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Error with dhcp-structural-pipeline:fetal in docker

Open Thea-Eddie-Amy opened this issue 4 years ago • 0 comments
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Hi, I was trying to use the dhcp-structural-pipeline:fetal (in docker) to segment fetal brain. I ran the command as follows: xuxinyi@DESKTOP-LFK9GOB:/mnt/c/Users/lenovoM425/Desktop/segment-fetal$ docker run dhcp-segmentation-pipeline:fetal 25w1wpp.nii.gz 25 25w1wpp.nii.gz does not exist! xuxinyi@DESKTOP-LFK9GOB:/mnt/c/Users/lenovoM425/Desktop/segment-fetal$ docker run dhcp-segmentation-pipeline:fetal $PWD/25w1wpp.nii.gz 25 /mnt/c/Users/lenovoM425/Desktop/segment-fetal/25w1wpp.nii.gz does not exist! xuxinyi@DESKTOP-LFK9GOB:/mnt/c/Users/lenovoM425/Desktop/segment-fetal$ docker run -v $PWD/data:/data dhcp-segmentation-p ipeline:fetal data/25w1wpp.nii.gz 25 data/25w1wpp.nii.gz does not exist!

25w1wpp.nii.gz is both in the $PWD and the $PWD/data, however each way gets the error "file does not exist!". Please help! Thanks!

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Thea-Eddie-Amy avatar Feb 20 '21 09:02 Thea-Eddie-Amy