dMRIprep 0.5.0: No folder output dir of dwi created about dmriprep HOT 5 OPEN

Hello
create a new folder in your BIDS location, then give its path as output.
I tried a command line similar to yours.
and everything goes without error ... except that in the output folder I had only: figures, log, anat
I didn't have DWI.

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Hello @nabaruns and @Meryam1985 ,

I hope all is well. Were you able to figure this issue with dmriprep? I am currently facing the same thing while using dmriprep 0.4.0. I stopped using dmriprep 0.5.0 version for now as it was giving me lots of error with use-syn-sdc flag and output-spaces type. As you described, I am also not getting any error towards the end however it just creates anat folder w/o dwi folder. The command that I have used is as follow:

docker run -ti -v /home/ubuntu/tracktbi:/inputs -v /home/ubuntu/tracktbi/derivatives:/outputs -v ${fslicense}:/opt/freesurfer/license.txt:ro nipreps/dmriprep:0.4.0 /inputs /outputs participant --participant-label 011011 -v --ignore fieldmaps --use-syn-sdc --output-spaces MNI152NLin6Asym --low-mem --fs-subjects-dir /outputs/freesurfer --fs-no-reconall --notrack

Based on @Meryam1985 suggestion, I also tried to create a new output directory inside my bids derivative folder which is tracktbi/derivatives in my case as follow, but still I do not get an output dwi folder, not sure if I am doing anything wrong. May you please suggest if you got it working and how?

docker run -ti -v /home/ubuntu/tracktbi:/inputs -v /home/ubuntu/tracktbi/derivatives/dmriprep:/outputs -v /home/ubuntu/tracktbi/derivatives:/fs_outputs -v ${fslicense}:/opt/freesurfer/license.txt:ro nipreps/dmriprep:0.4.0 /inputs /outputs participant --participant-label 011011 -v --ignore fieldmaps --use-syn-sdc --output-spaces MNI152NLin6Asym --low-mem --fs-subjects-dir /fs_outputs/freesurfer --fs-no-reconall --notrack

Thank you,
Sneha

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Hello
Unfortunately, I did not find a solution for this problem.
Cordially.

from dmriprep.

Hi everyone, kindly check the following thread of reply from the team: dmriprep reply.

We are currently using QSIprep instead.

from dmriprep.

Thank you @nabaruns for your response. Let me follow up with the team in the response link you have references above.

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