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nencki-lobi / bids-flow

Connecting orthanc, heudiconv and mriqc
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Fork phantom based QA #2

Closed bkossows closed 5 years ago

bkossows commented 5 years ago

There should be a forked pipeline to run fBIRN QA based on phantom data. To do list:

  1. Copy DICOMs to separate directory\
  2. Run fBIRN (BXH/XCEDE) scripts in Docker container
  3. Update plots and publish them on the website
bkossows commented 5 years ago

  1. Add to dcm2bids.sh: if [[ "$i" = fantom_birn* ]]; then echo $i fi

  2. Run in dcm2bids.sh: docker run -it --rm -v $i/*/ep2d_bold_ldt_audio:/home/input fmriqa

bkossows commented 5 years ago
  1. Deal with multiple series - find . -iname ep2d_bold_ldt_audio (?)
bkossows commented 5 years ago
  1. Run python script for summary plots and publish them
bkossows commented 5 years ago

All done :)