What's the official state of Python module scipy in Cygwin?

What's the official state of Python module scipy in Cygwin?

[My Name]

IIRC, at one point I was able to use scipy in Cygwin, after a period of
failed attempts. I believe that having installed gcc-fortran might have
been part of the solution I stumbled upon.

But now I'm back to being unable to install scipy in Cygwin. Is it
supported officially? Or unsupported but sometimes possible?

Thank you.

Re: What's the official state of Python module scipy in Cygwin?

[Marco Atzeri]

On 21.06.2020 15:03, My Name via Cygwin wrote:
> IIRC, at one point I was able to use scipy in Cygwin, after a period of
> failed attempts. I believe that having installed gcc-fortran might have
> been part of the solution I stumbled upon.
> 
> But now I'm back to being unable to install scipy in Cygwin. Is it
> supported officially? Or unsupported but sometimes possible?
> 
> Thank you.
> --


partially supported ?

pythonXX-numpy is available, except the 3.8 version for the
time being as all the 3.8 packages are under deployment.

All the rest is not, as no one has spent time to package them.

What is the problem and on which package ?

Regards
Marco

Re: What's the official state of Python module scipy in Cygwin?

[My Name]

(M.A., I've figured out how to reply to the Cygwin Mailing List on these.
If you'd like me to remove your name from the list of addressees in my
future emails, please let me know? I have not found comprehensive docs for
this mailing-list software, so I'm clueless.)

I was delighted when Numpy first showed up as an official Cygwin Package
and am using Numpy in Python 3.7 in Cygwin now. I've realized that the
latest Cygwin versions of Python (now 3.8) are often incomplete, but that's
no problem for me. I'm also able to use Sympy in Cygwin by installing Sympy
via Pip in python3.7 in Cygwin.

Scipy includes functions outside Numpy and Sympy that would be useful to me
at least, and I regularly rely on JupyterLab; so for those, I've been
resorting to Windows 10 versions of Python3.

I should have clarified in my original post in this thread, when I did
happen to have success installing full Scipy in Cygwin, it was with this
command:

$ python3.7 -m pip install scipy

When I did have that success installing Scipy in Cygwin, I later realized
that whether Cygwin package gcc-fortran was installed locally made a
difference. Without gcc-fortran installed locally, the pip command would
fail to install Scipy. When I run that pip command now, I don't comprehend
the output, but I recognize that the Scipy installation has failed, even
though I do have Cygwin's gcc-fortran installed:

==================================
$ python3.7 -m pip install scipy
Collecting scipy
  Downloading scipy-1.5.0.tar.gz (25.6 MB)
     |████████████████████████████████| 25.6 MB 11.8 MB/s
  Installing build dependencies ... done
  Getting requirements to build wheel ... done
    Preparing wheel metadata ... error
    ERROR: Command errored out with exit status 1:
     command: /usr/bin/python3.7
/usr/lib/python3.7/site-packages/pip/_vendor/pep517/_in_process.py
prepare_metadata_for_build_wheel /tmp/tmpc3ao3jht
         cwd: /tmp/pip-install-593dlngp/scipy
    Complete output (137 lines):
    lapack_opt_info:
    lapack_mkl_info:
    customize UnixCCompiler
      libraries mkl_rt not found in ['/usr/local/lib', '/usr/lib',
'/usr/lib/']
      NOT AVAILABLE

    openblas_lapack_info:
    customize UnixCCompiler
    customize UnixCCompiler
      libraries openblas not found in ['/usr/local/lib', '/usr/lib',
'/usr/lib/']
      NOT AVAILABLE

    openblas_clapack_info:
    customize UnixCCompiler
    customize UnixCCompiler
      libraries openblas,lapack not found in ['/usr/local/lib', '/usr/lib',
'/usr/lib/']
      NOT AVAILABLE

    atlas_3_10_threads_info:
    Setting PTATLAS=ATLAS
    customize UnixCCompiler
      libraries tatlas,tatlas not found in /usr/local/lib
    customize UnixCCompiler
      libraries lapack_atlas not found in /usr/local/lib
    customize UnixCCompiler
      libraries tatlas,tatlas not found in /usr/lib
    customize UnixCCompiler
      libraries lapack_atlas not found in /usr/lib
    customize UnixCCompiler
      libraries tatlas,tatlas not found in /usr/lib/
    customize UnixCCompiler
      libraries lapack_atlas not found in /usr/lib/
    <class 'numpy.distutils.system_info.atlas_3_10_threads_info'>
      NOT AVAILABLE

    atlas_3_10_info:
    customize UnixCCompiler
      libraries satlas,satlas not found in /usr/local/lib
    customize UnixCCompiler
      libraries lapack_atlas not found in /usr/local/lib
    customize UnixCCompiler
      libraries satlas,satlas not found in /usr/lib
    customize UnixCCompiler
      libraries lapack_atlas not found in /usr/lib
    customize UnixCCompiler
      libraries satlas,satlas not found in /usr/lib/
    customize UnixCCompiler
      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
    customize UnixCCompiler
      libraries ptf77blas,ptcblas,atlas not found in /usr/local/lib
    customize UnixCCompiler
      libraries lapack_atlas not found in /usr/local/lib
    customize UnixCCompiler
      libraries ptf77blas,ptcblas,atlas not found in /usr/lib
    customize UnixCCompiler
      libraries lapack_atlas not found in /usr/lib
    customize UnixCCompiler
      libraries ptf77blas,ptcblas,atlas not found in /usr/lib/
    customize UnixCCompiler
      libraries lapack_atlas not found in /usr/lib/
    <class 'numpy.distutils.system_info.atlas_threads_info'>
      NOT AVAILABLE

    atlas_info:
    customize UnixCCompiler
      libraries f77blas,cblas,atlas not found in /usr/local/lib
    customize UnixCCompiler
      libraries lapack_atlas not found in /usr/local/lib
    customize UnixCCompiler
      libraries f77blas,cblas,atlas not found in /usr/lib
    customize UnixCCompiler
      libraries lapack_atlas not found in /usr/lib
    customize UnixCCompiler
      libraries f77blas,cblas,atlas not found in /usr/lib/
    customize UnixCCompiler
      libraries lapack_atlas not found in /usr/lib/
    <class 'numpy.distutils.system_info.atlas_info'>
      NOT AVAILABLE

    lapack_info:
    customize UnixCCompiler
      libraries lapack not found in ['/usr/local/lib', '/usr/lib',
'/usr/lib/']
      NOT AVAILABLE

    lapack_src_info:
      NOT AVAILABLE

      NOT AVAILABLE

    setup.py:462: UserWarning: Unrecognized setuptools command ('dist_info
--egg-base /tmp/pip-modern-metadata-ib3nkeed'), proceeding with generating
Cython sources and expanding templates
      ' '.join(sys.argv[1:])))
    Running from SciPy source directory.

/tmp/pip-build-env-znryb617/overlay/lib/python3.7/site-packages/numpy/distutils/system_info.py:624:
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.
      self.calc_info()

/tmp/pip-build-env-znryb617/overlay/lib/python3.7/site-packages/numpy/distutils/system_info.py:624:
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.
      self.calc_info()

/tmp/pip-build-env-znryb617/overlay/lib/python3.7/site-packages/numpy/distutils/system_info.py:624:
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.
      self.calc_info()
    Traceback (most recent call last):
      File
"/usr/lib/python3.7/site-packages/pip/_vendor/pep517/_in_process.py", line
280, in <module>
        main()
      File
"/usr/lib/python3.7/site-packages/pip/_vendor/pep517/_in_process.py", line
263, in main
        json_out['return_val'] = hook(**hook_input['kwargs'])
      File
"/usr/lib/python3.7/site-packages/pip/_vendor/pep517/_in_process.py", line
133, in prepare_metadata_for_build_wheel
        return hook(metadata_directory, config_settings)
      File
"/tmp/pip-build-env-znryb617/overlay/lib/python3.7/site-packages/setuptools/build_meta.py",
line 157, in prepare_metadata_for_build_wheel
        self.run_setup()
      File
"/tmp/pip-build-env-znryb617/overlay/lib/python3.7/site-packages/setuptools/build_meta.py",
line 249, in run_setup
        self).run_setup(setup_script=setup_script)
      File
"/tmp/pip-build-env-znryb617/overlay/lib/python3.7/site-packages/setuptools/build_meta.py",
line 142, in run_setup
        exec(compile(code, __file__, 'exec'), locals())
      File "setup.py", line 583, in <module>
        setup_package()
      File "setup.py", line 579, in setup_package
        setup(**metadata)
      File
"/tmp/pip-build-env-znryb617/overlay/lib/python3.7/site-packages/numpy/distutils/core.py",
line 135, in setup
        config = configuration()
      File "setup.py", line 477, in configuration
        raise NotFoundError(msg)
    numpy.distutils.system_info.NotFoundError: No lapack/blas resources
found.
    ----------------------------------------
ERROR: Command errored out with exit status 1: /usr/bin/python3.7
/usr/lib/python3.7/site-packages/pip/_vendor/pep517/_in_process.py
prepare_metadata_for_build_wheel /tmp/tmpc3ao3jht Check the logs for full
command output.

$
==================================

Going by an old memory of mine, I recall that parts of Scipy rely on BLAS,
https://en.wikipedia.org/wiki/Basic_Linear_Algebra_Subprograms, and I read
somewhere that that dependency adds to the difficulty of porting Scipy to
new platforms.

On Sun, Jun 21, 2020 at 10:52 AM Marco Atzeri via Cygwin <cygwin@cygwin.com>
wrote:

> On 21.06.2020 15:03, My Name via Cygwin wrote:
> > IIRC, at one point I was able to use scipy in Cygwin, after a period of
> > failed attempts. I believe that having installed gcc-fortran might have
> > been part of the solution I stumbled upon.
> >
> > But now I'm back to being unable to install scipy in Cygwin. Is it
> > supported officially? Or unsupported but sometimes possible?
> >
> > Thank you.
> > --
>
>
> partially supported ?
>
> pythonXX-numpy is available, except the 3.8 version for the
> time being as all the 3.8 packages are under deployment.
>
> All the rest is not, as no one has spent time to package them.
>
> What is the problem and on which package ?
>
> Regards
> Marco
>
>
>
> --
> Problem reports:      https://cygwin.com/problems.html
> FAQ:                  https://cygwin.com/faq/
> Documentation:        https://cygwin.com/docs.html
> Unsubscribe info:     https://cygwin.com/ml/#unsubscribe-simple
>

Re: What's the official state of Python module scipy in Cygwin?

[Brian Inglis]

On 2020-06-21 12:31, My Name via Cygwin wrote:
> (M.A., I've figured out how to reply to the Cygwin Mailing List on these.
> If you'd like me to remove your name from the list of addressees in my
> future emails, please let me know? I have not found comprehensive docs for
> this mailing-list software, so I'm clueless.)
> 
> I was delighted when Numpy first showed up as an official Cygwin Package
> and am using Numpy in Python 3.7 in Cygwin now. I've realized that the
> latest Cygwin versions of Python (now 3.8) are often incomplete, but that's
> no problem for me. I'm also able to use Sympy in Cygwin by installing Sympy
> via Pip in python3.7 in Cygwin.
> 
> Scipy includes functions outside Numpy and Sympy that would be useful to me
> at least, and I regularly rely on JupyterLab; so for those, I've been
> resorting to Windows 10 versions of Python3.
> 
> I should have clarified in my original post in this thread, when I did
> happen to have success installing full Scipy in Cygwin, it was with this
> command:
> 
> $ python3.7 -m pip install scipy
> 
> When I did have that success installing Scipy in Cygwin, I later realized
> that whether Cygwin package gcc-fortran was installed locally made a
> difference. Without gcc-fortran installed locally, the pip command would
> fail to install Scipy. When I run that pip command now, I don't comprehend
> the output, but I recognize that the Scipy installation has failed, even
> though I do have Cygwin's gcc-fortran installed:
> 
> ==================================
> $ python3.7 -m pip install scipy
> Collecting scipy
>   Downloading scipy-1.5.0.tar.gz (25.6 MB)
>      |████████████████████████████████| 25.6 MB 11.8 MB/s
>   Installing build dependencies ... done
>   Getting requirements to build wheel ... done
>     Preparing wheel metadata ... error
>     ERROR: Command errored out with exit status 1:
>      command: /usr/bin/python3.7
> /usr/lib/python3.7/site-packages/pip/_vendor/pep517/_in_process.py
> prepare_metadata_for_build_wheel /tmp/tmpc3ao3jht
>          cwd: /tmp/pip-install-593dlngp/scipy
>     Complete output (137 lines):
>     lapack_opt_info:
>     lapack_mkl_info:
>     customize UnixCCompiler
>       libraries mkl_rt not found in ['/usr/local/lib', '/usr/lib',
> '/usr/lib/']
>       NOT AVAILABLE
> 
>     openblas_lapack_info:
>     customize UnixCCompiler
>     customize UnixCCompiler
>       libraries openblas not found in ['/usr/local/lib', '/usr/lib',
> '/usr/lib/']
>       NOT AVAILABLE
> 
>     openblas_clapack_info:
>     customize UnixCCompiler
>     customize UnixCCompiler
>       libraries openblas,lapack not found in ['/usr/local/lib', '/usr/lib',
> '/usr/lib/']
>       NOT AVAILABLE
> 
>     atlas_3_10_threads_info:
>     Setting PTATLAS=ATLAS
>     customize UnixCCompiler
>       libraries tatlas,tatlas not found in /usr/local/lib
>     customize UnixCCompiler
>       libraries lapack_atlas not found in /usr/local/lib
>     customize UnixCCompiler
>       libraries tatlas,tatlas not found in /usr/lib
>     customize UnixCCompiler
>       libraries lapack_atlas not found in /usr/lib
>     customize UnixCCompiler
>       libraries tatlas,tatlas not found in /usr/lib/
>     customize UnixCCompiler
>       libraries lapack_atlas not found in /usr/lib/
>     <class 'numpy.distutils.system_info.atlas_3_10_threads_info'>
>       NOT AVAILABLE
> 
>     atlas_3_10_info:
>     customize UnixCCompiler
>       libraries satlas,satlas not found in /usr/local/lib
>     customize UnixCCompiler
>       libraries lapack_atlas not found in /usr/local/lib
>     customize UnixCCompiler
>       libraries satlas,satlas not found in /usr/lib
>     customize UnixCCompiler
>       libraries lapack_atlas not found in /usr/lib
>     customize UnixCCompiler
>       libraries satlas,satlas not found in /usr/lib/
>     customize UnixCCompiler
>       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
>     customize UnixCCompiler
>       libraries ptf77blas,ptcblas,atlas not found in /usr/local/lib
>     customize UnixCCompiler
>       libraries lapack_atlas not found in /usr/local/lib
>     customize UnixCCompiler
>       libraries ptf77blas,ptcblas,atlas not found in /usr/lib
>     customize UnixCCompiler
>       libraries lapack_atlas not found in /usr/lib
>     customize UnixCCompiler
>       libraries ptf77blas,ptcblas,atlas not found in /usr/lib/
>     customize UnixCCompiler
>       libraries lapack_atlas not found in /usr/lib/
>     <class 'numpy.distutils.system_info.atlas_threads_info'>
>       NOT AVAILABLE
> 
>     atlas_info:
>     customize UnixCCompiler
>       libraries f77blas,cblas,atlas not found in /usr/local/lib
>     customize UnixCCompiler
>       libraries lapack_atlas not found in /usr/local/lib
>     customize UnixCCompiler
>       libraries f77blas,cblas,atlas not found in /usr/lib
>     customize UnixCCompiler
>       libraries lapack_atlas not found in /usr/lib
>     customize UnixCCompiler
>       libraries f77blas,cblas,atlas not found in /usr/lib/
>     customize UnixCCompiler
>       libraries lapack_atlas not found in /usr/lib/
>     <class 'numpy.distutils.system_info.atlas_info'>
>       NOT AVAILABLE
> 
>     lapack_info:
>     customize UnixCCompiler
>       libraries lapack not found in ['/usr/local/lib', '/usr/lib',
> '/usr/lib/']
>       NOT AVAILABLE
> 
>     lapack_src_info:
>       NOT AVAILABLE
> 
>       NOT AVAILABLE
> 
>     setup.py:462: UserWarning: Unrecognized setuptools command ('dist_info
> --egg-base /tmp/pip-modern-metadata-ib3nkeed'), proceeding with generating
> Cython sources and expanding templates
>       ' '.join(sys.argv[1:])))
>     Running from SciPy source directory.
> 
> /tmp/pip-build-env-znryb617/overlay/lib/python3.7/site-packages/numpy/distutils/system_info.py:624:
> 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.
>       self.calc_info()
> 
> /tmp/pip-build-env-znryb617/overlay/lib/python3.7/site-packages/numpy/distutils/system_info.py:624:
> 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.
>       self.calc_info()
> 
> /tmp/pip-build-env-znryb617/overlay/lib/python3.7/site-packages/numpy/distutils/system_info.py:624:
> 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.
>       self.calc_info()
>     Traceback (most recent call last):
>       File
> "/usr/lib/python3.7/site-packages/pip/_vendor/pep517/_in_process.py", line
> 280, in <module>
>         main()
>       File
> "/usr/lib/python3.7/site-packages/pip/_vendor/pep517/_in_process.py", line
> 263, in main
>         json_out['return_val'] = hook(**hook_input['kwargs'])
>       File
> "/usr/lib/python3.7/site-packages/pip/_vendor/pep517/_in_process.py", line
> 133, in prepare_metadata_for_build_wheel
>         return hook(metadata_directory, config_settings)
>       File
> "/tmp/pip-build-env-znryb617/overlay/lib/python3.7/site-packages/setuptools/build_meta.py",
> line 157, in prepare_metadata_for_build_wheel
>         self.run_setup()
>       File
> "/tmp/pip-build-env-znryb617/overlay/lib/python3.7/site-packages/setuptools/build_meta.py",
> line 249, in run_setup
>         self).run_setup(setup_script=setup_script)
>       File
> "/tmp/pip-build-env-znryb617/overlay/lib/python3.7/site-packages/setuptools/build_meta.py",
> line 142, in run_setup
>         exec(compile(code, __file__, 'exec'), locals())
>       File "setup.py", line 583, in <module>
>         setup_package()
>       File "setup.py", line 579, in setup_package
>         setup(**metadata)
>       File
> "/tmp/pip-build-env-znryb617/overlay/lib/python3.7/site-packages/numpy/distutils/core.py",
> line 135, in setup
>         config = configuration()
>       File "setup.py", line 477, in configuration
>         raise NotFoundError(msg)
>     numpy.distutils.system_info.NotFoundError: No lapack/blas resources
> found.
>     ----------------------------------------
> ERROR: Command errored out with exit status 1: /usr/bin/python3.7
> /usr/lib/python3.7/site-packages/pip/_vendor/pep517/_in_process.py
> prepare_metadata_for_build_wheel /tmp/tmpc3ao3jht Check the logs for full
> command output.

> Going by an old memory of mine, I recall that parts of Scipy rely on BLAS,
> https://en.wikipedia.org/wiki/Basic_Linear_Algebra_Subprograms, and I read
> somewhere that that dependency adds to the difficulty of porting Scipy to
> new platforms.
Try installing or upgrading liblapack-devel liblapack-doc libopenblas
openblas-doc and see how far that gets you.
I remember coming across atlas elsewhere, but only know it provides some tuned
BLAS and LAPACK routines.

-- 
Take care. Thanks, Brian Inglis, Calgary, Alberta, Canada

This email may be disturbing to some readers as it contains
too much technical detail. Reader discretion is advised.
[Data in IEC units and prefixes, physical quantities in SI.]

Re: What's the official state of Python module scipy in Cygwin?

[Eliot Moss]

You need to install openblas (and lapack, if openblas does not install it).

You also need gcc, g++, and gfortran for building various components, and
the suitable python-devel and python-pip packages.  I further have the
suitable python tkinter, six, and wheel packages installed from cygwin.

I am finding that building scipy takes quite a while (a lot of long
C and Fortran optimizing compilations).

Above, when I say "suitable", I mean python37 (or whatever).  scipy
built for me under 3.7 just now, and I am starting a 3.8 build, which
will require a local build of numpy, I believe, tediously longer :-) ...

Regards - Eliot Moss

Re: What's the official state of Python module scipy in Cygwin?

[Marco Atzeri]

On 21.06.2020 21:36, Brian Inglis wrote:
> On 2020-06-21 12:31, My Name via Cygwin wrote:
>> (M.A., I've figured out how to reply to the Cygwin Mailing List on these.
>> If you'd like me to remove your name from the list of addressees in my
>> future emails, please let me know? I have not found comprehensive docs for
>> this mailing-list software, so I'm clueless.)
>>

> 
>> Going by an old memory of mine, I recall that parts of Scipy rely on BLAS,
>> https://en.wikipedia.org/wiki/Basic_Linear_Algebra_Subprograms, and I read
>> somewhere that that dependency adds to the difficulty of porting Scipy to
>> new platforms.
> Try installing or upgrading liblapack-devel liblapack-doc libopenblas
> openblas-doc and see how far that gets you.
> I remember coming across atlas elsewhere, but only know it provides some tuned
> BLAS and LAPACK routines.
> 

if Scipy requires just a BLAS, liblapack-devel  should be enough for
the compilation.

libopenblas for compatibility reason provides only the shared library
but I am not packing the headers. It helps to run faster any BLAS
routine used by programs.

ATLAS takes too long to compile and it does NOT provides multiprocessor
libraries as OpenBlas. So no interest to package it for Cygwin from
my side.


Regards
Marco

Re: What's the official state of Python module scipy in Cygwin?

[Marco Atzeri]

On 21.06.2020 21:40, Eliot Moss wrote:
> You need to install openblas (and lapack, if openblas does not install it).
> 
> You also need gcc, g++, and gfortran for building various components, and
> the suitable python-devel and python-pip packages.  I further have the
> suitable python tkinter, six, and wheel packages installed from cygwin.
> 
> I am finding that building scipy takes quite a while (a lot of long
> C and Fortran optimizing compilations).
> 
> Above, when I say "suitable", I mean python37 (or whatever).  scipy
> built for me under 3.7 just now, and I am starting a 3.8 build, which
> will require a local build of numpy, I believe, tediously longer :-) ...
> 
> Regards - Eliot Moss


Hi Elliot,

in which order scipy builds the subpackages ?
And how long takes the build of numpy ?


Regards
Marco

Re: What's the official state of Python module scipy in Cygwin?

[My Name]

M.A., I tried your recipe first, because it involved the fewest packages,
but it did not work for me.

After installing cygwin64 as best I could, I executed this Windows batch
file:

=============================
setup-x86_64.exe -P
liblapack-devel,gcc-core,gcc-fortran,python27,python37,python37-pip,python37-numpy,bzr,emacs-w32,aspell,aspell-en,octave
=============================

That worked, except for an error message I often get at the end of
installation, something about fonts I believe, though I failed to note the
exact message. Then I did:

=============================
$ python3.7 -m pip install scipy
Collecting scipy
  Using cached scipy-1.5.0.tar.gz (25.6 MB)
  Installing build dependencies ... error
  ERROR: Command errored out with exit status 1:
   command: /usr/bin/python3.7 /usr/lib/python3.7/site-packages/pip install
--ignore-installed --no-user --prefix /tmp/pip-build-env-m8_ieab2/overlay
--no-warn-script-location --no-binary :none: --only-binary :none: -i
https://pypi.org/simple -- wheel setuptools 'Cython>=0.29.18'
'numpy==1.14.5; python_version=='"'"'3.6'"'"' and
platform_system!='"'"'AIX'"'"'' 'numpy==1.14.5;
python_version=='"'"'3.7'"'"' and platform_system!='"'"'AIX'"'"''
'numpy==1.17.3; python_version>='"'"'3.8'"'"' and
platform_system!='"'"'AIX'"'"'' 'numpy==1.16.0;
python_version=='"'"'3.6'"'"' and platform_system=='"'"'AIX'"'"''
'numpy==1.16.0; python_version=='"'"'3.7'"'"' and
platform_system=='"'"'AIX'"'"'' 'numpy==1.17.3;
python_version>='"'"'3.8'"'"' and platform_system=='"'"'AIX'"'"''
'pybind11>=2.4.3'
       cwd: None
  Complete output (351 lines):
  Ignoring numpy: markers 'python_version == "3.6" and platform_system !=
"AIX"' don't match your environment
  Ignoring numpy: markers 'python_version >= "3.8" and platform_system !=
"AIX"' don't match your environment
  Ignoring numpy: markers 'python_version == "3.6" and platform_system ==
"AIX"' don't match your environment
  Ignoring numpy: markers 'python_version == "3.7" and platform_system ==
"AIX"' don't match your environment
  Ignoring numpy: markers 'python_version >= "3.8" and platform_system ==
"AIX"' don't match your environment
  Collecting wheel
    Using cached wheel-0.34.2-py2.py3-none-any.whl (26 kB)
  Collecting setuptools
    Using cached setuptools-47.3.1-py3-none-any.whl (582 kB)
  Collecting Cython>=0.29.18
    Using cached Cython-0.29.20-py2.py3-none-any.whl (973 kB)
  Collecting numpy==1.14.5
    Using cached numpy-1.14.5.zip (4.9 MB)
  Collecting pybind11>=2.4.3
    Using cached pybind11-2.5.0-py2.py3-none-any.whl (296 kB)
  Using legacy setup.py install for numpy, since package 'wheel' is not
installed.
  Installing collected packages: wheel, setuptools, Cython, numpy, pybind11
      Running setup.py install for numpy: started
      Running setup.py install for numpy: finished with status 'error'
      ERROR: Command errored out with exit status 1:
       command: /usr/bin/python3.7 -u -c 'import sys, setuptools, tokenize;
sys.argv[0] = '"'"'/tmp/pip-install-8tdeenwm/numpy/setup.py'"'"';
__file__='"'"'/tmp/pip-install-8tdeenwm/numpy/setup.py'"'"';f=getattr(tokenize,
'"'"'open'"'"', open)(__file__);code=f.read().replace('"'"'\r\n'"'"',
'"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))'
install --record /tmp/pip-record-5f417uh8/install-record.txt
--single-version-externally-managed --prefix
/tmp/pip-build-env-m8_ieab2/overlay --compile --install-headers
/tmp/pip-build-env-m8_ieab2/overlay/include/python3.7m/numpy
           cwd: /tmp/pip-install-8tdeenwm/numpy/
      Complete output (326 lines):
      Running from numpy source directory.

      Note: if you need reliable uninstall behavior, then install
      with pip instead of using `setup.py install`:

        - `pip install .`       (from a git repo or downloaded source
                                 release)
        - `pip install numpy`   (last NumPy release on PyPi)


      blas_opt_info:
      blas_mkl_info:
      customize UnixCCompiler
        libraries mkl_rt not found in ['/usr/local/lib', '/usr/lib',
'/usr/lib/']
        NOT AVAILABLE

      blis_info:
      customize UnixCCompiler
        libraries blis not found in ['/usr/local/lib', '/usr/lib',
'/usr/lib/']
        NOT AVAILABLE

      openblas_info:
      customize UnixCCompiler
      customize UnixCCompiler
        libraries openblas not found in ['/usr/local/lib', '/usr/lib',
'/usr/lib/']
        NOT AVAILABLE

      atlas_3_10_blas_threads_info:
      Setting PTATLAS=ATLAS
      customize UnixCCompiler
        libraries tatlas not found in ['/usr/local/lib', '/usr/lib',
'/usr/lib/']
        NOT AVAILABLE

      atlas_3_10_blas_info:
      customize UnixCCompiler
        libraries satlas not found in ['/usr/local/lib', '/usr/lib',
'/usr/lib/']
        NOT AVAILABLE

      atlas_blas_threads_info:
      Setting PTATLAS=ATLAS
      customize UnixCCompiler
        libraries ptf77blas,ptcblas,atlas not found in ['/usr/local/lib',
'/usr/lib', '/usr/lib/']
        NOT AVAILABLE

      atlas_blas_info:
      customize UnixCCompiler
        libraries f77blas,cblas,atlas not found in ['/usr/local/lib',
'/usr/lib', '/usr/lib/']
        NOT AVAILABLE

      /tmp/pip-install-8tdeenwm/numpy/numpy/distutils/system_info.py:624:
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.
        self.calc_info()
      blas_info:
      customize UnixCCompiler
      customize UnixCCompiler
      C compiler: gcc -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv
-O3 -Wall -ggdb -O2 -pipe -Wall -Werror=format-security
-Wp,-D_FORTIFY_SOURCE=2 -fstack-protector-strong --param=ssp-buffer-size=4
-fdebug-prefix-map=/cygdrive/d/cyg_pub/devel/python/python37/python37-3.7.7-1.x86_64/build=/usr/src/debug/python37-3.7.7-1
-fdebug-prefix-map=/cygdrive/d/cyg_pub/devel/python/python37/python37-3.7.7-1.x86_64/src/Python-3.7.7=/usr/src/debug/python37-3.7.7-1
-ggdb -O2 -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2
-fstack-protector-strong --param=ssp-buffer-size=4
-fdebug-prefix-map=/cygdrive/d/cyg_pub/devel/python/python37/python37-3.7.7-1.x86_64/build=/usr/src/debug/python37-3.7.7-1
-fdebug-prefix-map=/cygdrive/d/cyg_pub/devel/python/python37/python37-3.7.7-1.x86_64/src/Python-3.7.7=/usr/src/debug/python37-3.7.7-1

      creating /tmp/tmpmrhhvsma/tmp
      creating /tmp/tmpmrhhvsma/tmp/tmpmrhhvsma
      compile options: '-I/usr/include -c'
      gcc: /tmp/tmpmrhhvsma/source.c
      gcc /tmp/tmpmrhhvsma/tmp/tmpmrhhvsma/source.o -L/usr/lib -lcblas -o
/tmp/tmpmrhhvsma/a.out.exe

/usr/lib/gcc/x86_64-pc-cygwin/9.3.0/../../../../x86_64-pc-cygwin/bin/ld:
cannot find -lcblas
      collect2: error: ld returned 1 exit status

/usr/lib/gcc/x86_64-pc-cygwin/9.3.0/../../../../x86_64-pc-cygwin/bin/ld:
cannot find -lcblas
      collect2: error: ld returned 1 exit status
      gcc /tmp/tmpmrhhvsma/tmp/tmpmrhhvsma/source.o -L/usr/lib -lblas -o
/tmp/tmpmrhhvsma/a.out.exe
      customize UnixCCompiler
        FOUND:
          libraries = ['blas', 'blas']
          library_dirs = ['/usr/lib']
          include_dirs = ['/usr/include']
          language = c
          define_macros = [('HAVE_CBLAS', None)]

        FOUND:
          define_macros = [('NO_ATLAS_INFO', 1), ('HAVE_CBLAS', None)]
          libraries = ['blas', 'blas']
          library_dirs = ['/usr/lib']
          include_dirs = ['/usr/include']
          language = c

      /bin/sh: svnversion: command not found
      non-existing path in 'numpy/distutils': 'site.cfg'
      /bin/sh: svnversion: command not found
      F2PY Version 2
      lapack_opt_info:
      lapack_mkl_info:
      customize UnixCCompiler
        libraries mkl_rt not found in ['/usr/local/lib', '/usr/lib',
'/usr/lib/']
        NOT AVAILABLE

      openblas_lapack_info:
      customize UnixCCompiler
      customize UnixCCompiler
        libraries openblas not found in ['/usr/local/lib', '/usr/lib',
'/usr/lib/']
        NOT AVAILABLE

      openblas_clapack_info:
      customize UnixCCompiler
      customize UnixCCompiler
        libraries openblas,lapack not found in ['/usr/local/lib',
'/usr/lib', '/usr/lib/']
        NOT AVAILABLE

      atlas_3_10_threads_info:
      Setting PTATLAS=ATLAS
      customize UnixCCompiler
        libraries tatlas,tatlas not found in /usr/local/lib
      customize UnixCCompiler
        libraries lapack_atlas not found in /usr/local/lib
      customize UnixCCompiler
        libraries tatlas,tatlas not found in /usr/lib
      customize UnixCCompiler
        libraries lapack_atlas not found in /usr/lib
      customize UnixCCompiler
        libraries tatlas,tatlas not found in /usr/lib/
      customize UnixCCompiler
        libraries lapack_atlas not found in /usr/lib/
      <class 'numpy.distutils.system_info.atlas_3_10_threads_info'>
        NOT AVAILABLE

      atlas_3_10_info:
      customize UnixCCompiler
        libraries satlas,satlas not found in /usr/local/lib
      customize UnixCCompiler
        libraries lapack_atlas not found in /usr/local/lib
      customize UnixCCompiler
        libraries satlas,satlas not found in /usr/lib
      customize UnixCCompiler
        libraries lapack_atlas not found in /usr/lib
      customize UnixCCompiler
        libraries satlas,satlas not found in /usr/lib/
      customize UnixCCompiler
        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
      customize UnixCCompiler
        libraries ptf77blas,ptcblas,atlas not found in /usr/local/lib
      customize UnixCCompiler
        libraries lapack_atlas not found in /usr/local/lib
      customize UnixCCompiler
        libraries ptf77blas,ptcblas,atlas not found in /usr/lib
      customize UnixCCompiler
        libraries lapack_atlas not found in /usr/lib
      customize UnixCCompiler
        libraries ptf77blas,ptcblas,atlas not found in /usr/lib/
      customize UnixCCompiler
        libraries lapack_atlas not found in /usr/lib/
      <class 'numpy.distutils.system_info.atlas_threads_info'>
        NOT AVAILABLE

      atlas_info:
      customize UnixCCompiler
        libraries f77blas,cblas,atlas not found in /usr/local/lib
      customize UnixCCompiler
        libraries lapack_atlas not found in /usr/local/lib
      customize UnixCCompiler
        libraries f77blas,cblas,atlas not found in /usr/lib
      customize UnixCCompiler
        libraries lapack_atlas not found in /usr/lib
      customize UnixCCompiler
        libraries f77blas,cblas,atlas not found in /usr/lib/
      customize UnixCCompiler
        libraries lapack_atlas not found in /usr/lib/
      <class 'numpy.distutils.system_info.atlas_info'>
        NOT AVAILABLE

      lapack_info:
      customize UnixCCompiler
      customize UnixCCompiler
        FOUND:
          libraries = ['lapack', 'lapack']
          library_dirs = ['/usr/lib']
          language = f77

        FOUND:
          define_macros = [('NO_ATLAS_INFO', 1), ('HAVE_CBLAS', None)]
          libraries = ['lapack', 'lapack', 'blas', 'blas']
          library_dirs = ['/usr/lib']
          language = c
          include_dirs = ['/usr/include']

      /usr/lib/python3.7/distutils/dist.py:274: UserWarning: Unknown
distribution option: 'define_macros'
        warnings.warn(msg)
      running install
      running build
      running config_cc
      unifing config_cc, config, build_clib, build_ext, build commands
--compiler options
      running config_fc
      unifing config_fc, config, build_clib, build_ext, build commands
--fcompiler options
      running build_src
      build_src
      building py_modules sources
      creating build
      creating build/src.cygwin-3.1.5-x86_64-3.7
      creating build/src.cygwin-3.1.5-x86_64-3.7/numpy
      creating build/src.cygwin-3.1.5-x86_64-3.7/numpy/distutils
      building library "npymath" sources
      get_default_fcompiler: matching types: '['gnu', 'intelv', 'absoft',
'compaqv', 'intelev', 'gnu95', 'g95']'
      customize GnuFCompiler
      Could not locate executable g77
      Could not locate executable f77
      customize IntelVisualFCompiler
      Could not locate executable ifort
      Could not locate executable ifl
      customize AbsoftFCompiler
      Could not locate executable f90
      customize CompaqVisualFCompiler
      Found executable /usr/bin/DF
      customize IntelItaniumVisualFCompiler
      Could not locate executable efl
      customize Gnu95FCompiler
      Found executable /usr/bin/gfortran
      customize Gnu95FCompiler
      customize Gnu95FCompiler using config
      C compiler: gcc -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv
-O3 -Wall -ggdb -O2 -pipe -Wall -Werror=format-security
-Wp,-D_FORTIFY_SOURCE=2 -fstack-protector-strong --param=ssp-buffer-size=4
-fdebug-prefix-map=/cygdrive/d/cyg_pub/devel/python/python37/python37-3.7.7-1.x86_64/build=/usr/src/debug/python37-3.7.7-1
-fdebug-prefix-map=/cygdrive/d/cyg_pub/devel/python/python37/python37-3.7.7-1.x86_64/src/Python-3.7.7=/usr/src/debug/python37-3.7.7-1
-ggdb -O2 -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2
-fstack-protector-strong --param=ssp-buffer-size=4
-fdebug-prefix-map=/cygdrive/d/cyg_pub/devel/python/python37/python37-3.7.7-1.x86_64/build=/usr/src/debug/python37-3.7.7-1
-fdebug-prefix-map=/cygdrive/d/cyg_pub/devel/python/python37/python37-3.7.7-1.x86_64/src/Python-3.7.7=/usr/src/debug/python37-3.7.7-1

      compile options: '-Inumpy/core/src/private -Inumpy/core/src
-Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray
-Inumpy/core/src/umath -Inumpy/core/src/npysort -I/usr/include/python3.7m
-c'
      gcc: _configtest.c
      gcc _configtest.o -o _configtest.exe
      success!
      removing: _configtest.c _configtest.o _configtest.exe
      C compiler: gcc -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv
-O3 -Wall -ggdb -O2 -pipe -Wall -Werror=format-security
-Wp,-D_FORTIFY_SOURCE=2 -fstack-protector-strong --param=ssp-buffer-size=4
-fdebug-prefix-map=/cygdrive/d/cyg_pub/devel/python/python37/python37-3.7.7-1.x86_64/build=/usr/src/debug/python37-3.7.7-1
-fdebug-prefix-map=/cygdrive/d/cyg_pub/devel/python/python37/python37-3.7.7-1.x86_64/src/Python-3.7.7=/usr/src/debug/python37-3.7.7-1
-ggdb -O2 -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2
-fstack-protector-strong --param=ssp-buffer-size=4
-fdebug-prefix-map=/cygdrive/d/cyg_pub/devel/python/python37/python37-3.7.7-1.x86_64/build=/usr/src/debug/python37-3.7.7-1
-fdebug-prefix-map=/cygdrive/d/cyg_pub/devel/python/python37/python37-3.7.7-1.x86_64/src/Python-3.7.7=/usr/src/debug/python37-3.7.7-1

      compile options: '-Inumpy/core/src/private -Inumpy/core/src
-Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray
-Inumpy/core/src/umath -Inumpy/core/src/npysort -I/usr/include/python3.7m
-c'
      gcc: _configtest.c
      _configtest.c:1:5: warning: conflicting types for built-in function
‘exp’; expected ‘double(double)’ [-Wbuiltin-declaration-mismatch]
          1 | int exp (void);
            |     ^~~
      _configtest.c:1:1: note: ‘exp’ is declared in header ‘<math.h>’
        +++ |+#include <math.h>
          1 | int exp (void);
      gcc _configtest.o -o _configtest.exe
      success!
      removing: _configtest.c _configtest.o _configtest.exe
      creating build/src.cygwin-3.1.5-x86_64-3.7/numpy/core
      creating build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src
      creating build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/npymath
      conv_template:>
build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/npymath/npy_math_internal.h
        adding 'build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/npymath'
to include_dirs.
      conv_template:>
build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/npymath/ieee754.c
      conv_template:>
build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/npymath/npy_math_complex.c
      None - nothing done with h_files =
['build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/npymath/npy_math_internal.h']
      building library "npysort" sources
      creating build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/npysort
      conv_template:>
build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/npysort/quicksort.c
      conv_template:>
build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/npysort/mergesort.c
      conv_template:>
build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/npysort/heapsort.c
      creating build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/private
      conv_template:>
build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/private/npy_partition.h
        adding 'build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/private'
to include_dirs.
      conv_template:>
build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/npysort/selection.c
      conv_template:>
build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/private/npy_binsearch.h
      conv_template:>
build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/npysort/binsearch.c
      None - nothing done with h_files =
['build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/private/npy_partition.h',
'build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/private/npy_binsearch.h']
      building extension "numpy.core._dummy" sources
      Generating
build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/include/numpy/config.h
      C compiler: gcc -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv
-O3 -Wall -ggdb -O2 -pipe -Wall -Werror=format-security
-Wp,-D_FORTIFY_SOURCE=2 -fstack-protector-strong --param=ssp-buffer-size=4
-fdebug-prefix-map=/cygdrive/d/cyg_pub/devel/python/python37/python37-3.7.7-1.x86_64/build=/usr/src/debug/python37-3.7.7-1
-fdebug-prefix-map=/cygdrive/d/cyg_pub/devel/python/python37/python37-3.7.7-1.x86_64/src/Python-3.7.7=/usr/src/debug/python37-3.7.7-1
-ggdb -O2 -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2
-fstack-protector-strong --param=ssp-buffer-size=4
-fdebug-prefix-map=/cygdrive/d/cyg_pub/devel/python/python37/python37-3.7.7-1.x86_64/build=/usr/src/debug/python37-3.7.7-1
-fdebug-prefix-map=/cygdrive/d/cyg_pub/devel/python/python37/python37-3.7.7-1.x86_64/src/Python-3.7.7=/usr/src/debug/python37-3.7.7-1

      compile options: '-Inumpy/core/src/private -Inumpy/core/src
-Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray
-Inumpy/core/src/umath -Inumpy/core/src/npysort -I/usr/include/python3.7m
-c'
      gcc: _configtest.c
      _configtest.c:1:10: fatal error: Python.h: No such file or directory
          1 | #include <Python.h>
            |          ^~~~~~~~~~
      compilation terminated.
      _configtest.c:1:10: fatal error: Python.h: No such file or directory
          1 | #include <Python.h>
            |          ^~~~~~~~~~
      compilation terminated.
      failure.
      removing: _configtest.c _configtest.o
      Traceback (most recent call last):
        File "<string>", line 1, in <module>
        File "/tmp/pip-install-8tdeenwm/numpy/setup.py", line 394, in
<module>
          setup_package()
        File "/tmp/pip-install-8tdeenwm/numpy/setup.py", line 386, in
setup_package
          setup(**metadata)
        File "/tmp/pip-install-8tdeenwm/numpy/numpy/distutils/core.py",
line 169, in setup
          return old_setup(**new_attr)
        File "/usr/lib/python3.7/site-packages/setuptools/__init__.py",
line 144, in setup
          return distutils.core.setup(**attrs)
        File "/usr/lib/python3.7/distutils/core.py", line 148, in setup
          dist.run_commands()
        File "/usr/lib/python3.7/distutils/dist.py", line 966, in
run_commands
          self.run_command(cmd)
        File "/usr/lib/python3.7/distutils/dist.py", line 985, in
run_command
          cmd_obj.run()
        File
"/tmp/pip-install-8tdeenwm/numpy/numpy/distutils/command/install.py", line
62, in run
          r = self.setuptools_run()
        File
"/tmp/pip-install-8tdeenwm/numpy/numpy/distutils/command/install.py", line
36, in setuptools_run
          return distutils_install.run(self)
        File "/usr/lib/python3.7/distutils/command/install.py", line 545,
in run
          self.run_command('build')
        File "/usr/lib/python3.7/distutils/cmd.py", line 313, in run_command
          self.distribution.run_command(command)
        File "/usr/lib/python3.7/distutils/dist.py", line 985, in
run_command
          cmd_obj.run()
        File
"/tmp/pip-install-8tdeenwm/numpy/numpy/distutils/command/build.py", line
47, in run
          old_build.run(self)
        File "/usr/lib/python3.7/distutils/command/build.py", line 135, in
run
          self.run_command(cmd_name)
        File "/usr/lib/python3.7/distutils/cmd.py", line 313, in run_command
          self.distribution.run_command(command)
        File "/usr/lib/python3.7/distutils/dist.py", line 985, in
run_command
          cmd_obj.run()
        File
"/tmp/pip-install-8tdeenwm/numpy/numpy/distutils/command/build_src.py",
line 148, in run
          self.build_sources()
        File
"/tmp/pip-install-8tdeenwm/numpy/numpy/distutils/command/build_src.py",
line 165, in build_sources
          self.build_extension_sources(ext)
        File
"/tmp/pip-install-8tdeenwm/numpy/numpy/distutils/command/build_src.py",
line 324, in build_extension_sources
          sources = self.generate_sources(sources, ext)
        File
"/tmp/pip-install-8tdeenwm/numpy/numpy/distutils/command/build_src.py",
line 377, in generate_sources
          source = func(extension, build_dir)
        File "numpy/core/setup.py", line 422, in generate_config_h
          moredefs, ignored = cocache.check_types(config_cmd, ext,
build_dir)
        File "numpy/core/setup.py", line 48, in check_types
          out = check_types(*a, **kw)
        File "numpy/core/setup.py", line 281, in check_types
          "install {0}-dev|{0}-devel.".format(python))
      SystemError: Cannot compile 'Python.h'. Perhaps you need to install
python-dev|python-devel.
      ----------------------------------------
  ERROR: Command errored out with exit status 1: /usr/bin/python3.7 -u -c
'import sys, setuptools, tokenize; sys.argv[0] =
'"'"'/tmp/pip-install-8tdeenwm/numpy/setup.py'"'"';
__file__='"'"'/tmp/pip-install-8tdeenwm/numpy/setup.py'"'"';f=getattr(tokenize,
'"'"'open'"'"', open)(__file__);code=f.read().replace('"'"'\r\n'"'"',
'"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))'
install --record /tmp/pip-record-5f417uh8/install-record.txt
--single-version-externally-managed --prefix
/tmp/pip-build-env-m8_ieab2/overlay --compile --install-headers
/tmp/pip-build-env-m8_ieab2/overlay/include/python3.7m/numpy Check the logs
for full command output.
  ----------------------------------------
ERROR: Command errored out with exit status 1: /usr/bin/python3.7
/usr/lib/python3.7/site-packages/pip install --ignore-installed --no-user
--prefix /tmp/pip-build-env-m8_ieab2/overlay --no-warn-script-location
--no-binary :none: --only-binary :none: -i https://pypi.org/simple -- wheel
setuptools 'Cython>=0.29.18' 'numpy==1.14.5; python_version=='"'"'3.6'"'"'
and platform_system!='"'"'AIX'"'"'' 'numpy==1.14.5;
python_version=='"'"'3.7'"'"' and platform_system!='"'"'AIX'"'"''
'numpy==1.17.3; python_version>='"'"'3.8'"'"' and
platform_system!='"'"'AIX'"'"'' 'numpy==1.16.0;
python_version=='"'"'3.6'"'"' and platform_system=='"'"'AIX'"'"''
'numpy==1.16.0; python_version=='"'"'3.7'"'"' and
platform_system=='"'"'AIX'"'"'' 'numpy==1.17.3;
python_version>='"'"'3.8'"'"' and platform_system=='"'"'AIX'"'"''
'pybind11>=2.4.3' Check the logs for full command output.

$
=============================

Next, as an experiment, I've tried something else that didn't work:

=============================
$ python3.7 -m pip install -U numpy
Collecting numpy
  Using cached numpy-1.19.0.zip (7.3 MB)
  Installing build dependencies ... done
  Getting requirements to build wheel ... done
    Preparing wheel metadata ... error
    ERROR: Command errored out with exit status 1:
     command: /usr/bin/python3.7
/usr/lib/python3.7/site-packages/pip/_vendor/pep517/_in_process.py
prepare_metadata_for_build_wheel /tmp/tmpz6kfi_qg
         cwd: /tmp/pip-install-r_cig5d6/numpy
    Complete output (245 lines):
    Processing numpy/random/_bounded_integers.pxd.in
    Processing numpy/random/bit_generator.pyx
    Processing numpy/random/mtrand.pyx
    Processing numpy/random/_bounded_integers.pyx.in
    Processing numpy/random/_common.pyx
    Processing numpy/random/_generator.pyx
    Processing numpy/random/_mt19937.pyx
    Processing numpy/random/_pcg64.pyx
    Processing numpy/random/_philox.pyx
    Processing numpy/random/_sfc64.pyx
    Cythonizing sources
    blas_opt_info:
    blas_mkl_info:
    customize UnixCCompiler
      libraries mkl_rt not found in ['/usr/local/lib', '/usr/lib',
'/usr/lib/']
      NOT AVAILABLE

    blis_info:
      libraries blis not found in ['/usr/local/lib', '/usr/lib',
'/usr/lib/']
      NOT AVAILABLE

    openblas_info:
      libraries openblas not found in ['/usr/local/lib', '/usr/lib',
'/usr/lib/']
      NOT AVAILABLE

    atlas_3_10_blas_threads_info:
    Setting PTATLAS=ATLAS
      libraries tatlas not found in ['/usr/local/lib', '/usr/lib',
'/usr/lib/']
      NOT AVAILABLE

    atlas_3_10_blas_info:
      libraries satlas not found in ['/usr/local/lib', '/usr/lib',
'/usr/lib/']
      NOT AVAILABLE

    atlas_blas_threads_info:
    Setting PTATLAS=ATLAS
      libraries ptf77blas,ptcblas,atlas not found in ['/usr/local/lib',
'/usr/lib', '/usr/lib/']
      NOT AVAILABLE

    atlas_blas_info:
      libraries f77blas,cblas,atlas not found in ['/usr/local/lib',
'/usr/lib', '/usr/lib/']
      NOT AVAILABLE

    accelerate_info:
      NOT AVAILABLE

    blas_info:
    C compiler: gcc -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv
-O3 -Wall -ggdb -O2 -pipe -Wall -Werror=format-security
-Wp,-D_FORTIFY_SOURCE=2 -fstack-protector-strong --param=ssp-buffer-size=4
-fdebug-prefix-map=/cygdrive/d/cyg_pub/devel/python/python37/python37-3.7.7-1.x86_64/build=/usr/src/debug/python37-3.7.7-1
-fdebug-prefix-map=/cygdrive/d/cyg_pub/devel/python/python37/python37-3.7.7-1.x86_64/src/Python-3.7.7=/usr/src/debug/python37-3.7.7-1
-ggdb -O2 -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2
-fstack-protector-strong --param=ssp-buffer-size=4
-fdebug-prefix-map=/cygdrive/d/cyg_pub/devel/python/python37/python37-3.7.7-1.x86_64/build=/usr/src/debug/python37-3.7.7-1
-fdebug-prefix-map=/cygdrive/d/cyg_pub/devel/python/python37/python37-3.7.7-1.x86_64/src/Python-3.7.7=/usr/src/debug/python37-3.7.7-1

    creating /tmp/tmp739jv32g/tmp
    creating /tmp/tmp739jv32g/tmp/tmp739jv32g
    compile options: '-I/usr/include -c'
    gcc: /tmp/tmp739jv32g/source.c
    gcc /tmp/tmp739jv32g/tmp/tmp739jv32g/source.o -L/usr/lib -lblas -o
/tmp/tmp739jv32g/a.out.exe
      FOUND:
        libraries = ['blas', 'blas']
        library_dirs = ['/usr/lib']
        include_dirs = ['/usr/include']
        language = c
        define_macros = [('HAVE_CBLAS', None)]

      FOUND:
        define_macros = [('NO_ATLAS_INFO', 1), ('HAVE_CBLAS', None)]
        libraries = ['blas', 'blas']
        library_dirs = ['/usr/lib']
        include_dirs = ['/usr/include']
        language = c

    non-existing path in 'numpy/distutils': 'site.cfg'
    lapack_opt_info:
    lapack_mkl_info:
      libraries mkl_rt not found in ['/usr/local/lib', '/usr/lib',
'/usr/lib/']
      NOT AVAILABLE

    openblas_lapack_info:
      libraries openblas not found in ['/usr/local/lib', '/usr/lib',
'/usr/lib/']
      NOT AVAILABLE

    openblas_clapack_info:
      libraries openblas,lapack not found in ['/usr/local/lib', '/usr/lib',
'/usr/lib/']
      NOT AVAILABLE

    flame_info:
      libraries flame not found in ['/usr/local/lib', '/usr/lib',
'/usr/lib/']
      NOT AVAILABLE

    atlas_3_10_threads_info:
    Setting PTATLAS=ATLAS
      libraries lapack_atlas not found in /usr/local/lib
      libraries tatlas,tatlas not found in /usr/local/lib
      libraries lapack_atlas not found in /usr/lib
      libraries tatlas,tatlas not found in /usr/lib
      libraries lapack_atlas not found in /usr/lib/
      libraries tatlas,tatlas not found in /usr/lib/
    <class 'numpy.distutils.system_info.atlas_3_10_threads_info'>
      NOT AVAILABLE

    atlas_3_10_info:
      libraries lapack_atlas not found in /usr/local/lib
      libraries satlas,satlas not found in /usr/local/lib
      libraries lapack_atlas not found in /usr/lib
      libraries satlas,satlas not found in /usr/lib
      libraries lapack_atlas not found in /usr/lib/
      libraries satlas,satlas not found in /usr/lib/
    <class 'numpy.distutils.system_info.atlas_3_10_info'>
      NOT AVAILABLE

    atlas_threads_info:
    Setting PTATLAS=ATLAS
      libraries lapack_atlas not found in /usr/local/lib
      libraries ptf77blas,ptcblas,atlas not found in /usr/local/lib
      libraries lapack_atlas not found in /usr/lib
      libraries ptf77blas,ptcblas,atlas not found in /usr/lib
      libraries lapack_atlas not found in /usr/lib/
      libraries ptf77blas,ptcblas,atlas not found in /usr/lib/
    <class 'numpy.distutils.system_info.atlas_threads_info'>
      NOT AVAILABLE

    atlas_info:
      libraries lapack_atlas not found in /usr/local/lib
      libraries f77blas,cblas,atlas not found in /usr/local/lib
      libraries lapack_atlas not found in /usr/lib
      libraries f77blas,cblas,atlas not found in /usr/lib
      libraries lapack_atlas not found in /usr/lib/
      libraries f77blas,cblas,atlas not found in /usr/lib/
    <class 'numpy.distutils.system_info.atlas_info'>
      NOT AVAILABLE

    lapack_info:
      FOUND:
        libraries = ['lapack', 'lapack']
        library_dirs = ['/usr/lib']
        language = f77

      FOUND:
        libraries = ['lapack', 'lapack', 'blas', 'blas']
        library_dirs = ['/usr/lib']
        language = c
        define_macros = [('NO_ATLAS_INFO', 1), ('HAVE_CBLAS', None)]
        include_dirs = ['/usr/include']

    running dist_info
    running build_src
    build_src
    building py_modules sources
    creating build
    creating build/src.cygwin-3.1.5-x86_64-3.7
    creating build/src.cygwin-3.1.5-x86_64-3.7/numpy
    creating build/src.cygwin-3.1.5-x86_64-3.7/numpy/distutils
    building library "npymath" sources
    Could not locate executable g77
    Could not locate executable f77
    Could not locate executable ifort
    Could not locate executable ifl
    Could not locate executable f90
    Could not locate executable efl
    creating build/src.cygwin-3.1.5-x86_64-3.7/numpy/core
    creating build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src
    creating build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/npymath
    conv_template:>
build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/npymath/npy_math_internal.h
      adding 'build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/npymath' to
include_dirs.
    conv_template:>
build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/npymath/ieee754.c
    conv_template:>
build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/npymath/npy_math_complex.c
    None - nothing done with h_files =
['build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/npymath/npy_math_internal.h']
    building library "npysort" sources
    creating build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/common
    conv_template:>
build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/common/npy_sort.h
      adding 'build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/common' to
include_dirs.
    creating build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/npysort
    conv_template:>
build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/npysort/quicksort.c
    conv_template:>
build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/npysort/mergesort.c
    conv_template:>
build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/npysort/timsort.c
    conv_template:>
build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/npysort/heapsort.c
    conv_template:>
build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/npysort/radixsort.c
    conv_template:>
build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/common/npy_partition.h
    conv_template:>
build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/npysort/selection.c
    conv_template:>
build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/common/npy_binsearch.h
    conv_template:>
build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/npysort/binsearch.c
    None - nothing done with h_files =
['build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/common/npy_sort.h',
'build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/common/npy_partition.h',
'build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/common/npy_binsearch.h']
    building library "npyrandom" sources
    building extension "numpy.core._multiarray_tests" sources
    creating build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/multiarray
    conv_template:>
build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/multiarray/_multiarray_tests.c
    building extension "numpy.core._multiarray_umath" sources
    Running from numpy source directory.
    setup.py:460: UserWarning: Unrecognized setuptools command, proceeding
with generating Cython sources and expanding templates
      run_build = parse_setuppy_commands()
    /tmp/pip-install-r_cig5d6/numpy/numpy/distutils/system_info.py:1914:
UserWarning:
        Optimized (vendor) Blas libraries are not found.
        Falls back to netlib Blas library which has worse performance.
        A better performance should be easily gained by switching
        Blas library.
      if self._calc_info(blas):
    /usr/lib/python3.7/distutils/dist.py:274: UserWarning: Unknown
distribution option: 'define_macros'
      warnings.warn(msg)
    Traceback (most recent call last):
      File
"/usr/lib/python3.7/site-packages/pip/_vendor/pep517/_in_process.py", line
280, in <module>
        main()
      File
"/usr/lib/python3.7/site-packages/pip/_vendor/pep517/_in_process.py", line
263, in main
        json_out['return_val'] = hook(**hook_input['kwargs'])
      File
"/usr/lib/python3.7/site-packages/pip/_vendor/pep517/_in_process.py", line
133, in prepare_metadata_for_build_wheel
        return hook(metadata_directory, config_settings)
      File
"/tmp/pip-build-env-mh_sorol/overlay/lib/python3.7/site-packages/setuptools/build_meta.py",
line 157, in prepare_metadata_for_build_wheel
        self.run_setup()
      File
"/tmp/pip-build-env-mh_sorol/overlay/lib/python3.7/site-packages/setuptools/build_meta.py",
line 249, in run_setup
        self).run_setup(setup_script=setup_script)
      File
"/tmp/pip-build-env-mh_sorol/overlay/lib/python3.7/site-packages/setuptools/build_meta.py",
line 142, in run_setup
        exec(compile(code, __file__, 'exec'), locals())
      File "setup.py", line 489, in <module>
        setup_package()
      File "setup.py", line 481, in setup_package
        setup(**metadata)
      File "/tmp/pip-install-r_cig5d6/numpy/numpy/distutils/core.py", line
169, in setup
        return old_setup(**new_attr)
      File
"/tmp/pip-build-env-mh_sorol/overlay/lib/python3.7/site-packages/setuptools/__init__.py",
line 161, in setup
        return distutils.core.setup(**attrs)
      File "/usr/lib/python3.7/distutils/core.py", line 148, in setup
        dist.run_commands()
      File "/usr/lib/python3.7/distutils/dist.py", line 966, in run_commands
        self.run_command(cmd)
      File "/usr/lib/python3.7/distutils/dist.py", line 985, in run_command
        cmd_obj.run()
      File
"/tmp/pip-build-env-mh_sorol/overlay/lib/python3.7/site-packages/setuptools/command/dist_info.py",
line 31, in run
        egg_info.run()
      File
"/tmp/pip-install-r_cig5d6/numpy/numpy/distutils/command/egg_info.py", line
24, in run
        self.run_command("build_src")
      File "/usr/lib/python3.7/distutils/cmd.py", line 313, in run_command
        self.distribution.run_command(command)
      File "/usr/lib/python3.7/distutils/dist.py", line 985, in run_command
        cmd_obj.run()
      File
"/tmp/pip-install-r_cig5d6/numpy/numpy/distutils/command/build_src.py",
line 144, in run
        self.build_sources()
      File
"/tmp/pip-install-r_cig5d6/numpy/numpy/distutils/command/build_src.py",
line 161, in build_sources
        self.build_extension_sources(ext)
      File
"/tmp/pip-install-r_cig5d6/numpy/numpy/distutils/command/build_src.py",
line 318, in build_extension_sources
        sources = self.generate_sources(sources, ext)
      File
"/tmp/pip-install-r_cig5d6/numpy/numpy/distutils/command/build_src.py",
line 378, in generate_sources
        source = func(extension, build_dir)
      File "numpy/core/setup.py", line 428, in generate_config_h
        moredefs, ignored = cocache.check_types(config_cmd, ext, build_dir)
      File "numpy/core/setup.py", line 47, in check_types
        out = check_types(*a, **kw)
      File "numpy/core/setup.py", line 286, in check_types
        "install {0}-dev|{0}-devel.".format(python))
    SystemError: Cannot compile 'Python.h'. Perhaps you need to install
python-dev|python-devel.
    ----------------------------------------
ERROR: Command errored out with exit status 1: /usr/bin/python3.7
/usr/lib/python3.7/site-packages/pip/_vendor/pep517/_in_process.py
prepare_metadata_for_build_wheel /tmp/tmpz6kfi_qg Check the logs for full
command output.

$
=============================

And finally:

=============================
$ python3.7 -m pip install -U liblapack-devel
ERROR: Could not find a version that satisfies the requirement
liblapack-devel (from versions: none)
ERROR: No matching distribution found for liblapack-devel

$
=============================

Next I'll try the longer recipes recommended in this thread.

Best regards

On Sun, Jun 21, 2020 at 12:47 PM Marco Atzeri via Cygwin <cygwin@cygwin.com>
wrote:

> On 21.06.2020 21:36, Brian Inglis wrote:
> > On 2020-06-21 12:31, My Name via Cygwin wrote:
> >> (M.A., I've figured out how to reply to the Cygwin Mailing List on
> these.
> >> If you'd like me to remove your name from the list of addressees in my
> >> future emails, please let me know? I have not found comprehensive docs
> for
> >> this mailing-list software, so I'm clueless.)
> >>
>
> >
> >> Going by an old memory of mine, I recall that parts of Scipy rely on
> BLAS,
> >> https://en.wikipedia.org/wiki/Basic_Linear_Algebra_Subprograms, and I
> read
> >> somewhere that that dependency adds to the difficulty of porting Scipy
> to
> >> new platforms.
> > Try installing or upgrading liblapack-devel liblapack-doc libopenblas
> > openblas-doc and see how far that gets you.
> > I remember coming across atlas elsewhere, but only know it provides some
> tuned
> > BLAS and LAPACK routines.
> >
>
> if Scipy requires just a BLAS, liblapack-devel  should be enough for
> the compilation.
>
> libopenblas for compatibility reason provides only the shared library
> but I am not packing the headers. It helps to run faster any BLAS
> routine used by programs.
>
> ATLAS takes too long to compile and it does NOT provides multiprocessor
> libraries as OpenBlas. So no interest to package it for Cygwin from
> my side.
>
>
> Regards
> Marco
>
>
> --
> Problem reports:      https://cygwin.com/problems.html
> FAQ:                  https://cygwin.com/faq/
> Documentation:        https://cygwin.com/docs.html
> Unsubscribe info:     https://cygwin.com/ml/#unsubscribe-simple
>

Re: What's the official state of Python module scipy in Cygwin?

[My Name]

E.M.,

Can you please clarify several points you make?

- In the Cygwin installer, I find no "lapack", but searching the installer
for that term does return "liblapack". Would that Cygwin package suffice?
If not, how would you suggest I install it?

- In the Cygwin installer, I find no "openblas", but searching the
installer for that term does return "libopenblas" (and the Cygwin installer
tells me I already have v 0.3.9-1 installed). Does that suffice?

- In the Cygwin installer, I find no "gcc", "g++", or "gfortran", but
searching the installer for those terms does return "gcc-core", "gcc-g++",
"libgfortran4", and "libgfortran5". Can you please tell me the exact
spellings of the packages that worked for you? I lack the background to
interpret your informal descriptions.

- In the Cygwin installer, I find Packages with names of the form
"python37-" followed respectively by "tkinter", "six", and "wheel", and I'm
pretty confident that the long names I've found are what you're describing.
Are you saying that these three are necessary for installing scipy, or that
they're possibly necessary, and you're not sure?

Since you had recent success installing scipy, I'd like to try your recipe,
but could use exact spellings if you have time. Thank you.


On Sun, Jun 21, 2020 at 12:40 PM Eliot Moss <moss@cs.umass.edu> wrote:

> You need to install openblas (and lapack, if openblas does not install it).
>
> You also need gcc, g++, and gfortran for building various components, and
> the suitable python-devel and python-pip packages.  I further have the
> suitable python tkinter, six, and wheel packages installed from cygwin.
>
> I am finding that building scipy takes quite a while (a lot of long
> C and Fortran optimizing compilations).
>
> Above, when I say "suitable", I mean python37 (or whatever).  scipy
> built for me under 3.7 just now, and I am starting a 3.8 build, which
> will require a local build of numpy, I believe, tediously longer :-) ...
>
> Regards - Eliot Moss
> --
> Problem reports:      https://cygwin.com/problems.html
> FAQ:                  https://cygwin.com/faq/
> Documentation:        https://cygwin.com/docs.html
> Unsubscribe info:     https://cygwin.com/ml/#unsubscribe-simple
>

Re: What's the official state of Python module scipy in Cygwin?

[My Name]

B.I., thank you, but your recipe did not work for me:

==================
$ python3.7 -m pip install scipy
Collecting scipy
  Using cached scipy-1.5.0.tar.gz (25.6 MB)
  Installing build dependencies ... error
  ERROR: Command errored out with exit status 1:
   command: /usr/bin/python3.7 /usr/lib/python3.7/site-packages/pip install
--ignore-installed --no-user --prefix /tmp/pip-build-env-u0tmgezi/overlay
--no-warn-script-location --no-binary :none: --only-binary :none: -i
https://pypi.org/simple -- wheel setuptools 'Cython>=0.29.18'
'numpy==1.14.5; python_version=='"'"'3.6'"'"' and
platform_system!='"'"'AIX'"'"'' 'numpy==1.14.5;
python_version=='"'"'3.7'"'"' and platform_system!='"'"'AIX'"'"''
'numpy==1.17.3; python_version>='"'"'3.8'"'"' and
platform_system!='"'"'AIX'"'"'' 'numpy==1.16.0;
python_version=='"'"'3.6'"'"' and platform_system=='"'"'AIX'"'"''
'numpy==1.16.0; python_version=='"'"'3.7'"'"' and
platform_system=='"'"'AIX'"'"'' 'numpy==1.17.3;
python_version>='"'"'3.8'"'"' and platform_system=='"'"'AIX'"'"''
'pybind11>=2.4.3'
       cwd: None
  Complete output (351 lines):
  Ignoring numpy: markers 'python_version == "3.6" and platform_system !=
"AIX"' don't match your environment
  Ignoring numpy: markers 'python_version >= "3.8" and platform_system !=
"AIX"' don't match your environment
  Ignoring numpy: markers 'python_version == "3.6" and platform_system ==
"AIX"' don't match your environment
  Ignoring numpy: markers 'python_version == "3.7" and platform_system ==
"AIX"' don't match your environment
  Ignoring numpy: markers 'python_version >= "3.8" and platform_system ==
"AIX"' don't match your environment
  Collecting wheel
    Using cached wheel-0.34.2-py2.py3-none-any.whl (26 kB)
  Collecting setuptools
    Using cached setuptools-47.3.1-py3-none-any.whl (582 kB)
  Collecting Cython>=0.29.18
    Using cached Cython-0.29.20-py2.py3-none-any.whl (973 kB)
  Collecting numpy==1.14.5
    Using cached numpy-1.14.5.zip (4.9 MB)
  Collecting pybind11>=2.4.3
    Using cached pybind11-2.5.0-py2.py3-none-any.whl (296 kB)
  Using legacy setup.py install for numpy, since package 'wheel' is not
installed.
  Installing collected packages: wheel, setuptools, Cython, numpy, pybind11
      Running setup.py install for numpy: started
      Running setup.py install for numpy: finished with status 'error'
      ERROR: Command errored out with exit status 1:
       command: /usr/bin/python3.7 -u -c 'import sys, setuptools, tokenize;
sys.argv[0] = '"'"'/tmp/pip-install-wizs3z2z/numpy/setup.py'"'"';
__file__='"'"'/tmp/pip-install-wizs3z2z/numpy/setup.py'"'"';f=getattr(tokenize,
'"'"'open'"'"', open)(__file__);code=f.read().replace('"'"'\r\n'"'"',
'"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))'
install --record /tmp/pip-record-qmbtrkjp/install-record.txt
--single-version-externally-managed --prefix
/tmp/pip-build-env-u0tmgezi/overlay --compile --install-headers
/tmp/pip-build-env-u0tmgezi/overlay/include/python3.7m/numpy
           cwd: /tmp/pip-install-wizs3z2z/numpy/
      Complete output (326 lines):
      Running from numpy source directory.

      Note: if you need reliable uninstall behavior, then install
      with pip instead of using `setup.py install`:

        - `pip install .`       (from a git repo or downloaded source
                                 release)
        - `pip install numpy`   (last NumPy release on PyPi)


      blas_opt_info:
      blas_mkl_info:
      customize UnixCCompiler
        libraries mkl_rt not found in ['/usr/local/lib', '/usr/lib',
'/usr/lib/']
        NOT AVAILABLE

      blis_info:
      customize UnixCCompiler
        libraries blis not found in ['/usr/local/lib', '/usr/lib',
'/usr/lib/']
        NOT AVAILABLE

      openblas_info:
      customize UnixCCompiler
      customize UnixCCompiler
        libraries openblas not found in ['/usr/local/lib', '/usr/lib',
'/usr/lib/']
        NOT AVAILABLE

      atlas_3_10_blas_threads_info:
      Setting PTATLAS=ATLAS
      customize UnixCCompiler
        libraries tatlas not found in ['/usr/local/lib', '/usr/lib',
'/usr/lib/']
        NOT AVAILABLE

      atlas_3_10_blas_info:
      customize UnixCCompiler
        libraries satlas not found in ['/usr/local/lib', '/usr/lib',
'/usr/lib/']
        NOT AVAILABLE

      atlas_blas_threads_info:
      Setting PTATLAS=ATLAS
      customize UnixCCompiler
        libraries ptf77blas,ptcblas,atlas not found in ['/usr/local/lib',
'/usr/lib', '/usr/lib/']
        NOT AVAILABLE

      atlas_blas_info:
      customize UnixCCompiler
        libraries f77blas,cblas,atlas not found in ['/usr/local/lib',
'/usr/lib', '/usr/lib/']
        NOT AVAILABLE

      /tmp/pip-install-wizs3z2z/numpy/numpy/distutils/system_info.py:624:
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.
        self.calc_info()
      blas_info:
      customize UnixCCompiler
      customize UnixCCompiler
      C compiler: gcc -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv
-O3 -Wall -ggdb -O2 -pipe -Wall -Werror=format-security
-Wp,-D_FORTIFY_SOURCE=2 -fstack-protector-strong --param=ssp-buffer-size=4
-fdebug-prefix-map=/cygdrive/d/cyg_pub/devel/python/python37/python37-3.7.7-1.x86_64/build=/usr/src/debug/python37-3.7.7-1
-fdebug-prefix-map=/cygdrive/d/cyg_pub/devel/python/python37/python37-3.7.7-1.x86_64/src/Python-3.7.7=/usr/src/debug/python37-3.7.7-1
-ggdb -O2 -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2
-fstack-protector-strong --param=ssp-buffer-size=4
-fdebug-prefix-map=/cygdrive/d/cyg_pub/devel/python/python37/python37-3.7.7-1.x86_64/build=/usr/src/debug/python37-3.7.7-1
-fdebug-prefix-map=/cygdrive/d/cyg_pub/devel/python/python37/python37-3.7.7-1.x86_64/src/Python-3.7.7=/usr/src/debug/python37-3.7.7-1

      creating /tmp/tmploe9v3xi/tmp
      creating /tmp/tmploe9v3xi/tmp/tmploe9v3xi
      compile options: '-I/usr/include -c'
      gcc: /tmp/tmploe9v3xi/source.c
      gcc /tmp/tmploe9v3xi/tmp/tmploe9v3xi/source.o -L/usr/lib -lcblas -o
/tmp/tmploe9v3xi/a.out.exe

/usr/lib/gcc/x86_64-pc-cygwin/9.3.0/../../../../x86_64-pc-cygwin/bin/ld:
cannot find -lcblas
      collect2: error: ld returned 1 exit status

/usr/lib/gcc/x86_64-pc-cygwin/9.3.0/../../../../x86_64-pc-cygwin/bin/ld:
cannot find -lcblas
      collect2: error: ld returned 1 exit status
      gcc /tmp/tmploe9v3xi/tmp/tmploe9v3xi/source.o -L/usr/lib -lblas -o
/tmp/tmploe9v3xi/a.out.exe
      customize UnixCCompiler
        FOUND:
          libraries = ['blas', 'blas']
          library_dirs = ['/usr/lib']
          include_dirs = ['/usr/include']
          language = c
          define_macros = [('HAVE_CBLAS', None)]

        FOUND:
          define_macros = [('NO_ATLAS_INFO', 1), ('HAVE_CBLAS', None)]
          libraries = ['blas', 'blas']
          library_dirs = ['/usr/lib']
          include_dirs = ['/usr/include']
          language = c

      /bin/sh: svnversion: command not found
      non-existing path in 'numpy/distutils': 'site.cfg'
      /bin/sh: svnversion: command not found
      F2PY Version 2
      lapack_opt_info:
      lapack_mkl_info:
      customize UnixCCompiler
        libraries mkl_rt not found in ['/usr/local/lib', '/usr/lib',
'/usr/lib/']
        NOT AVAILABLE

      openblas_lapack_info:
      customize UnixCCompiler
      customize UnixCCompiler
        libraries openblas not found in ['/usr/local/lib', '/usr/lib',
'/usr/lib/']
        NOT AVAILABLE

      openblas_clapack_info:
      customize UnixCCompiler
      customize UnixCCompiler
        libraries openblas,lapack not found in ['/usr/local/lib',
'/usr/lib', '/usr/lib/']
        NOT AVAILABLE

      atlas_3_10_threads_info:
      Setting PTATLAS=ATLAS
      customize UnixCCompiler
        libraries tatlas,tatlas not found in /usr/local/lib
      customize UnixCCompiler
        libraries lapack_atlas not found in /usr/local/lib
      customize UnixCCompiler
        libraries tatlas,tatlas not found in /usr/lib
      customize UnixCCompiler
        libraries lapack_atlas not found in /usr/lib
      customize UnixCCompiler
        libraries tatlas,tatlas not found in /usr/lib/
      customize UnixCCompiler
        libraries lapack_atlas not found in /usr/lib/
      <class 'numpy.distutils.system_info.atlas_3_10_threads_info'>
        NOT AVAILABLE

      atlas_3_10_info:
      customize UnixCCompiler
        libraries satlas,satlas not found in /usr/local/lib
      customize UnixCCompiler
        libraries lapack_atlas not found in /usr/local/lib
      customize UnixCCompiler
        libraries satlas,satlas not found in /usr/lib
      customize UnixCCompiler
        libraries lapack_atlas not found in /usr/lib
      customize UnixCCompiler
        libraries satlas,satlas not found in /usr/lib/
      customize UnixCCompiler
        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
      customize UnixCCompiler
        libraries ptf77blas,ptcblas,atlas not found in /usr/local/lib
      customize UnixCCompiler
        libraries lapack_atlas not found in /usr/local/lib
      customize UnixCCompiler
        libraries ptf77blas,ptcblas,atlas not found in /usr/lib
      customize UnixCCompiler
        libraries lapack_atlas not found in /usr/lib
      customize UnixCCompiler
        libraries ptf77blas,ptcblas,atlas not found in /usr/lib/
      customize UnixCCompiler
        libraries lapack_atlas not found in /usr/lib/
      <class 'numpy.distutils.system_info.atlas_threads_info'>
        NOT AVAILABLE

      atlas_info:
      customize UnixCCompiler
        libraries f77blas,cblas,atlas not found in /usr/local/lib
      customize UnixCCompiler
        libraries lapack_atlas not found in /usr/local/lib
      customize UnixCCompiler
        libraries f77blas,cblas,atlas not found in /usr/lib
      customize UnixCCompiler
        libraries lapack_atlas not found in /usr/lib
      customize UnixCCompiler
        libraries f77blas,cblas,atlas not found in /usr/lib/
      customize UnixCCompiler
        libraries lapack_atlas not found in /usr/lib/
      <class 'numpy.distutils.system_info.atlas_info'>
        NOT AVAILABLE

      lapack_info:
      customize UnixCCompiler
      customize UnixCCompiler
        FOUND:
          libraries = ['lapack', 'lapack']
          library_dirs = ['/usr/lib']
          language = f77

        FOUND:
          define_macros = [('NO_ATLAS_INFO', 1), ('HAVE_CBLAS', None)]
          libraries = ['lapack', 'lapack', 'blas', 'blas']
          library_dirs = ['/usr/lib']
          language = c
          include_dirs = ['/usr/include']

      /usr/lib/python3.7/distutils/dist.py:274: UserWarning: Unknown
distribution option: 'define_macros'
        warnings.warn(msg)
      running install
      running build
      running config_cc
      unifing config_cc, config, build_clib, build_ext, build commands
--compiler options
      running config_fc
      unifing config_fc, config, build_clib, build_ext, build commands
--fcompiler options
      running build_src
      build_src
      building py_modules sources
      creating build
      creating build/src.cygwin-3.1.5-x86_64-3.7
      creating build/src.cygwin-3.1.5-x86_64-3.7/numpy
      creating build/src.cygwin-3.1.5-x86_64-3.7/numpy/distutils
      building library "npymath" sources
      get_default_fcompiler: matching types: '['gnu', 'intelv', 'absoft',
'compaqv', 'intelev', 'gnu95', 'g95']'
      customize GnuFCompiler
      Could not locate executable g77
      Could not locate executable f77
      customize IntelVisualFCompiler
      Could not locate executable ifort
      Could not locate executable ifl
      customize AbsoftFCompiler
      Could not locate executable f90
      customize CompaqVisualFCompiler
      Found executable /usr/bin/DF
      customize IntelItaniumVisualFCompiler
      Could not locate executable efl
      customize Gnu95FCompiler
      Found executable /usr/bin/gfortran
      customize Gnu95FCompiler
      customize Gnu95FCompiler using config
      C compiler: gcc -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv
-O3 -Wall -ggdb -O2 -pipe -Wall -Werror=format-security
-Wp,-D_FORTIFY_SOURCE=2 -fstack-protector-strong --param=ssp-buffer-size=4
-fdebug-prefix-map=/cygdrive/d/cyg_pub/devel/python/python37/python37-3.7.7-1.x86_64/build=/usr/src/debug/python37-3.7.7-1
-fdebug-prefix-map=/cygdrive/d/cyg_pub/devel/python/python37/python37-3.7.7-1.x86_64/src/Python-3.7.7=/usr/src/debug/python37-3.7.7-1
-ggdb -O2 -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2
-fstack-protector-strong --param=ssp-buffer-size=4
-fdebug-prefix-map=/cygdrive/d/cyg_pub/devel/python/python37/python37-3.7.7-1.x86_64/build=/usr/src/debug/python37-3.7.7-1
-fdebug-prefix-map=/cygdrive/d/cyg_pub/devel/python/python37/python37-3.7.7-1.x86_64/src/Python-3.7.7=/usr/src/debug/python37-3.7.7-1

      compile options: '-Inumpy/core/src/private -Inumpy/core/src
-Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray
-Inumpy/core/src/umath -Inumpy/core/src/npysort -I/usr/include/python3.7m
-c'
      gcc: _configtest.c
      gcc _configtest.o -o _configtest.exe
      success!
      removing: _configtest.c _configtest.o _configtest.exe
      C compiler: gcc -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv
-O3 -Wall -ggdb -O2 -pipe -Wall -Werror=format-security
-Wp,-D_FORTIFY_SOURCE=2 -fstack-protector-strong --param=ssp-buffer-size=4
-fdebug-prefix-map=/cygdrive/d/cyg_pub/devel/python/python37/python37-3.7.7-1.x86_64/build=/usr/src/debug/python37-3.7.7-1
-fdebug-prefix-map=/cygdrive/d/cyg_pub/devel/python/python37/python37-3.7.7-1.x86_64/src/Python-3.7.7=/usr/src/debug/python37-3.7.7-1
-ggdb -O2 -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2
-fstack-protector-strong --param=ssp-buffer-size=4
-fdebug-prefix-map=/cygdrive/d/cyg_pub/devel/python/python37/python37-3.7.7-1.x86_64/build=/usr/src/debug/python37-3.7.7-1
-fdebug-prefix-map=/cygdrive/d/cyg_pub/devel/python/python37/python37-3.7.7-1.x86_64/src/Python-3.7.7=/usr/src/debug/python37-3.7.7-1

      compile options: '-Inumpy/core/src/private -Inumpy/core/src
-Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray
-Inumpy/core/src/umath -Inumpy/core/src/npysort -I/usr/include/python3.7m
-c'
      gcc: _configtest.c
      _configtest.c:1:5: warning: conflicting types for built-in function
‘exp’; expected ‘double(double)’ [-Wbuiltin-declaration-mismatch]
          1 | int exp (void);
            |     ^~~
      _configtest.c:1:1: note: ‘exp’ is declared in header ‘<math.h>’
        +++ |+#include <math.h>
          1 | int exp (void);
      gcc _configtest.o -o _configtest.exe
      success!
      removing: _configtest.c _configtest.o _configtest.exe
      creating build/src.cygwin-3.1.5-x86_64-3.7/numpy/core
      creating build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src
      creating build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/npymath
      conv_template:>
build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/npymath/npy_math_internal.h
        adding 'build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/npymath'
to include_dirs.
      conv_template:>
build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/npymath/ieee754.c
      conv_template:>
build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/npymath/npy_math_complex.c
      None - nothing done with h_files =
['build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/npymath/npy_math_internal.h']
      building library "npysort" sources
      creating build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/npysort
      conv_template:>
build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/npysort/quicksort.c
      conv_template:>
build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/npysort/mergesort.c
      conv_template:>
build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/npysort/heapsort.c
      creating build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/private
      conv_template:>
build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/private/npy_partition.h
        adding 'build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/private'
to include_dirs.
      conv_template:>
build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/npysort/selection.c
      conv_template:>
build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/private/npy_binsearch.h
      conv_template:>
build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/npysort/binsearch.c
      None - nothing done with h_files =
['build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/private/npy_partition.h',
'build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/src/private/npy_binsearch.h']
      building extension "numpy.core._dummy" sources
      Generating
build/src.cygwin-3.1.5-x86_64-3.7/numpy/core/include/numpy/config.h
      C compiler: gcc -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv
-O3 -Wall -ggdb -O2 -pipe -Wall -Werror=format-security
-Wp,-D_FORTIFY_SOURCE=2 -fstack-protector-strong --param=ssp-buffer-size=4
-fdebug-prefix-map=/cygdrive/d/cyg_pub/devel/python/python37/python37-3.7.7-1.x86_64/build=/usr/src/debug/python37-3.7.7-1
-fdebug-prefix-map=/cygdrive/d/cyg_pub/devel/python/python37/python37-3.7.7-1.x86_64/src/Python-3.7.7=/usr/src/debug/python37-3.7.7-1
-ggdb -O2 -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2
-fstack-protector-strong --param=ssp-buffer-size=4
-fdebug-prefix-map=/cygdrive/d/cyg_pub/devel/python/python37/python37-3.7.7-1.x86_64/build=/usr/src/debug/python37-3.7.7-1
-fdebug-prefix-map=/cygdrive/d/cyg_pub/devel/python/python37/python37-3.7.7-1.x86_64/src/Python-3.7.7=/usr/src/debug/python37-3.7.7-1

      compile options: '-Inumpy/core/src/private -Inumpy/core/src
-Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray
-Inumpy/core/src/umath -Inumpy/core/src/npysort -I/usr/include/python3.7m
-c'
      gcc: _configtest.c
      _configtest.c:1:10: fatal error: Python.h: No such file or directory
          1 | #include <Python.h>
            |          ^~~~~~~~~~
      compilation terminated.
      _configtest.c:1:10: fatal error: Python.h: No such file or directory
          1 | #include <Python.h>
            |          ^~~~~~~~~~
      compilation terminated.
      failure.
      removing: _configtest.c _configtest.o
      Traceback (most recent call last):
        File "<string>", line 1, in <module>
        File "/tmp/pip-install-wizs3z2z/numpy/setup.py", line 394, in
<module>
          setup_package()
        File "/tmp/pip-install-wizs3z2z/numpy/setup.py", line 386, in
setup_package
          setup(**metadata)
        File "/tmp/pip-install-wizs3z2z/numpy/numpy/distutils/core.py",
line 169, in setup
          return old_setup(**new_attr)
        File "/usr/lib/python3.7/site-packages/setuptools/__init__.py",
line 144, in setup
          return distutils.core.setup(**attrs)
        File "/usr/lib/python3.7/distutils/core.py", line 148, in setup
          dist.run_commands()
        File "/usr/lib/python3.7/distutils/dist.py", line 966, in
run_commands
          self.run_command(cmd)
        File "/usr/lib/python3.7/distutils/dist.py", line 985, in
run_command
          cmd_obj.run()
        File
"/tmp/pip-install-wizs3z2z/numpy/numpy/distutils/command/install.py", line
62, in run
          r = self.setuptools_run()
        File
"/tmp/pip-install-wizs3z2z/numpy/numpy/distutils/command/install.py", line
36, in setuptools_run
          return distutils_install.run(self)
        File "/usr/lib/python3.7/distutils/command/install.py", line 545,
in run
          self.run_command('build')
        File "/usr/lib/python3.7/distutils/cmd.py", line 313, in run_command
          self.distribution.run_command(command)
        File "/usr/lib/python3.7/distutils/dist.py", line 985, in
run_command
          cmd_obj.run()
        File
"/tmp/pip-install-wizs3z2z/numpy/numpy/distutils/command/build.py", line
47, in run
          old_build.run(self)
        File "/usr/lib/python3.7/distutils/command/build.py", line 135, in
run
          self.run_command(cmd_name)
        File "/usr/lib/python3.7/distutils/cmd.py", line 313, in run_command
          self.distribution.run_command(command)
        File "/usr/lib/python3.7/distutils/dist.py", line 985, in
run_command
          cmd_obj.run()
        File
"/tmp/pip-install-wizs3z2z/numpy/numpy/distutils/command/build_src.py",
line 148, in run
          self.build_sources()
        File
"/tmp/pip-install-wizs3z2z/numpy/numpy/distutils/command/build_src.py",
line 165, in build_sources
          self.build_extension_sources(ext)
        File
"/tmp/pip-install-wizs3z2z/numpy/numpy/distutils/command/build_src.py",
line 324, in build_extension_sources
          sources = self.generate_sources(sources, ext)
        File
"/tmp/pip-install-wizs3z2z/numpy/numpy/distutils/command/build_src.py",
line 377, in generate_sources
          source = func(extension, build_dir)
        File "numpy/core/setup.py", line 422, in generate_config_h
          moredefs, ignored = cocache.check_types(config_cmd, ext,
build_dir)
        File "numpy/core/setup.py", line 48, in check_types
          out = check_types(*a, **kw)
        File "numpy/core/setup.py", line 281, in check_types
          "install {0}-dev|{0}-devel.".format(python))
      SystemError: Cannot compile 'Python.h'. Perhaps you need to install
python-dev|python-devel.
      ----------------------------------------
  ERROR: Command errored out with exit status 1: /usr/bin/python3.7 -u -c
'import sys, setuptools, tokenize; sys.argv[0] =
'"'"'/tmp/pip-install-wizs3z2z/numpy/setup.py'"'"';
__file__='"'"'/tmp/pip-install-wizs3z2z/numpy/setup.py'"'"';f=getattr(tokenize,
'"'"'open'"'"', open)(__file__);code=f.read().replace('"'"'\r\n'"'"',
'"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))'
install --record /tmp/pip-record-qmbtrkjp/install-record.txt
--single-version-externally-managed --prefix
/tmp/pip-build-env-u0tmgezi/overlay --compile --install-headers
/tmp/pip-build-env-u0tmgezi/overlay/include/python3.7m/numpy Check the logs
for full command output.
  ----------------------------------------
ERROR: Command errored out with exit status 1: /usr/bin/python3.7
/usr/lib/python3.7/site-packages/pip install --ignore-installed --no-user
--prefix /tmp/pip-build-env-u0tmgezi/overlay --no-warn-script-location
--no-binary :none: --only-binary :none: -i https://pypi.org/simple -- wheel
setuptools 'Cython>=0.29.18' 'numpy==1.14.5; python_version=='"'"'3.6'"'"'
and platform_system!='"'"'AIX'"'"'' 'numpy==1.14.5;
python_version=='"'"'3.7'"'"' and platform_system!='"'"'AIX'"'"''
'numpy==1.17.3; python_version>='"'"'3.8'"'"' and
platform_system!='"'"'AIX'"'"'' 'numpy==1.16.0;
python_version=='"'"'3.6'"'"' and platform_system=='"'"'AIX'"'"''
'numpy==1.16.0; python_version=='"'"'3.7'"'"' and
platform_system=='"'"'AIX'"'"'' 'numpy==1.17.3;
python_version>='"'"'3.8'"'"' and platform_system=='"'"'AIX'"'"''
'pybind11>=2.4.3' Check the logs for full command output.

$
==================

On Sun, Jun 21, 2020 at 12:37 PM Brian Inglis <
Brian.Inglis@systematicsw.ab.ca> wrote:

> On 2020-06-21 12:31, My Name via Cygwin wrote:
> > (M.A., I've figured out how to reply to the Cygwin Mailing List on these.
> > If you'd like me to remove your name from the list of addressees in my
> > future emails, please let me know? I have not found comprehensive docs
> for
> > this mailing-list software, so I'm clueless.)
> >
> > I was delighted when Numpy first showed up as an official Cygwin Package
> > and am using Numpy in Python 3.7 in Cygwin now. I've realized that the
> > latest Cygwin versions of Python (now 3.8) are often incomplete, but
> that's
> > no problem for me. I'm also able to use Sympy in Cygwin by installing
> Sympy
> > via Pip in python3.7 in Cygwin.
> >
> > Scipy includes functions outside Numpy and Sympy that would be useful to
> me
> > at least, and I regularly rely on JupyterLab; so for those, I've been
> > resorting to Windows 10 versions of Python3.
> >
> > I should have clarified in my original post in this thread, when I did
> > happen to have success installing full Scipy in Cygwin, it was with this
> > command:
> >
> > $ python3.7 -m pip install scipy
> >
> > When I did have that success installing Scipy in Cygwin, I later realized
> > that whether Cygwin package gcc-fortran was installed locally made a
> > difference. Without gcc-fortran installed locally, the pip command would
> > fail to install Scipy. When I run that pip command now, I don't
> comprehend
> > the output, but I recognize that the Scipy installation has failed, even
> > though I do have Cygwin's gcc-fortran installed:
> >
> > ==================================
> > $ python3.7 -m pip install scipy
> > Collecting scipy
> >   Downloading scipy-1.5.0.tar.gz (25.6 MB)
> >      |████████████████████████████████| 25.6 MB 11.8 MB/s
> >   Installing build dependencies ... done
> >   Getting requirements to build wheel ... done
> >     Preparing wheel metadata ... error
> >     ERROR: Command errored out with exit status 1:
> >      command: /usr/bin/python3.7
> > /usr/lib/python3.7/site-packages/pip/_vendor/pep517/_in_process.py
> > prepare_metadata_for_build_wheel /tmp/tmpc3ao3jht
> >          cwd: /tmp/pip-install-593dlngp/scipy
> >     Complete output (137 lines):
> >     lapack_opt_info:
> >     lapack_mkl_info:
> >     customize UnixCCompiler
> >       libraries mkl_rt not found in ['/usr/local/lib', '/usr/lib',
> > '/usr/lib/']
> >       NOT AVAILABLE
> >
> >     openblas_lapack_info:
> >     customize UnixCCompiler
> >     customize UnixCCompiler
> >       libraries openblas not found in ['/usr/local/lib', '/usr/lib',
> > '/usr/lib/']
> >       NOT AVAILABLE
> >
> >     openblas_clapack_info:
> >     customize UnixCCompiler
> >     customize UnixCCompiler
> >       libraries openblas,lapack not found in ['/usr/local/lib',
> '/usr/lib',
> > '/usr/lib/']
> >       NOT AVAILABLE
> >
> >     atlas_3_10_threads_info:
> >     Setting PTATLAS=ATLAS
> >     customize UnixCCompiler
> >       libraries tatlas,tatlas not found in /usr/local/lib
> >     customize UnixCCompiler
> >       libraries lapack_atlas not found in /usr/local/lib
> >     customize UnixCCompiler
> >       libraries tatlas,tatlas not found in /usr/lib
> >     customize UnixCCompiler
> >       libraries lapack_atlas not found in /usr/lib
> >     customize UnixCCompiler
> >       libraries tatlas,tatlas not found in /usr/lib/
> >     customize UnixCCompiler
> >       libraries lapack_atlas not found in /usr/lib/
> >     <class 'numpy.distutils.system_info.atlas_3_10_threads_info'>
> >       NOT AVAILABLE
> >
> >     atlas_3_10_info:
> >     customize UnixCCompiler
> >       libraries satlas,satlas not found in /usr/local/lib
> >     customize UnixCCompiler
> >       libraries lapack_atlas not found in /usr/local/lib
> >     customize UnixCCompiler
> >       libraries satlas,satlas not found in /usr/lib
> >     customize UnixCCompiler
> >       libraries lapack_atlas not found in /usr/lib
> >     customize UnixCCompiler
> >       libraries satlas,satlas not found in /usr/lib/
> >     customize UnixCCompiler
> >       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
> >     customize UnixCCompiler
> >       libraries ptf77blas,ptcblas,atlas not found in /usr/local/lib
> >     customize UnixCCompiler
> >       libraries lapack_atlas not found in /usr/local/lib
> >     customize UnixCCompiler
> >       libraries ptf77blas,ptcblas,atlas not found in /usr/lib
> >     customize UnixCCompiler
> >       libraries lapack_atlas not found in /usr/lib
> >     customize UnixCCompiler
> >       libraries ptf77blas,ptcblas,atlas not found in /usr/lib/
> >     customize UnixCCompiler
> >       libraries lapack_atlas not found in /usr/lib/
> >     <class 'numpy.distutils.system_info.atlas_threads_info'>
> >       NOT AVAILABLE
> >
> >     atlas_info:
> >     customize UnixCCompiler
> >       libraries f77blas,cblas,atlas not found in /usr/local/lib
> >     customize UnixCCompiler
> >       libraries lapack_atlas not found in /usr/local/lib
> >     customize UnixCCompiler
> >       libraries f77blas,cblas,atlas not found in /usr/lib
> >     customize UnixCCompiler
> >       libraries lapack_atlas not found in /usr/lib
> >     customize UnixCCompiler
> >       libraries f77blas,cblas,atlas not found in /usr/lib/
> >     customize UnixCCompiler
> >       libraries lapack_atlas not found in /usr/lib/
> >     <class 'numpy.distutils.system_info.atlas_info'>
> >       NOT AVAILABLE
> >
> >     lapack_info:
> >     customize UnixCCompiler
> >       libraries lapack not found in ['/usr/local/lib', '/usr/lib',
> > '/usr/lib/']
> >       NOT AVAILABLE
> >
> >     lapack_src_info:
> >       NOT AVAILABLE
> >
> >       NOT AVAILABLE
> >
> >     setup.py:462: UserWarning: Unrecognized setuptools command
> ('dist_info
> > --egg-base /tmp/pip-modern-metadata-ib3nkeed'), proceeding with
> generating
> > Cython sources and expanding templates
> >       ' '.join(sys.argv[1:])))
> >     Running from SciPy source directory.
> >
> >
> /tmp/pip-build-env-znryb617/overlay/lib/python3.7/site-packages/numpy/distutils/system_info.py:624:
> > 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.
> >       self.calc_info()
> >
> >
> /tmp/pip-build-env-znryb617/overlay/lib/python3.7/site-packages/numpy/distutils/system_info.py:624:
> > 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.
> >       self.calc_info()
> >
> >
> /tmp/pip-build-env-znryb617/overlay/lib/python3.7/site-packages/numpy/distutils/system_info.py:624:
> > 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.
> >       self.calc_info()
> >     Traceback (most recent call last):
> >       File
> > "/usr/lib/python3.7/site-packages/pip/_vendor/pep517/_in_process.py",
> line
> > 280, in <module>
> >         main()
> >       File
> > "/usr/lib/python3.7/site-packages/pip/_vendor/pep517/_in_process.py",
> line
> > 263, in main
> >         json_out['return_val'] = hook(**hook_input['kwargs'])
> >       File
> > "/usr/lib/python3.7/site-packages/pip/_vendor/pep517/_in_process.py",
> line
> > 133, in prepare_metadata_for_build_wheel
> >         return hook(metadata_directory, config_settings)
> >       File
> >
> "/tmp/pip-build-env-znryb617/overlay/lib/python3.7/site-packages/setuptools/build_meta.py",
> > line 157, in prepare_metadata_for_build_wheel
> >         self.run_setup()
> >       File
> >
> "/tmp/pip-build-env-znryb617/overlay/lib/python3.7/site-packages/setuptools/build_meta.py",
> > line 249, in run_setup
> >         self).run_setup(setup_script=setup_script)
> >       File
> >
> "/tmp/pip-build-env-znryb617/overlay/lib/python3.7/site-packages/setuptools/build_meta.py",
> > line 142, in run_setup
> >         exec(compile(code, __file__, 'exec'), locals())
> >       File "setup.py", line 583, in <module>
> >         setup_package()
> >       File "setup.py", line 579, in setup_package
> >         setup(**metadata)
> >       File
> >
> "/tmp/pip-build-env-znryb617/overlay/lib/python3.7/site-packages/numpy/distutils/core.py",
> > line 135, in setup
> >         config = configuration()
> >       File "setup.py", line 477, in configuration
> >         raise NotFoundError(msg)
> >     numpy.distutils.system_info.NotFoundError: No lapack/blas resources
> > found.
> >     ----------------------------------------
> > ERROR: Command errored out with exit status 1: /usr/bin/python3.7
> > /usr/lib/python3.7/site-packages/pip/_vendor/pep517/_in_process.py
> > prepare_metadata_for_build_wheel /tmp/tmpc3ao3jht Check the logs for full
> > command output.
>
> > Going by an old memory of mine, I recall that parts of Scipy rely on
> BLAS,
> > https://en.wikipedia.org/wiki/Basic_Linear_Algebra_Subprograms, and I
> read
> > somewhere that that dependency adds to the difficulty of porting Scipy to
> > new platforms.
> Try installing or upgrading liblapack-devel liblapack-doc libopenblas
> openblas-doc and see how far that gets you.
> I remember coming across atlas elsewhere, but only know it provides some
> tuned
> BLAS and LAPACK routines.
>
> --
> Take care. Thanks, Brian Inglis, Calgary, Alberta, Canada
>
> This email may be disturbing to some readers as it contains
> too much technical detail. Reader discretion is advised.
> [Data in IEC units and prefixes, physical quantities in SI.]
> --
> Problem reports:      https://cygwin.com/problems.html
> FAQ:                  https://cygwin.com/faq/
> Documentation:        https://cygwin.com/docs.html
> Unsubscribe info:     https://cygwin.com/ml/#unsubscribe-simple
>

Re: What's the official state of Python module scipy in Cygwin?

[My Name]

E.M.,

Your recipe has worked for me. I've successfully installed scipy per your
instructions. Thanks for your time and patience. I have wanted to use scipy
in Cygwin for three or four years, but had not asked here until yesterday.
Please don't apologize for abbreviating the package names at first. I
imagine everyone else reading knew exactly which packages you meant; but
despite relying on Cygwin for some basic things, my Cygwin expertise is
just novice. I work on my own development projects full-time, but haven't
been at a university or worked in a development team for thirty years;
haven't used gcc for three years and don't remember its details. My Cygwin
Setup which allowed me to install scipy was this:

=========================
setup-x86_64.exe -P
libopenblas,openblas-doc,liblapack-devel,liblapack-doc,gcc-core,gcc-g++,gcc-fortran,libgfortran4,libgfortran5,python27,python37,python37-devel,python37-pip,python37-tkinter,python37-six,python37-wheel,python37-numpy,bzr,emacs-w32,aspell,aspell-en,octave
=========================

I surely did some overkill with the three fortran packages, not knowing
which was meant by "gfortran", but it didn't hurt anything.

> Maybe I missed it, but I don't see anything indicating that you have
installed openblas or lapack

Before trying your relatively complex recipe, I tried MA and BI's simpler
recipes. First I tried MA's recipe, so I installed lapack but not
libopenblas. Next I tried BI's recipe, so I installed them both, but still
could not install scipy. Then, while preparing my batch file for your
recipe, I noticed I'd been installing python37 but not python37-devel
previously while trying MA and BI's recipes. That omission was
accidental not deliberate, and for all I know now, their solutions might
have worked if I'd installed python37-devel at the time.

I'm plenty satisfied with python3.7, but good luck with python3.8 / scipy.

Considering the power of scipy and (I'm guessing) its popularity, and
considering that the solution required nothing more than installing the
necessary packages via Cygwin Setup and then pip scipy, I respectfully
propose that the solution be included somewhere in the Cygwin documentation
or FAQ, even without scipy as an official Cygwin package.

Thanks to everyone in this thread for helping me.

Best regards


On Sun, Jun 21, 2020 at 4:16 PM My Name <mname989@gmail.com> wrote:

> E.M.,
>
> Can you please clarify several points you make?
>
> - In the Cygwin installer, I find no "lapack", but searching the installer
> for that term does return "liblapack". Would that Cygwin package suffice?
> If not, how would you suggest I install it?
>
> - In the Cygwin installer, I find no "openblas", but searching the
> installer for that term does return "libopenblas" (and the Cygwin installer
> tells me I already have v 0.3.9-1 installed). Does that suffice?
>
> - In the Cygwin installer, I find no "gcc", "g++", or "gfortran", but
> searching the installer for those terms does return "gcc-core", "gcc-g++",
> "libgfortran4", and "libgfortran5". Can you please tell me the exact
> spellings of the packages that worked for you? I lack the background to
> interpret your informal descriptions.
>
> - In the Cygwin installer, I find Packages with names of the form
> "python37-" followed respectively by "tkinter", "six", and "wheel", and I'm
> pretty confident that the long names I've found are what you're describing.
> Are you saying that these three are necessary for installing scipy, or that
> they're possibly necessary, and you're not sure?
>
> Since you had recent success installing scipy, I'd like to try your
> recipe, but could use exact spellings if you have time. Thank you.
>
>
> On Sun, Jun 21, 2020 at 12:40 PM Eliot Moss <moss@cs.umass.edu> wrote:
>
>> You need to install openblas (and lapack, if openblas does not install
>> it).
>>
>> You also need gcc, g++, and gfortran for building various components, and
>> the suitable python-devel and python-pip packages.  I further have the
>> suitable python tkinter, six, and wheel packages installed from cygwin.
>>
>> I am finding that building scipy takes quite a while (a lot of long
>> C and Fortran optimizing compilations).
>>
>> Above, when I say "suitable", I mean python37 (or whatever).  scipy
>> built for me under 3.7 just now, and I am starting a 3.8 build, which
>> will require a local build of numpy, I believe, tediously longer :-) ...
>>
>> Regards - Eliot Moss
>> --
>> Problem reports:      https://cygwin.com/problems.html
>> FAQ:                  https://cygwin.com/faq/
>> Documentation:        https://cygwin.com/docs.html
>> Unsubscribe info:     https://cygwin.com/ml/#unsubscribe-simple
>>
>