 1 root root 73 14. Jan 00:04 /usr/lib64/pkgconfig/blas.pc ->
> >>> ../../../etc/env.d/alternatives/blas/_current/usr/lib64/pkgconfig/blas.p
> >>> c
> >>> 
> >>> Am 15.06.2014 23:32, schrieb François Bissey:
> >>>> OK so it looks sane, let's do some more sanity check as in the email
> >>>> I linked:
> >>>> pkg-config --libs-only-L blas
> >>>> cat /usr/lib64/pkgconfig/blas.pc
> >>>> ls -la /usr/lib64/pkgconfig/blas.pc
> >>>> 
> >>>> On Sun, 15 Jun 2014 23:30:22 Bastian Löffler wrote:
> >>>>> Well of course i checked that:
> >>>>> 
> >>>>> eselect blas list
> >>>>> 
> >>>>> Available providers for blas:
> >>>>>   [1]   acml-gfortran64 *
> >>>>>   [2]   acml-gfortran64-openmp
> >>>>>   [3]   eigen
> >>>>>   [4]   reference
> >>>>> 
> >>>>> SO my blas is acml-gfortran64.