DCAN-Labs / DCAN-Labs/cdni-brain
Typo on the Pipelines page under the fmriprep examples section
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Description
Reviewing one of the examples, I noticed a typo here: https://cdnis-brain.readthedocs.io/pipelines/#1-fmriprep
Specifically the example is written as:
module load singularity
singularity='which singularity'
${singularity} run --cleanenv \
-B ${fmriprep_in}/input:/data:ro \
-B ${fmriprep_out}/bcp_fmriprep_outputs:/out \
-B /projects/standard/faird/shared/code/external/utilities/freesurfer_license/license.txt:/opt/freesurfer/license.txt \
-B /tmp:/work \
/projects/standard/faird/shared/code/external/pipelines/fmriprep/fmriprep_25.2.4.sif **/data/out** participant \
--participant-label {subject_ID} \
--cifti-output 91k \
--omp-nthreads 3 \
--clean-workdir \
--project-goodvoxels \
-vv \
-w /work
"/data/out" should be written as "/data /out" as they are two separate arguments for fmriprep
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