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Sample run minor issue in README #16

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celstark opened this issue Apr 6, 2018 · 0 comments
Open

Sample run minor issue in README #16

celstark opened this issue Apr 6, 2018 · 0 comments

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@celstark
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celstark commented Apr 6, 2018

The README lists this:
docker run -ti -v $PWD/ds114_test1:/home/jovyan/work/data bids/mindboggle /home/jovyan/work/data /home/jovyan/work/data/derivatives/ participant

Yet what I think you mean is:
docker run -ti -v $PWD/ds114_test1:/home/jovyan/work/data bids/mindboggle /home/jovyan/work/data /home/jovyan/work/data participant

The run.py file appends "derivatives" onto the output directory. So, as-written, it would go into work/data/derivatives/derivatives/mindboggle
celstark added a commit to celstark/mindboggle that referenced this issue Apr 6, 2018
@celstark
Fix sample call for bids-apps#16
fbf3747 
"derivatives" automatically added to output directory name in run_mindboggle()
@celstark celstark mentioned this issue Apr 6, 2018
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