Problems importing msprime

[Thomas Birley]

Hi everyone,

When I try to import msprime and on MacOS and I get the following traceback

Traceback (most recent call last): File "/usr/local/filename.py", line 1, in <module> import msprime File "/opt/anaconda3/lib/python3.9/site-packages/msprime/__init__.py", line 28, in <module> from msprime._msprime import ( ImportError: dlopen(/opt/anaconda3/lib/python3.9/site-packages/msprime/_msprime.cpython-39-darwin.so, 0x0002): symbol not found in flat namespace '_cblas_caxpy'

I had previously been getting the traceback:

ImportError: dlopen(/opt/anaconda3/envs/slim-workshop/lib/python3.10/site-packages/msprime/_msprime.cpython-310-darwin.so, 0x0002): Library not loaded: @rpath/libgsl.25.dylib

So I used: ln -s libgsl.27.dylib libgsl.25.dylib

To create a symbolic link between libgsl.25.dylib and libgsl.27.dylib (which is the version of the library I have) as per:

dyld: Library not loaded: /usr/local/opt/gsl/lib/libgsl.23.dylib

I think this might be realted to the problem that I have but have otherwise no idea how what is happening or how to fix it so any help anyone can give me would be much appreciated.

Many thanks

[Ben Haller]

Hi Thomas,

This is an msprime issue, not a SLiM issue, so you probably want to take it up with those folks; I certainly have no idea :->.  See links here:

https://tskit.dev/community/

Sounds like they prefer that you open a Discussion on the msprime GitHub repo.

Cheers,
-B.

Benjamin C. Haller
Messer Lab
Cornell University