Hi Julian,

I have managed to run recon-all on my Apple M1 macOS Ventura using the 7.3.2 version of Freesurfer. It does not work on 7.4.2 or dev versions, however. These instructions were posted in a previous correspondence from fsbuild, but reposting here for anyone else having the same issue:

You may not be able to run these commands without sudo/admin permissions on your machine.

1) Download the tensorflow-2.4.1-py3-none-any.whl from,
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2) Check the download is OK with the md5 command in the terminal window,

$ md5 tensorflow-2.4.1-py3-none-any.whl
MD5 (tensorflow-2.4.1-py3-none-any.whl) = fab44de8702faf65e17a22d706a525a4

DO NOT PROCEED UNTIL YOU GET THE ABOVE OUTPUT FROM the md5 command.


3) Setup the Freesurfer 7.3.2 environment (shown here as installed via .pkg file under /Applications) and verify the path to fspython is from the 7.3.2 release,

$ export FREESURFER_HOME=/Applications/freesurfer/7.3.2
$ source $FREESURFER_HOME/SetUpFreeSurfer.sh
-------- freesurfer-darwin-macOS-7.3.2-20220803-878457d --------
... environment variable settings output ...
$ which fspython
/Applications/freesurfer/7.3.2/bin/fspython


4) Uninstall the existing tensorflow package with,

$ sudo $FREESURFER_HOME/python/bin/python3 -m pip uninstall tensorflow
... apart from any warnings you should see the output ...
Successfully uninstalled tensorflow-2.4.1


5) Install the package downloaded above.  This command assumes the package is in the current directory where the command is run.

$ sudo -H $FREESURFER_HOME/python/bin/python3 -m pip install ./tensorflow-2.4.1-py3-none-any.whl
... apart from warnings and output about requirements (which should all be satisfied) ...
... you should see tensorflow was updated ....
Successfully installed tensorflow-2.4.1


CHECK THE UPDATE:

$ which fspython
/Applications/freesurfer/7.3.2/bin/fspython
$ fspython
>>> import sys, os
>>> import tensorflow
>>>

You should see the prompt return to ">>>" after the import of tensorflow with no errors reported.  Hit Ctrl-D to escape the python session.  The update should now be complete.

Once you have done this you should be able to run recon-all via 7.3.2. Hope this works!

Annabel