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Hello,
I am attempting to analyze some structural morphometry data. I am having issues with the recon-all command that I am using. I am attempting to run this command on a shared network folder through my institution. Here is the exact command I am using :
recon-all -subject 1306_A -i 1306/T1w/T1w_MPR.nii.gz -T2 1306/T2w/T2w_SPC.nii.gz -T2pial -all -qcache
On the server, when I run this command, it continues until I get to the segmentation portion. I have the full output of this command attached to the email in a word document titled “Recon-all output on server”. Attached I also have a copy of the recon-all.log file.
There is another member in my lab who was able to use this command successfully with the same files and exact same code. He was using the same server that I was on, and we have exactly the same permissions on the server. The only difference is that I have updated my mac to Ventura and he has not yet updated his mac (he is using macOS Monterey 12.6).
We tried moving my files onto my desktop to see if the recon-all worked there as compared to the server. I simply moved the T1w & T2w NIfTI files onto my desktop from the server. When I run recon all sourcing from the NIfTI files on my desktop rather than the server, it works fine without error.
Therefore, we are wondering if it is an issue with the new Ventura update in conjunction with shared network folders. Do you have any suggestions or ideas based on the information I have provided?
- FreeSurfer version: freesurfer-darwin-macOS-7.3.2-20220804-6354275 - Platform: MacOS Ventura 13.0
Let me know if there is any more information that you need.
Thank you!