Non rigid step failing

[ajdneuro]

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Hi all,

Thanks for sharing the pipeline. I am using the most recent docker version on a mac and it is failing at this step: usr/src/structural-pipeline/build/MIRTK/Packages/DrawEM/scripts/tissue-priors.sh T2w 40 non-rigid-v2 1 : failed /usr/src/structural-pipeline/build/MIRTK/Packages/DrawEM/pipelines/neonatal-pipeline.sh /data/T2w.nii.gz 40 -t 1 -c 1 -p 1 -v 1 -atlas non-rigid-v2 : failed

Attached are the error logs. Thanks for your help1

T2w-tissue-em copy.txt T2w-tissue-em-err copy.txt

[namiranian]

Hi Thanks for sharing this pipeline. I use the pipeline in ubuntu 18. It fails because it wants to copy the file that already exists in "T2" folder.

error: cp: '/data/workdir/subject1-session1/T2/subject1-session1.nii.gz' and '/data/workdir/subject1-session1/T2/subject1-session1.nii.gz' are the same file

log: /usr/src/structural-pipeline/build/MIRTK/Packages/DrawEM/scripts/tissue-priors.sh subject1-session1 40 non-rigid-v2 4 : failed /usr/src/structural-pipeline/build/MIRTK/Packages/DrawEM/pipelines/neonatal-pipeline.sh /data/workdir/subject1-session1/T2/subject1-session1.nii.gz 40 -t 4 -c 1 -p 1 -v 1 -atlas non-rigid-v2 : failed

How can I fix this error? Thanks for your help.

[2021ShiShaojie]

Hi,

I met the same problem as you did. Have you solved it? How can I fix this error? Look forward to your response. Thank you in advance!