numpy undefined symbol: PyFPE_jbuf

Question

I am trying to use the One Million Song Dataset, for this i had to install python tables, numpy, cython, hdf5, numexpr, and so.

Yesterday i managed to install all i

Answer 1

First remove numpy from /usr/local/lib/python2.7/dist-packages/numpy-1.11.0-py2.7-linux-x86_64.egg and then use the following command

sudo pip install numpy scipy

I had solve this error in my case.

Answer 2

Initially, I installed cython using system /usr/bin/pip and anconda pip. I uninstalled system cython using system pip and reinstalled using conda install cython. Works now.

Answer 3

For cython users:

This post was helpful. The post explains, that there is some flag (--with-fpectl), which is either set during the compilation of cpython or not. When a library has been compiled using a cpython without that flag, it is incompatible to a version with that flag being set. This effect does only show up when you use cython, as numpy itself does not use this extension.

As further stated in that post, my Ubuntu 16.04 has been created with this flag and Conda without it. For me, it was specifically the module hmmlearn throwing the undefined symbol error. This must be the case because it was shipped by Ubuntu with the flag being set and not by anaconda. So I uninstalled hmmlearn and manually installed it anew from sourcescode (Anaconda, unfortunately, does not offer hmmlearn). --> Works!

Answer 4

I ran into this problem in a particular situation. Using Anaconda (3 I think) I was creating a new environment. Previously I had created a py3 env with numpy, Not sure if related. But when creating my new py2.7 environment I went to install a particular package Ta-lib via pip, but then had this same Question's import error relating to numpy for the particular case of Ta-lib.

From this post Gaurav suggested the use of pip flag --no-cache-dir to ensure a rebuild during install of numpy. I uninstalled my Ta-lib and numpy and then reinstalled them with this flag via pip and everything worked great.

Answer 5

irony at it's best, i restarted my laptop without doing nothing, and it worked. Can't understand why.

Answer 6

I had the same problem, probably you have installed numpy without Anaconda, so there is a conflict because of this, which numpy to use: that one installed with pip or with conda. When I removed non-Anaconda numpy, error gone.

pip uninstall numpy