pip install problem with numpy

[oesteban]

This error happens with numpy installed. It also happens when building in readthedocs projects having nitime as a requirement and autodocs enabled.

Collecting numpy (from nitime)
  Using cached numpy-1.10.4-cp27-none-macosx_10_6_intel.macosx_10_9_intel.macosx_10_9_x86_64.macosx_10_10_intel.macosx_10_10_x86_64.whl
Collecting nitime
  Downloading nitime-0.6.tar.gz (10.0MB)
    100% |████████████████████████████████| 10.0MB 55kB/s 
    Complete output from command python setup.py egg_info:
    Traceback (most recent call last):
      File "<string>", line 20, in <module>
      File "/private/var/folders/hw/7bn8tjn96vd58k7sg1ptt82c0000gn/T/pip-build-l6NHiN/nitime/setup.py", line 17, in <module>
        exec(f.read())
      File "<string>", line 2, in <module>
      File "nitime/__init__.py", line 26, in <module>
        from . import algorithms
      File "nitime/algorithms/__init__.py", line 55, in <module>
        from nitime.algorithms.spectral import *
      File "nitime/algorithms/spectral.py", line 10, in <module>
        import numpy as np
    ImportError: No module named numpy

    ----------------------------------------
Command "python setup.py egg_info" failed with error code 1 in /private/var/folders/hw/7bn8tjn96vd58k7sg1ptt82c0000gn/T/pip-build-l6NHiN/nitime

[arokem]

This might have to do with a generally out-dated setup file. Let me take a look.

[arokem]

Could you please show me where this is happening, so that I can easily
replicate?

On Thu, Mar 17, 2016 at 12:01 PM, Oscar Esteban notifications@github.com
wrote:

This error happens with numpy installed. It also happens when building in
readthedocs projects having nitime as a requirement and autodocs enabled.

Collecting numpy (from nitime)
Using cached numpy-1.10.4-cp27-none-macosx_10_6_intel.macosx_10_9_intel.macosx_10_9_x86_64.macosx_10_10_intel.macosx_10_10_x86_64.whl
Collecting nitime
Downloading nitime-0.6.tar.gz (10.0MB)
100% |████████████████████████████████| 10.0MB 55kB/s
Complete output from command python setup.py egg_info:
Traceback (most recent call last):
File "", line 20, in
File "/private/var/folders/hw/7bn8tjn96vd58k7sg1ptt82c0000gn/T/pip-build-l6NHiN/nitime/setup.py", line 17, in
exec(f.read())
File "", line 2, in
File "nitime/init.py", line 26, in
from . import algorithms
File "nitime/algorithms/init.py", line 55, in
from nitime.algorithms.spectral import *
File "nitime/algorithms/spectral.py", line 10, in
import numpy as np
ImportError: No module named numpy

----------------------------------------

Command "python setup.py egg_info" failed with error code 1 in /private/var/folders/hw/7bn8tjn96vd58k7sg1ptt82c0000gn/T/pip-build-l6NHiN/nitime

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#141

[rwblair]

On OS X 10.5 I saw it happen with a fresh python 2.7 virtual env, here are the steps I took:

(rblair@PSY-C02Q70WEFY10) :) (14:45)
~/projects $ virtualenv -p python2.7 .venv/nitime_test
Running virtualenv with interpreter /usr/local/bin/python2.7
New python executable in .venv/nitime_test/bin/python2.7
Also creating executable in .venv/nitime_test/bin/python
Installing setuptools, pip, wheel...done.
(rblair@PSY-C02Q70WEFY10) :) (14:45)
~/projects $ source .venv/nitime_test/bin/activate
(nitime_test)(rblair@PSY-C02Q70WEFY10) :) (14:46)
~/projects $ pip install --no-cache nitime
Collecting nitime
  Downloading nitime-0.6.tar.gz (10.0MB)
    100% |████████████████████████████████| 10.0MB 46.5MB/s 
    Complete output from command python setup.py egg_info:
    Traceback (most recent call last):
      File "<string>", line 20, in <module>
      File "/private/var/folders/hw/7bn8tjn96vd58k7sg1ptt82c0000gn/T/pip-build-Cya5qp/nitime/setup.py", line 17, in <module>
        exec(f.read())
      File "<string>", line 2, in <module>
      File "nitime/__init__.py", line 26, in <module>
        from . import algorithms
      File "nitime/algorithms/__init__.py", line 55, in <module>
        from nitime.algorithms.spectral import *
      File "nitime/algorithms/spectral.py", line 10, in <module>
        import numpy as np
    ImportError: No module named numpy

    ----------------------------------------
Command "python setup.py egg_info" failed with error code 1 in /private/var/folders/hw/7bn8tjn96vd58k7sg1ptt82c0000gn/T/pip-build-Cya5qp/nitime
You are using pip version 7.1.2, however version 8.1.1 is available.
You should consider upgrading via the 'pip install --upgrade pip' command.
(nitime_test)(rblair@PSY-C02Q70WEFY10) :( 1 (14:46)
~/projects $ 

The pip install step does not appear to collect requirements.

Also tested on Debian 8.3 with similar results:

rwblair@afterhours:~$ virtualenv -p python2.7 .venv/nitime_test
Running virtualenv with interpreter /usr/bin/python2.7
New python executable in .venv/nitime_test/bin/python2.7
Also creating executable in .venv/nitime_test/bin/python
Installing setuptools, pip...done.
rwblair@afterhours:~$ source .venv/nitime_test/bin/activate
(nitime_test)rwblair@afterhours:~$ pip install --no-cache nitime
Collecting nitime
  Downloading nitime-0.6.tar.gz (10.0MB)
    100% |████████████████████████████████| 10.0MB 40.3MB/s 
    Complete output from command python setup.py egg_info:
    Traceback (most recent call last):
      File "<string>", line 1, in <module>
      File "/tmp/pip-build-Dv7W42/nitime/setup.py", line 17, in <module>
        exec(f.read())
      File "<string>", line 2, in <module>
      File "nitime/__init__.py", line 26, in <module>
        from . import algorithms
      File "nitime/algorithms/__init__.py", line 55, in <module>
        from nitime.algorithms.spectral import *
      File "nitime/algorithms/spectral.py", line 10, in <module>
        import numpy as np
    ImportError: No module named numpy

    ----------------------------------------
Command "python setup.py egg_info" failed with error code 1 in /tmp/pip-build-Dv7W42/nitime/
(nitime_test)rwblair@afterhours:~$

Let me know if you need any additional information.

[jimmypeich]

I just hit the issue and I believe it is related to a "typo" in the version.py that causes some deeper modules to be loaded when reading the version and forcing a dependency on numpy before installing nitime:

from nitime.six.moves import map

Removing the above line should fix the dependency issue ( I believe the standard python map is desired instead)

[arokem]

Yes -- that makes perfect sense. Importing six from within nitime triggers the numpy import, which can't be completed. I'll take a look at the PR.

[mihaic]

@arokem, could you please make a PyPI release that includes the fix for this issue?

[arokem]

Yes. Will do. Thanks for the reminder.

[arokem]

OK - @mihaic : I've uploaded 0.7 to pip

(things a bit slow up there, so far only a source tar file, but I am also trying to upload wheels)

[mihaic]

Thank you for the release. It really helps our project.

[arokem]

Out of curiosity, what project is this, and how are you using nitime within it? I never know who is using this (and I am not really doing time-series analysis much these days, hence the relative silence here...). Thanks!

[mihaic]

It is an fMRI data simulator:
https://github.com/IntelPNI/brainiak/blob/master/brainiak/utils/fmrisim.py