Get data before, and drop data after, running fMRIPrep #41
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mattcieslak
approved these changes
May 7, 2024
| @@ -43,3 +46,6 @@ cmd="singularity run --home $HOME --cleanenv \ | |||
| echo Running task ${SGE_TASK_ID} | |||
| echo Commandline: $cmd | |||
| datalad run -d $OUT_DIR -m "Run fMRIPrep on ds002156 ${subject}." $cmd | |||
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| # Remove any downloaded data in the BIDS dataset to minimize disk usage | |||
| datalad drop -d $BIDS_DIR --what filecontent ${BIDS_DIR}/sub-${subject} | |||
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Suggested change
| datalad drop -d $BIDS_DIR --what filecontent ${BIDS_DIR}/sub-${subject} | |
| datalad drop -d $BIDS_DIR --nocheck --if-dirty ignore ${BIDS_DIR}/sub-${subject} |
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Will this make sure that, if I modify the BIDS data locally, it won't "drop" those files?
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Stems from #30 (comment).
@mattcieslak could you take a look at this? Does it look reasonable?