[BUG]sub-0133_ses-01_anat, fmap

jungheejung commented 4 months ago

TODO

[ ] Figure out why the following files crash

files that cause trouble

/dartfs-hpc/rc/lab/C/CANlab/labdata/data/spacetop/dartmouth/sub-0133/ses-01/anat/tmp-sub-0133_ses-01_acq-MPRAGEXp3X08mm_T1w.nii.gz
/dartfs-hpc/rc/lab/C/CANlab/labdata/data/spacetop/dartmouth/sub-0133/ses-01/fmap/tmp-sub-0133_ses-01_acq-96dirX6b0Xmb_dir-ap_epi.nii.gz
/dartfs-hpc/rc/lab/C/CANlab/labdata/data/spacetop/dartmouth/sub-0133/ses-01/fmap/tmp-sub-0133_ses-01_acq-96dirX6b0Xmb_dir-pa_epi.nii.gz

scannotes

(Insert scannotes from ST_participants)

jungheejung commented 4 months ago

@yarikoptic Would love to go over this on Thursday - the source files have tmp in them. Apparently, this is causing fmriprep to crash @feilong

yarikoptic commented 4 months ago

I do not see those files among committed... most likely uncommitted stuff someone produced? who owns them?

/home/yoh/datasets/1076_spacetop
❯ ls {sourcedata/,}sub-0133/ses-01/{anat,fmap}/* | grep tmp
❯ ls {sourcedata/,}sub-0133/ses-01/{anat,fmap}/*
sourcedata/sub-0133/ses-01/anat/sub-0133_ses-01_acq-MPRAGEXp3X08mm_T1w.dicom.tgz@
sourcedata/sub-0133/ses-01/anat/sub-0133_ses-01_scout.dicom.tgz@
sourcedata/sub-0133/ses-01/anat/sub-0133_ses-01_scout__dup-01.dicom.tgz@
sourcedata/sub-0133/ses-01/anat/sub-0133_ses-01_scout__dup-02.dicom.tgz@
sourcedata/sub-0133/ses-01/anat/sub-0133_ses-01_scout__dup-03.dicom.tgz@
sourcedata/sub-0133/ses-01/anat/sub-0133_ses-01_scout__dup-04.dicom.tgz@
sourcedata/sub-0133/ses-01/anat/sub-0133_ses-01_scout__dup-05.dicom.tgz@
sourcedata/sub-0133/ses-01/anat/sub-0133_ses-01_scout__dup-06.dicom.tgz@
sourcedata/sub-0133/ses-01/anat/sub-0133_ses-01_scout__dup-07.dicom.tgz@
sourcedata/sub-0133/ses-01/fmap/sub-0133_ses-01_acq-96dirX6b0Xmb_dir-ap_epi.dicom.tgz@
sourcedata/sub-0133/ses-01/fmap/sub-0133_ses-01_acq-96dirX6b0Xmb_dir-pa_epi.dicom.tgz@
sourcedata/sub-0133/ses-01/fmap/sub-0133_ses-01_acq-mb8_dir-ap_run-01_epi.dicom.tgz@
sourcedata/sub-0133/ses-01/fmap/sub-0133_ses-01_acq-mb8_dir-ap_run-02_epi.dicom.tgz@
sourcedata/sub-0133/ses-01/fmap/sub-0133_ses-01_acq-mb8_dir-pa_run-01_epi.dicom.tgz@
sourcedata/sub-0133/ses-01/fmap/sub-0133_ses-01_acq-mb8_dir-pa_run-02_epi.dicom.tgz@
sub-0133/ses-01/anat/sub-0133_ses-01_acq-MPRAGEXp3X08mm_T1w.json
sub-0133/ses-01/anat/sub-0133_ses-01_acq-MPRAGEXp3X08mm_T1w.nii.gz@
sub-0133/ses-01/fmap/sub-0133_ses-01_acq-96dirX6b0Xmb_dir-ap_epi.json
sub-0133/ses-01/fmap/sub-0133_ses-01_acq-96dirX6b0Xmb_dir-ap_epi.nii.gz@
sub-0133/ses-01/fmap/sub-0133_ses-01_acq-96dirX6b0Xmb_dir-pa_epi.json
sub-0133/ses-01/fmap/sub-0133_ses-01_acq-96dirX6b0Xmb_dir-pa_epi.nii.gz@
sub-0133/ses-01/fmap/sub-0133_ses-01_acq-mb8_dir-ap_run-01_epi.json
sub-0133/ses-01/fmap/sub-0133_ses-01_acq-mb8_dir-ap_run-01_epi.nii.gz@
sub-0133/ses-01/fmap/sub-0133_ses-01_acq-mb8_dir-ap_run-02_epi.json
sub-0133/ses-01/fmap/sub-0133_ses-01_acq-mb8_dir-ap_run-02_epi.nii.gz@
sub-0133/ses-01/fmap/sub-0133_ses-01_acq-mb8_dir-pa_run-01_epi.json
sub-0133/ses-01/fmap/sub-0133_ses-01_acq-mb8_dir-pa_run-01_epi.nii.gz@
sub-0133/ses-01/fmap/sub-0133_ses-01_acq-mb8_dir-pa_run-02_epi.json
sub-0133/ses-01/fmap/sub-0133_ses-01_acq-mb8_dir-pa_run-02_epi.nii.gz@

feilong commented 4 months ago

Oops, apparently these files belong to f000fg1 rather than @jungheejung or @yarikoptic . Shall we simply remove these files from the repo?

jungheejung commented 4 months ago

Yes, please do delete @feilong.

And thank you for looking into this @yarikoptic I will check the datalad commits next time! Good suggestion.

spatialtopology / spacetop-prep