conda skeleton pypi numpy does not work

[asmeurer]

$conda skeleton pypi numpy
More than one source version is available for numpy:
0: https://pypi.python.org/packages/source/n/numpy/numpy-1.8.0.tar.gz (3.6 MB)
1: https://pypi.python.org/packages/source/n/numpy/numpy-1.8.0.zip (4.1 MB)
Which version should I use? 0
Using url https://pypi.python.org/packages/source/n/numpy/numpy-1.8.0.tar.gz (3779617) for numpy.
Traceback (most recent call last):
  File "/Users/aaronmeurer/anaconda/bin/conda-skeleton", line 7, in <module>
    exec(compile(open(__file__).read(), __file__, 'exec'))
  File "/Users/aaronmeurer/Documents/Continuum/conda-build/bin/conda-skeleton", line 5, in <module>
    sys.exit(main())
  File "/Users/aaronmeurer/Documents/Continuum/conda-build/conda_build/main_skeleton.py", line 111, in main
    args.func(args, p)
  File "/Users/aaronmeurer/Documents/Continuum/conda-build/conda_build/main_skeleton.py", line 119, in execute
    pypi.main(args, parser)
  File "/Users/aaronmeurer/Documents/Continuum/conda-build/conda_build/pypi.py", line 232, in main
    if data.has_key('classifiers'):
AttributeError: 'dict' object has no attribute 'has_key'

[asmeurer]

Fixed that problem. The real issue is this

$conda skeleton pypi numpy
More than one source version is available for numpy:
0: https://pypi.python.org/packages/source/n/numpy/numpy-1.8.0.tar.gz (3.6 MB)
1: https://pypi.python.org/packages/source/n/numpy/numpy-1.8.0.zip (4.1 MB)
Which version should I use? 0
Using url https://pypi.python.org/packages/source/n/numpy/numpy-1.8.0.tar.gz (3779617) for numpy.
This is the license for numpy

BSD

What license string should I use? BSD
Downloading numpy (use --no-download to skip this step)
Using cached download
Unpacking numpy...
done
working in /var/folders/yc/8wpl9rlx47qgzxqpcf003k280000gn/T/tmp30makxconda_skeleton
Running from numpy source directory.
Traceback (most recent call last):
  File "setup.py", line 217, in <module>
    setup_package()
  File "setup.py", line 210, in setup_package
    configuration=configuration )
  File "/private/var/folders/yc/8wpl9rlx47qgzxqpcf003k280000gn/T/tmp30makxconda_skeleton/numpy-1.8.0/numpy/distutils/core.py", line 130, in setup
    if dist.help or not _command_line_ok():
AttributeError: 'NoneType' object has no attribute 'help'
$PYTHONPATH = /var/folders/yc/8wpl9rlx47qgzxqpcf003k280000gn/T/tmp30makxconda_skeleton/numpy-1.8.0
Error: command failed: /Users/aaronmeurer/anaconda/bin/python setup.py install

[AnneTheAgile]

Update; My problem was user error. I'm keeping the comment so I can navigate between my hints :). 2014-05-04Sun.19:51:06

Is this the same as my error , I couldn't the numpy version to change? http://stackoverflow.com/questions/23458593/conda-example-does-not-work-it-shows-newer-not-older-numpy

This was part of my long saga of trials, see #100 Cannot access specific Binstar version.
//AnneTheAgile

[asmeurer]

The issue is that we patch distutils, but numpy has its own distutils, which expects the real distutils to work.

[astrojuanlu]

Got bitten by this today, trying to build a package which uses numpy.distutils. Any possible workaround?

[asmeurer]

Packages that use numpy.distutils generally work. Which package were you trying to build?

[astrojuanlu]

This one specifically (v0.2.0):

http://github.com/Pybonacci/poliastro

In the end it was a minor problem, I just wrote the meta.yaml by hand.
On Dec 27, 2014 9:43 PM, "Aaron Meurer" notifications@github.com wrote:

Packages that use numpy.distutils generally work. Which package were you
trying to build?

Reply to this email directly or view it on GitHub
#76 (comment).

[asmeurer]

I see. We may have to patch numpy.distutils as well. Or maybe there is a simpler workaround.

[ozancaglayan]

I intended to create a NumPy package compiled against OpenBLAS and ran this command which failed the same way. This is a Miniconda3 installation. The strange thing is that this exception, once encountered, breaks my IPython:

Traceback (most recent call last):
  File "/home/ozan/miniconda3/bin/ipython", line 6, in <module>
    sys.exit(start_ipython())
  File "/home/ozan/miniconda3/lib/python3.4/site-packages/IPython/__init__.py", line 120, in start_ipython
    return launch_new_instance(argv=argv, **kwargs)
  File "/home/ozan/miniconda3/lib/python3.4/site-packages/IPython/config/application.py", line 563, in launch_instance
    app.initialize(argv)
  File "<string>", line 2, in initialize
  File "/home/ozan/miniconda3/lib/python3.4/site-packages/IPython/config/application.py", line 92, in catch_config_error
    return method(app, *args, **kwargs)
  File "/home/ozan/miniconda3/lib/python3.4/site-packages/IPython/terminal/ipapp.py", line 332, in initialize
    self.init_shell()
  File "/home/ozan/miniconda3/lib/python3.4/site-packages/IPython/terminal/ipapp.py", line 348, in init_shell
    ipython_dir=self.ipython_dir, user_ns=self.user_ns)
  File "/home/ozan/miniconda3/lib/python3.4/site-packages/IPython/config/configurable.py", line 354, in instance
    inst = cls(*args, **kwargs)
  File "/home/ozan/miniconda3/lib/python3.4/site-packages/IPython/terminal/interactiveshell.py", line 328, in __init__
    **kwargs
  File "/home/ozan/miniconda3/lib/python3.4/site-packages/IPython/core/interactiveshell.py", line 483, in __init__
    self.init_readline()
  File "/home/ozan/miniconda3/lib/python3.4/site-packages/IPython/core/interactiveshell.py", line 1843, in init_readline
    self.readline_startup_hook = readline.set_startup_hook
AttributeError: 'module' object has no attribute 'set_startup_hook'

Any clues?

[ozancaglayan]

Hmm removing conda-bld folder fixed my ipython back.

[ozancaglayan]

Pff, actually it was caused because I was in conda-recipes folder which also includes an ipython folder. I hate this import caused non-intuitive Python exceptions :)

[stoiver]

Same problems as Juanlu001 when using numpy.distutils.

Specific conda command:

conda skeleton pypi anuga

Package http://github.com/stoiver/anuga_core

My setup.py is quite similar to the one used by Juanlu001 in the package http://github.com/Pybonacci/poliastro

Here is the error

(anuga_clean)steve@bottineau:~/Sandpit$ conda skeleton pypi anuga
Using url https://pypi.python.org/packages/source/a/anuga/anuga-1.3.8.tar.gz (12.4 MB) for anuga.
Downloading anuga (use --no-download to skip this step)
Using cached download
Unpacking anuga...
done
working in /tmp/tmpelPQqqconda_skeleton_anuga-1.3.8.tar.gz
Fetching package metadata: ......
Solving package specifications: .
Applying patch: '/tmp/tmpelPQqqconda_skeleton_anuga-1.3.8.tar.gz/pypi-distutils.patch'
patching file core.py
Hunk #1 succeeded at 168 with fuzz 2 (offset 2 lines).
Running from anuga source directory.
Traceback (most recent call last):
  File "setup.py", line 184, in <module>
    setup_package()
  File "setup.py", line 178, in setup_package
    setup(**metadata)
  File "/home/steve/miniconda/envs/_build/lib/python2.7/site-packages/numpy/distutils/core.py", line 130, in setup
    if dist.help or not _command_line_ok():
AttributeError: 'NoneType' object has no attribute 'help'
$PYTHONPATH = /tmp/tmpelPQqqconda_skeleton_anuga-1.3.8.tar.gz/anuga-1.3.8
Error: command failed: /home/steve/miniconda/envs/_build/bin/python setup.py install

[timcera]

Any work-around or fix?

Have the same problem with

conda skeleton pypi openopt

[dtsmith2001]

I am not able to run

conda skeleton pypi scikit-learn

either. This issue was reported in May 2014. I haven't been able to find a work-around after doing numerous searches. Is there indeed a work-around or fix?

I am using Anaconda 3 version 2.2.0 with scikit-learn 0.16.1. I did a fresh installation of Anaconda and followed the recipe in http://conda.pydata.org/docs/build_tutorials/pkgs.html to build pyinstrument. Building pandas with

conda skeleton pypi pandas

worked just fine. It's scikit-learn that has a problem. I am running Windows 7 x64.

I finally got a working version on my non-networked box by using

conda update scikit-learn

on my networked box and then copying the Lib\site-package\sklearn + egg file over to the other box.

[rmax]

I just got the same issue as @dtsmith2001 with scikit-learn. I had to write manually a recipe for scikit-learn because I needed the package compatible with numpy=1.6, which was not a big deal.

In OSX:

$ conda skeleton pypi scikit-learn
Warning, the following versions were found for scikit-learn
0.17b1
0.16.1
0.16.0
0.16b1
0.15.2
0.15.1
0.15.0
0.15.0b2
0.15.0b1
0.14.1
0.14
0.14a1
0.13.1
0.13
0.12.1
0.12
0.11
0.10
0.9
Using 0.17b1
Use --version to specify a different version.
Using url https://pypi.python.org/packages/source/s/scikit-learn/scikit-learn-0.17b1.tar.gz (7.5 MB) for scikit-learn.
Downloading scikit-learn
Using cached download
Unpacking scikit-learn...
done
working in /var/folders/55/nbg15c6j4k3cg06tjfhqypd40000gn/T/tmpf5347bconda_skeleton_scikit-learn-0.17b1.tar.gz
Fetching package metadata: ..........
Solving package specifications: ...............
The following NEW packages will be INSTALLED:

    pyyaml: 3.11-py27_1   defaults
    yaml:   0.1.6-0       defaults

The following packages will be UPDATED:

    numpy:  1.6.2-py27_4 defaults --> 1.10.1-py27_0 defaults

Unlinking packages ...
[      COMPLETE      ]|###################################################| 100%
Linking packages ...
[      COMPLETE      ]|###################################################| 100%
Applying patch: '/var/folders/55/nbg15c6j4k3cg06tjfhqypd40000gn/T/tmpf5347bconda_skeleton_scikit-learn-0.17b1.tar.gz/pypi-distutils.patch'
patching file core.py
Hunk #1 succeeded at 169 with fuzz 2 (offset 2 lines).
Partial import of sklearn during the build process.
Traceback (most recent call last):
  File "setup.py", line 247, in <module>
    setup_package()
  File "setup.py", line 243, in setup_package
    setup(**metadata)
  File "/Users/rolando/miniconda/envs/_build/lib/python2.7/site-packages/numpy/distutils/core.py", line 130, in setup
    if dist.help or not _command_line_ok():
AttributeError: 'NoneType' object has no attribute 'help'
$PYTHONPATH = /var/folders/55/nbg15c6j4k3cg06tjfhqypd40000gn/T/tmpf5347bconda_skeleton_scikit-learn-0.17b1.tar.gz/scikit-learn-0.17b1
Error: command failed: /Users/rolando/miniconda/envs/_build/bin/python setup.py install

$ conda info
Current conda install:

             platform : osx-64
        conda version : 3.18.3
  conda-build version : 1.18.1
       python version : 2.7.10.final.0
     requests version : 2.7.0

In Linux:

$ conda skeleton pypi scikit-learn
Warning, the following versions were found for scikit-learn
0.17b1
0.16.1
0.16.0
0.16b1
0.15.2
0.15.1
0.15.0
0.15.0b2
0.15.0b1
0.14.1
0.14
0.14a1
0.13.1
0.13
0.12.1
0.12
0.11
0.10
0.9
Using 0.17b1
Use --version to specify a different version.
Using url https://pypi.python.org/packages/source/s/scikit-learn/scikit-learn-0.17b1.tar.gz (7.5 MB) for scikit-learn.
Downloading scikit-learn
Using cached download
Unpacking scikit-learn...
done
working in /tmp/tmp4Ngct2conda_skeleton_scikit-learn-0.17b1.tar.gz
Fetching package metadata: ......
Solving package specifications: .................
Applying patch: '/tmp/tmp4Ngct2conda_skeleton_scikit-learn-0.17b1.tar.gz/pypi-distutils.patch'
patching file core.py
Hunk #1 succeeded at 168 with fuzz 2 (offset 2 lines).
Partial import of sklearn during the build process.
Traceback (most recent call last):
  File "setup.py", line 247, in <module>
    setup_package()
  File "setup.py", line 237, in setup_package
    .format(scipy_req_str, instructions))
ImportError: Scientific Python (SciPy) is not installed.
scikit-learn requires SciPy >= 0.9.
Installation instructions are available on the scikit-learn website: http://scikit-learn.org/stable/install.html

$PYTHONPATH = /tmp/tmp4Ngct2conda_skeleton_scikit-learn-0.17b1.tar.gz/scikit-learn-0.17b1
Error: command failed: /home/rolando/miniconda/envs/_build/bin/python setup.py install

$ conda info
Current conda install:

             platform : linux-64
        conda version : 3.18.3
  conda-build version : 1.18.1
       python version : 2.7.10.final.0
     requests version : 2.8.1

[github-actions]

Hi there, thank you for your contribution to conda-build!

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2. Comment that the issue is still reproducible and include:

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Thanks!

[github-actions]

Hi again!

This issue has been closed since it has not had recent activity.
Please don't hesitate to leave a comment if that was done prematurely.

Thank you for your contribution.