Hi,
I have just installed FEniCSx and I’m trying to use it in Jupyter Lab. I followed these steps in MacOS Monterrey 12.4:
conda create -n fenicsx fenics-dolfinx mpich pyvista
conda activate fenicsx
conda install jupyterlab
python -m ipykernel install --user --name fenicsx --display-name "Python (FEniCSx)"
I didn’t have any problems during installation. However, when I open a notebook in Jupyter Lab I can’t event import numpy:
import numpy as np
produces the error message:
---------------------------------------------------------------------------
ImportError Traceback (most recent call last)
File ~/opt/anaconda3/envs/fenicsx/lib/python3.10/site-packages/numpy/core/__init__.py:23, in <module>
22 try:
---> 23 from . import multiarray
24 except ImportError as exc:
File ~/opt/anaconda3/envs/fenicsx/lib/python3.10/site-packages/numpy/core/multiarray.py:10, in <module>
9 import functools
---> 10 from . import overrides
11 from . import _multiarray_umath
File ~/opt/anaconda3/envs/fenicsx/lib/python3.10/site-packages/numpy/core/overrides.py:6, in <module>
4 import os
----> 6 from numpy.core._multiarray_umath import (
7 add_docstring, implement_array_function, _get_implementing_args)
8 from numpy.compat._inspect import getargspec
ImportError: dlopen(/Users/myuser/opt/anaconda3/envs/fenicsx/lib/python3.10/site-packages/numpy/core/_multiarray_umath.cpython-310-darwin.so, 0x0002): Library not loaded: @rpath/libopenblas.dylib
Referenced from: /Users/myuser/opt/anaconda3/envs/fenicsx/lib/python3.10/site-packages/numpy/core/_multiarray_umath.cpython-310-darwin.so
Reason: tried: '/Users/myuser/opt/anaconda3/envs/fenicsx/lib/libopenblas.dylib' (no such file), '/Users/myuser/opt/anaconda3/envs/fenicsx/lib/libopenblas.dylib' (no such file), '/Users/myuser/opt/anaconda3/envs/fenicsx/lib/python3.10/site-packages/numpy/core/../../../../libopenblas.dylib' (no such file), '/Users/myuser/opt/anaconda3/envs/fenicsx/lib/libopenblas.dylib' (no such file), '/Users/myuser/opt/anaconda3/envs/fenicsx/lib/libopenblas.dylib' (no such file), '/Users/myuser/opt/anaconda3/envs/fenicsx/lib/python3.10/site-packages/numpy/core/../../../../libopenblas.dylib' (no such file), '/Users/myuser/opt/anaconda3/envs/fenicsx/bin/../lib/libopenblas.dylib' (no such file), '/Users/myuser/opt/anaconda3/envs/fenicsx/bin/../lib/libopenblas.dylib' (no such file), '/usr/local/lib/libopenblas.dylib' (no such file), '/usr/lib/libopenblas.dylib' (no such file)
During handling of the above exception, another exception occurred:
ImportError Traceback (most recent call last)
Input In [1], in <cell line: 1>()
----> 1 import numpy as np
File ~/opt/anaconda3/envs/fenicsx/lib/python3.10/site-packages/numpy/__init__.py:144, in <module>
141 # Allow distributors to run custom init code
142 from . import _distributor_init
--> 144 from . import core
145 from .core import *
146 from . import compat
File ~/opt/anaconda3/envs/fenicsx/lib/python3.10/site-packages/numpy/core/__init__.py:49, in <module>
25 import sys
26 msg = """
27
28 IMPORTANT: PLEASE READ THIS FOR ADVICE ON HOW TO SOLVE THIS ISSUE!
(...)
47 """ % (sys.version_info[0], sys.version_info[1], sys.executable,
48 __version__, exc)
---> 49 raise ImportError(msg)
50 finally:
51 for envkey in env_added:
ImportError:
IMPORTANT: PLEASE READ THIS FOR ADVICE ON HOW TO SOLVE THIS ISSUE!
Importing the numpy C-extensions failed. This error can happen for
many reasons, often due to issues with your setup or how NumPy was
installed.
We have compiled some common reasons and troubleshooting tips at:
https://numpy.org/devdocs/user/troubleshooting-importerror.html
Please note and check the following:
* The Python version is: Python3.10 from "/Users/myuser/opt/anaconda3/envs/fenicsx/bin/python"
* The NumPy version is: "1.22.3"
and make sure that they are the versions you expect.
Please carefully study the documentation linked above for further help.
Original error was: dlopen(/Users/myuser/opt/anaconda3/envs/fenicsx/lib/python3.10/site-packages/numpy/core/_multiarray_umath.cpython-310-darwin.so, 0x0002): Library not loaded: @rpath/libopenblas.dylib
Referenced from: /Users/myuser/opt/anaconda3/envs/fenicsx/lib/python3.10/site-packages/numpy/core/_multiarray_umath.cpython-310-darwin.so
Reason: tried: '/Users/myuser/opt/anaconda3/envs/fenicsx/lib/libopenblas.dylib' (no such file), '/Users/myuser/opt/anaconda3/envs/fenicsx/lib/libopenblas.dylib' (no such file), '/Users/myuser/opt/anaconda3/envs/fenicsx/lib/python3.10/site-packages/numpy/core/../../../../libopenblas.dylib' (no such file), '/Users/myuser/opt/anaconda3/envs/fenicsx/lib/libopenblas.dylib' (no such file), '/Users/myuser/opt/anaconda3/envs/fenicsx/lib/libopenblas.dylib' (no such file), '/Users/myuser/opt/anaconda3/envs/fenicsx/lib/python3.10/site-packages/numpy/core/../../../../libopenblas.dylib' (no such file), '/Users/myuser/opt/anaconda3/envs/fenicsx/bin/../lib/libopenblas.dylib' (no such file), '/Users/myuser/opt/anaconda3/envs/fenicsx/bin/../lib/libopenblas.dylib' (no such file), '/usr/local/lib/libopenblas.dylib' (no such file), '/usr/lib/libopenblas.dylib' (no such file)
I tried conda install libopenblas
, but the library is already there. Any ideas on how to solve this issue?