Summary of what happened:
The question: how RAS orientation influence the outcome connectivity matrix of qsirecon, because “your atlases should be registered to the MNI152NLin2009cAsym and are in the LPS+ orientation”.
thanks!
Command used (and if a helper script was used, a link to the helper script or the command generated):
docker run -it --rm \
-v /home/crazy/data/BIDS/:/data/BIDS \
-v /home/crazy/data/output/:/data/output \
-v /opt/freesurfer/license.txt:/opt/freesurfer/license.txt \
pennlinc/qsiprep:latest \
/data/BIDS/ /data/output/ participant \
--nthreads 1 \
--resource-monitor \
--omp-nthreads 1 \
--output-resolution 2 \
--low-mem \
-w /home/crazy/data/qsiprepwork
Version:
1.0.0rc2.dev0+g789be41.d20241119
Environment (Docker, Singularity / Apptainer, custom installation):
ubuntu24.04 docker
Data formatted according to a validatable standard? Please provide the output of the validator:
PASTE VALIDATOR OUTPUT HERE
Relevant log outputs (up to 20 lines):
PASTE LOG OUTPUT HERE
