Summary of what happened:
I’m trying to run sdcflows in Docker (on Linux), but it doesn’t work.
Command used (and if a helper script was used, a link to the helper script or the command generated):
# Run docker container (this part works):
sudo docker run --rm -it \
-v /home/vcnlab/Documents/my_folder:/tmp \
nipreps/sdcflows
# Now that I am in the container, run the command (this part doesn't work):
sdcflows data data_output participant -v
Version
SDCflows 2.10.0
Environment:
Docker
Data formatted according to a validatable standard? Please provide the output of the validator:
Some warnings for missing json sidecars, but I don’t think this would be relevant
Relevant log outputs (up to 20 lines):
Running SDCflows 2.10.0
*BIDS dataset path: /tmp/data
*Output folder: /tmp/data_output
*Analysis levels: ['participant']
Workflow did not generate any jobs. Please check your inputs are valid.
Screenshots / relevant information:
These are the contents of my input directory:
sdcflows
data_output
data
sub-02
ses-1
anat
func
anat contains sub-02_ses-1_T1w.nii.gz and BIDS-formatted .json file
func contains sub-02_ses-1_task-01_bold.nii.gz and BIDS-formatted .json file