[yocto] scipy recipe
Giordon Stark
gstark at cern.ch
Fri Mar 16 11:33:25 PDT 2018
OpenBLAS is here: http://layers.openembedded.org/layerindex/recipe/68888/
G
On Fri, Mar 16, 2018 at 1:30 PM Philip Balister <philip at balister.org> wrote:
> You'll get to Atlas soon, and that is another source of pain :)
>
> Philip
>
> On 03/16/2018 11:26 AM, Peter Balazovic wrote:
> > 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
> >>>>>
> >>>>>
> >>>>
> >>>
> >>
> >
> >
> >
> --
> _______________________________________________
> yocto mailing list
> yocto at yoctoproject.org
> https://lists.yoctoproject.org/listinfo/yocto
>
--
Giordon Stark
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