imglob or imcp provided with FSL requires numpy.testing.decorators. However, numpy.testing.decorators has been deprecated from numpy 1.18. So, if you use numpy >=1.18, you see the following error:
1 | ModuleNotFoundError: No module named 'numpy.testing.decorators' |
Paul Mccarthy kindly suggested a workaround for this problem.
The below is his original message.
https://www.jiscmail.ac.uk/cgi-bin/wa-jisc.exe?A2=FSL;a26a0779.2010
1. Move $FSLDIR/fslpython/envs/fslpython/bin/python3.7 to $FSLDIR/fslpython/envs/fslpython/bin/python3.7_bin
2. Replace $FSLDIR/fslpython/envs/fslpython/bin/python3.7 with a script containing this:
#!/usr/bin/env bashthisdir=$(cd$(dirname$0) &&pwd)$thisdir/python3.7_bin -I"$@"3. Change the permissions of the new $FSLDIR/fslpython/envs/fslpython/bin/python3.7 to make it executable
With this suggestion, I wrote a tiny script.
01 02 03 04 05 06 07 08 09 10 11 12 | #!/bin/bashcd $FSLDIR/fslpython/envs/fslpython/bin/sudo mv python3.7 python3.7_bincat << 'EOF' | sudo tee python3.7 > /dev/null#!/usr/bin/env bashthisdir=$(cd $(dirname $0) && pwd)$thisdir/python3.7_bin -I "$@"EOFsudo chmod 755 python3.7 |
This script will make FSL use internal python within FSL.
