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List of data that are removed #7

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tashrifbillah opened this issue Jul 29, 2021 · 1 comment

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tashrifbillah commented Jul 29, 2021 •

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HCP pipeline does not remove them but for disk usage optimization at PNL, we do:

eddy_unwarped_images.eddy_outlier_free_data.nii.gz

HCPpipelines/DiffusionPreprocessing/scripts/run_eddy.sh

Line 624 in 9fa236c

${FSLDIR}/bin/imrm ${workingdir}/eddy_unwarped_images.eddy_outlier_free_data
rawdata

HCPpipelines/DiffusionPreprocessing/scripts/run_eddy.sh

Line 627 in 9fa236c

rm -r ${workingdir}/../rawdata
intensity normalized data

HCPpipelines/DiffusionPreprocessing/scripts/run_eddy.sh

Line 646 in 9fa236c

rm ${workingdir}/Pos_Neg.nii.gz
wo_repol_outDir

HCPpipelines/DiffusionPreprocessing/scripts/eddy_pnl_repol.py

Line 78 in 9fa236c

check_call(f'rm -r {wo_repol_outDir}', shell=True)

tashrifbillah added the documentation label

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tashrifbillah commented Mar 29, 2023

HCPpipelines/DiffusionPreprocessing/scripts/run_eddy.sh

Line 646 in 93a5964

rm ${workingdir}/Pos_Neg.nii.gz

Undo this removal maybe, otherwise it is hard to debug afterward.

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