[yocto] scipy recipe

Peter Balazovic balazovic.peter at gmail.com
Fri Mar 16 11:26:25 PDT 2018 

Seems OpenBLAS is missing, is there recipe for it?

ERROR: scipy-1.0.0-r0 do_compile: python setup.py build execution failed.
ERROR: scipy-1.0.0-r0 do_compile: Function failed: do_compile (log file is
located at /log.do_compile.8708)
ERROR: Logfile of failure stored in: /1.0.0-r0/temp/log.do_compile.8708
Log data follows:
| DEBUG: Executing shell function do_compile
| ERROR: python setup.py build execution failed.
| /usr/lib/python2.7/distutils/dist.py:267: UserWarning: Unknown
distribution option: 'python_requires'
|   warnings.warn(msg)
| lapack_opt_info:
| openblas_lapack_info:
|   libraries openblas not found in ['/usr/lib']
|   NOT AVAILABLE
|
| lapack_mkl_info:
| mkl_info:
|   libraries mkl,vml,guide not found in ['/usr/lib']
|   NOT AVAILABLE
|
|   NOT AVAILABLE
|
| atlas_3_10_threads_info:
| Setting PTATLAS=ATLAS
|   libraries tatlas,tatlas not found in /usr/lib
|   libraries lapack_atlas not found in /usr/lib
| <class 'numpy.distutils.system_info.atlas_3_10_threads_info'>
|   NOT AVAILABLE
|
| atlas_3_10_info:
|   libraries satlas,satlas not found in /usr/lib
|   libraries lapack_atlas not found in /usr/lib
| <class 'numpy.distutils.system_info.atlas_3_10_info'>
|   NOT AVAILABLE
|
| atlas_threads_info:
| Setting PTATLAS=ATLAS
|   libraries ptf77blas,ptcblas,atlas not found in /usr/lib
|   libraries lapack_atlas not found in /usr/lib
| <class 'numpy.distutils.system_info.atlas_threads_info'>
|   NOT AVAILABLE
|
| atlas_info:
|   libraries f77blas,cblas,atlas not found in /usr/lib
|   libraries lapack_atlas not found in /usr/lib
| <class 'numpy.distutils.system_info.atlas_info'>
|   NOT AVAILABLE
|
|  /usr/lib/python2.7/site-packages/numpy/distutils/system_info.py:1510:
UserWarning:
|     Atlas (http://math-atlas.sourceforge.net/) libraries not found.
|     Directories to search for the libraries can be specified in the
|     numpy/distutils/site.cfg file (section [atlas]) or by setting
|     the ATLAS environment variable.
|   warnings.warn(AtlasNotFoundError.__doc__)
| lapack_info:
|   libraries lapack not found in ['/usr/lib']
|   NOT AVAILABLE
|
| /usr/lib/python2.7/site-packages/numpy/distutils/system_info.py:1521:
UserWarning:
|     Lapack (http://www.netlib.org/lapack/) libraries not found.
|     Directories to search for the libraries can be specified in the
|     numpy/distutils/site.cfg file (section [lapack]) or by setting
|     the LAPACK environment variable.
|   warnings.warn(LapackNotFoundError.__doc__)
| lapack_src_info:
|   NOT AVAILABLE
|
| /usr/lib/python2.7/site-packages/numpy/distutils/system_info.py:1524:
UserWarning:
|     Lapack (http://www.netlib.org/lapack/) sources not found.
|     Directories to search for the sources can be specified in the
|     numpy/distutils/site.cfg file (section [lapack_src]) or by setting
|     the LAPACK_SRC environment variable.
|   warnings.warn(LapackSrcNotFoundError.__doc__)
|   NOT AVAILABLE
|
| Running from scipy source directory.
| Traceback (most recent call last):
|   File "setup.py", line 418, in <module>
|     setup_package()
|   File "setup.py", line 414, in setup_package
|     setup(**metadata)
|   File "/usr/lib/python2.7/site-packages/numpy/distutils/core.py", line
135, in setup
|     config = configuration()
|   File "setup.py", line 336, in configuration
|     config.add_subpackage('scipy')
|   File "/usr/lib/python2.7/site-packages/numpy/distutils/misc_util.py",
line 1003, in add_subpackage
|     caller_level = 2)
|   File "/usr/lib/python2.7/site-packages/numpy/distutils/misc_util.py",
line 972, in get_subpackage
|     caller_level = caller_level + 1)
|   File "/usr/lib/python2.7/site-packages/numpy/distutils/misc_util.py",
line 909, in _get_configuration_from_setup_py
|     config = setup_module.configuration(*args)
|   File "scipy/setup.py", line 15, in configuration
|     config.add_subpackage('linalg')
|   File "/usr/lib/python2.7/site-packages/numpy/distutils/misc_util.py",
line 1003, in add_subpackage
|     caller_level = 2)
|   File "/usr/lib/python2.7/site-packages/numpy/distutils/misc_util.py",
line 972, in get_subpackage
|     caller_level = caller_level + 1)
|   File "/usr/lib/python2.7/site-packages/numpy/distutils/misc_util.py",
line 909, in _get_configuration_from_setup_py
|     config = setup_module.configuration(*args)
|   File "scipy/linalg/setup.py", line 19, in configuration
|     raise NotFoundError('no lapack/blas resources found')
| numpy.distutils.system_info.NotFoundError: no lapack/blas resources found
| ERROR: Function failed: do_compile (log file is located at
/scipy/1.0.0-r0/temp/log.do_compile.8708)
ERROR: Task
(/sources/meta-openembedded/meta-python/recipes-devtools/python/scipy_1.0.0.bb:do_compile)
failed with exit code '1'
NOTE: Tasks Summary: Attempted 8394 tasks of which 8382 didn't need to be
rerun and 1 failed.


On Fri, Mar 16, 2018 at 6:36 PM, Burton, Ross <ross.burton at intel.com> wrote:

> To change the version, change the filename of the recipe.
>
> Also, please remember the CC the list.
>
> Ross
>
> On 16 March 2018 at 17:30, Peter Balazovic <balazovic.peter at gmail.com>
> wrote:
>
>> I did download from https://github.com/scipy/scipy/archive/v1.0.0.tar.gz
>> and cc to /downloads and same still issue ...
>> as mentioned  should be version is 1.0.0
>> where to change it to point to correct version & file?
>>
>> On Fri, Mar 16, 2018 at 5:57 PM, Burton, Ross <ross.burton at intel.com>
>> wrote:
>>
>>> You're getting a "file not found" for the URL it is looking for.
>>> According to https://pypi.python.org/pypi/scipy, the version is 1.0.0
>>> not 1.0.
>>>
>>> Ross
>>>
>>> On 16 March 2018 at 16:50, Peter Balazovic <balazovic.peter at gmail.com>
>>> wrote:
>>>
>>>> per using recipe https://github.com/scipy/scipy/issues/8226
>>>>
>>>>
>>>> SUMMARY = "Scientific Library for Python"
>>>> SECTION = "devel/python"
>>>> HOMEPAGE = "https://pypi.python.org/pypi/scipy"
>>>>
>>>> LICENSE = "BSD-3-Clause"
>>>> LIC_FILES_CHKSUM = "file://LICENSE.txt;md5=d0db8f4148a3d5534cfb93be78f9287c"
>>>>
>>>> PYPI_PACKAGE="scipy"
>>>>
>>>> SRC_URI[md5sum] = "53fa34bd3733a9a4216842b6000f7316"
>>>> SRC_URI[sha256sum] = "87ea1f11a0e9ec08c264dc64551d501fa307289460705f6fccd84cbfc7926d10"
>>>>
>>>> inherit pypi setuptools distutils
>>>>
>>>> RDEPENDS_${PN} += "python-core python-numpy-native python-distutils"
>>>> DEPENDS += "python-numpy"
>>>>
>>>>
>>>> I am getting error to fetch scipy do_fetch error
>>>>
>>>>
>>>> WARNING: scipy-1.0-r0 do_fetch: Failed to fetch URL
>>>> https://files.pythonhosted.org/packages/source/s/scipy/scipy-1.0.tar.gz,
>>>> attempting MIRRORS if available
>>>> ERROR: scipy-1.0-r0 do_fetch: Fetcher failure: Fetch command export
>>>> DBUS_SESSION_BUS_ADDRESS="unix:abstract=/tmp/dbus-idNNJsmT3C"; export
>>>> SSH_AUTH_SOCK="/run/user/1000/keyring/ssh"; export ftp_proxy=
>>>> --progress=dot -v failed with exit code 8, output:
>>>> --2018-03-16 17:43:34--  https://files.pythonhosted.org
>>>> /packages/source/s/scipy/scipy-1.0.tar.gz
>>>> Resolving files.pythonhosted.org (files.pythonhosted.org)...
>>>> 151.101.17.63, 2a04:4e42:4::319
>>>> Connecting to files.pythonhosted.org (files.pythonhosted.org)|151.101.17.63|:443...
>>>> connected.
>>>> HTTP request sent, awaiting response... 404 Not Found
>>>> 2018-03-16 17:43:35 ERROR 404: Not Found.
>>>>
>>>> Any help?
>>>>
>>>>
>>>> On Thu, Mar 15, 2018 at 9:35 PM, Randy MacLeod <
>>>> randy.macleod at windriver.com> wrote:
>>>>
>>>>> On 2018-03-15 01:56 PM, Peter Balazovic wrote:
>>>>>
>>>>>> Hello all,
>>>>>>
>>>>>> I wonder if there is scipy recipe available?
>>>>>>
>>>>>
>>>>> Not yet:
>>>>>
>>>>> https://layers.openembedded.org/layerindex/branch/master/rec
>>>>> ipes/?q=scipy
>>>>>
>>>>> It appears to be blocked by:
>>>>>    https://github.com/scipy/scipy/issues/8226
>>>>> but apparently that's a bitbake issue, not a spip one.
>>>>> Care to take a look?
>>>>>
>>>>>
>>>>>> Thanks.
>>>>>>
>>>>>>
>>>>>>
>>>>>
>>>>> --
>>>>> # Randy MacLeod.  WR Linux
>>>>> # Wind River an Intel Company
>>>>>
>>>>
>>>>
>>>> --
>>>> _______________________________________________
>>>> yocto mailing list
>>>> yocto at yoctoproject.org
>>>> https://lists.yoctoproject.org/listinfo/yocto
>>>>
>>>>
>>>
>>
>
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