FreeSurfer Error: Runtime Error and mpr2mni305 Error

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#1

Hi everyone!

I have tried to run fmriprep on Linux and have come up with the following error (file attached below). I’m unsure if I understand what it means, so I thought I’d ask here. Here are some background details that may be needed:

fmriprep-docker version: 21.0.2
Data is BIDS validated
Command: fmriprep-docker ~/Desktop/AJ_3 ~/Desktop/AJ3_Output participant --participant-label 01 --fs-license-file ~/Desktop/license.txt -w ~/Desktop/scratch
Run on Linux Server

If anyone knows how to solve this error, let me know! Thank you.

Best,
Akshaj

crash-20220803-171141-root-autorecon1-de75ac02-7871-4323-b6ca-98998ae66e98.txt (14.5 KB)

#2

Hi Akshaj,

Are your data BIDS valid? Also, can you attach the recon all log crash file that is referenced in the log you attached in your first post?

Best,
Steven

#3

Hi Steven,

Yup my data is BIDS valid. Here is the recon file from my first post. The one from my first post was run on Windows, whereas the one that I have attached in this post is run on a virtual Linux server.

File from old
crash-20220719-173609-root-autorecon1-e61254b6-5679-40e3-86ae-5a1c2dff0f5d.txt (4.5 KB)

#4

Hi,

I was referring to the file referenced by the lin: For more details, see the log file /out/sourcedata/freesurfer/sub-01/scripts/recon-all.log

Good to know the data are bids valid.

Best,
Steven

#5

Sorry about that! Here’s the file. I converted it to a .txt file so that I could upload it here.

recon-all.txt (27.2 KB)

Best,
Akshaj