How can I upgrade NumPy?

Question

When I installed OpenCV using Homebrew (brew), I got this problem whenever I run this command to test python -c "import cv2":

RuntimeError: module compiled against API version 9 but this version of numpy is 6
Traceback (most recent call last):
  File "<string>", line 1, in <module>
ImportError: numpy.core.multiarray failed to import

I tried to upgrade NumPy, but this is confusing:

>>> import numpy
>>> print numpy.__version__
1.6.1

When I run brew to upgrade NumPy, I got this problem:

brew install -u numpy
Warning: numpy-1.9.1 already installed

When I uninstalled it:

sudo pip install numpy
Requirement already satisfied (use --upgrade to upgrade): numpy in ./anaconda/lib/python2.7/site-packages

I have followed this question and deleted Anaconda from my mac.

pip install numpy
Requirement already satisfied (use --upgrade to upgrade): numpy in /Library/Python/2.7/site-packages

But nothing have changed. How can I link the NumPy version to OpenCV?

Solution 1

Because we have two NumPy installations in the system. One is installed by Homebrew and the second is installed by pip. So in order to solve the problem, we need to delete one and use the default NumPy install by OpenCV.

Check the path,

import numpy
print numpy.__path__

and manually delete it using rm.

Solution 2

When you already have an older version of NumPy, use this:

pip install numpy --upgrade

If it still doesn't work, try:

pip install numpy --upgrade --ignore-installed

Solution 3

The error you mentioned happens when you have two versions of NumPy on your system. As you mentioned, the version of NumPy you imported is still not upgraded since you tried to upgrade it through pip (it will upgrade the version existing in '/Library/Python/2.7/site-packages' ).

However Python still loads the packages from '/System/Library/Frameworks/Python.framework/Versions/2.7/Extras/lib/python/numpy' where the pre-installed packages live.

In order to upgrade that version you have to use easy_install. The other way around this problem is using virtualenv and setting up a new environment with all the requirements you need.

Solution 4

Update numpy

For python 2

pip install numpy --upgrade

You would also needed to upgrade your tables as well for updated version of numpy. so,

pip install tables --upgrade

For python 3

pip3 install numpy --upgrade

Similarly, the tables for python3 :-

pip3 install tables --upgrade

note:

You need to check which python version are you using. pip for python 2.7+ or pip3 for python 3+

Solution 5

FYI, when you using or importing TensorFlow, a similar error may occur, like (caused by NumPy):

RuntimeError: module compiled against API version 0xa but this version of numpy is 0x9
Traceback (most recent call last):
  File "<stdin>", line 1, in <module>
  File "/usr/local/lib/python2.7/dist-packages/tensorflow/__init__.py", line 23, in <module>
    from tensorflow.python import *
  File "/usr/local/lib/python2.7/dist-packages/tensorflow/python/__init__.py", line 60, in <module>
    raise ImportError(msg)
ImportError: Traceback (most recent call last):
  File "/usr/local/lib/python2.7/dist-packages/tensorflow/python/__init__.py", line 49, in <module>
    from tensorflow.python import pywrap_tensorflow
  File "/usr/local/lib/python2.7/dist-packages/tensorflow/python/pywrap_tensorflow.py", line 28, in <module>
    _pywrap_tensorflow = swig_import_helper()
  File "/usr/local/lib/python2.7/dist-packages/tensorflow/python/pywrap_tensorflow.py", line 24, in swig_import_helper
    _mod = imp.load_module('_pywrap_tensorflow', fp, pathname, description)
ImportError: numpy.core.multiarray failed to import


Error importing tensorflow.  Unless you are using bazel,
you should not try to import tensorflow from its source directory;
please exit the tensorflow source tree, and relaunch your python interpreter
from there.

I followed Elmira's and Drew's solution, sudo easy_install numpy, and it worked!

sudo easy_install numpy
Searching for numpy
Best match: numpy 1.11.3
Removing numpy 1.8.2 from easy-install.pth file
Adding numpy 1.11.3 to easy-install.pth file

Using /usr/local/lib/python2.7/dist-packages
Processing dependencies for numpy
Finished processing dependencies for numpy

After that I could use TensorFlow without error.

View more solutions

Comments

[Jonan Gueorguiev]

It doesn't seem to be working for Mac OSX El Capitan, because (a) it refuses to delete the numpy's folder which is in /System/Library/Frameworks/Python.framework/Versions/2.7/Ext‌​ras/lib/python, and (b) this is generally not a good approach,

[Admin]

sudo easy_install numpy searched added the latest numpy path(already existing coz of my sudo pip install numpy). Perfect soln.

[aasu]

@ИванГеоргиев: How else, then?

[user123]

Had similar issue. sudo easy_install numpy . It removed previous and updated latest. Traceback Searching for numpy Best match: numpy 1.11.2 Removing numpy 1.8.2 from easy-install.pth file Adding numpy 1.11.2 to easy-install.pth file

[BjornW]

This worked for me as well (first installing it using pip --ignore-installed, then "linking" it so python finds it using sudo easy_install numpy). The other solutions didn't work.

[Vorac]

Thank you so much, this solved an issue with conflicting versions that I had put far too much time into. Debian python and pip seem to live in /usr/lib, \usr/local/lib and ~/.local/lib/.

[glimmer]

sudo easy_install numpy did not work for me, but sudo pip install --ignore-installed numpy did work nicely. Thanks BjornW.

[Jason V]

I know this is a couple of years old, but awesome ty