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MIC-DKFZ / HD-BET

MRI brain extraction tool
Apache License 2.0
262 stars 63 forks source link

Issue with mkl-service #9

Closed akezhanmussa closed 4 years ago

akezhanmussa commented 4 years ago

When I try to run the hd-bet command, the following issue is showed, I tried to fix with setting MKL_THREADING parameter but did not help much. Any suggestions?

Error: mkl-service + Intel(R) MKL: MKL_THREADING_LAYER=INTEL is incompatible with libgomp-7c85b1e2.so.1 library. Try to import numpy first or set the threading layer accordingly. Set MKL_SERVICE_FORCE_INTEL to force it.

FabianIsensee commented 4 years ago

It looks like your MKL installation is not compatible with hd-bet. I have never seen this and don't know how to resolve this. Have you tried googling the error? Can you please try installing hd-bet in a python virtual environment virtualenv -p python3 hd_bet_venv && hd_bet_venv/bin/activate -> then install hd-bet?

akezhanmussa commented 4 years ago

Oh, fixed it. Just did as you said. Thanks!

saruarlive commented 3 years ago

It solved my problem

import os
os.environ['MKL_THREADING_LAYER'] = 'GNU'