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Refactor HCP/DCAN ingression and fix converted filenames #714

Merged
merged 92 commits into from
Mar 10, 2023
Merged

Refactor HCP/DCAN ingression and fix converted filenames #714

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b68517c
Refactor hcp2fmriprep.
tsalo Dec 9, 2022
cb328cd
Write out the file mapper from HCP to fMRIPrep.
tsalo Dec 9, 2022
a362d63
Fix output location.
tsalo Dec 9, 2022
6b94ae0
Move fMRIPrep filenames closer to original ones.
tsalo Dec 10, 2022
b07206d
Add space, density, and desc to surfaces.
tsalo Dec 10, 2022
453a3ce
Move lines around.
tsalo Dec 11, 2022
5cfe1dd
[skip ci] Add desc-aparcaseg to dseg filename.
tsalo Dec 11, 2022
6be15de
[skip ci] don't include .dtseries in json filename.
tsalo Dec 11, 2022
b45e395
[skip ci] streamline confound creation
tsalo Dec 11, 2022
0840ee6
Try to clean up the DCAN converter a bit.
tsalo Dec 12, 2022
292e45c
[skip ci] more refactoring.
tsalo Dec 12, 2022
76c1372
Write out scans.tsv file.
tsalo Dec 12, 2022
df1b097
[skip ci] reformat
tsalo Dec 12, 2022
648ac88
[skip ci] Fix typo.
tsalo Dec 12, 2022
1861108
[skip ci] update surface filenames.
tsalo Dec 12, 2022
81b8e24
[skip ci] more renaming.
tsalo Dec 12, 2022
5e11a4e
Get rid of some globs.
tsalo Dec 19, 2022
7e17bd0
[skip ci] Centralize the volume space.
tsalo Dec 19, 2022
6762217
[skip ci] Pin volume space.
tsalo Dec 19, 2022
7cc2486
Merge remote-tracking branch 'upstream/main' into hcp-dcan-ingression…
tsalo Dec 21, 2022
7236425
Update converters.
tsalo Dec 21, 2022
506d5ee
More improvements.
tsalo Dec 22, 2022
72c84d4
Fix style.
tsalo Dec 22, 2022
69b8313
Improve conversion functions some more.
tsalo Dec 22, 2022
cf550f8
Rename mask files.
tsalo Jan 3, 2023
bb4c51e
Grab the right transforms (maybe).
tsalo Jan 3, 2023
3e30522
Update hcp2fmriprep.py
tsalo Jan 3, 2023
794225e
Refactor more.
tsalo Jan 3, 2023
9c118bd
Merge remote-tracking branch 'upstream/main' into hcp-dcan-ingression…
tsalo Jan 3, 2023
b23eed3
Fix things up.
tsalo Jan 5, 2023
7e59011
Merge remote-tracking branch 'upstream/main' into hcp-dcan-ingression…
tsalo Feb 16, 2023
40ed1f8
Merge remote-tracking branch 'upstream/main' into hcp-dcan-ingression…
tsalo Feb 17, 2023
9bd4c50
update code
Feb 19, 2023
5a955d6
update code
Feb 20, 2023
41cbe87
update code to create empty files for transforms that do not exist
Feb 20, 2023
b7c03c7
update code
Feb 20, 2023
b523910
update code
Feb 20, 2023
4ed601a
update file
Feb 20, 2023
8997671
update
Feb 20, 2023
15feb1f
update code
Feb 20, 2023
6ea2ce0
update
Feb 20, 2023
7cc36bf
update code
Feb 21, 2023
0437397
update
Feb 21, 2023
5b77e3f
update code
Feb 21, 2023
e9c6c2f
update code
Feb 21, 2023
8184fa1
update code
Feb 21, 2023
0c3482b
update code
Feb 21, 2023
d57bf42
linting
Feb 21, 2023
0c5d52f
Revert "update code"
Feb 21, 2023
3400358
Revert "update code"
Feb 21, 2023
193a895
Revert "update code"
Feb 21, 2023
6e02f93
Revert "update"
Feb 21, 2023
9117854
Revert "update code"
Feb 21, 2023
ab681cb
update
Feb 21, 2023
8ff9d1c
update files
Feb 21, 2023
4ce9ecd
Revert "linting"
Feb 21, 2023
5cc54ac
update
Feb 21, 2023
4b8f100
update files
Feb 21, 2023
4f8205d
Merge branch 'main' into hcp-dcan-ingression-refactor
kahinimehta Feb 21, 2023
f2c3c27
update linting
Feb 21, 2023
14f552b
update
Feb 21, 2023
1c66aa1
lint
Feb 21, 2023
fbc2e41
Merge branch 'main' into hcp-dcan-ingression-refactor
kahinimehta Mar 6, 2023
d418def
lint
Mar 6, 2023
ca5e5cf
Update xcp_d/cli/run.py
kahinimehta Mar 7, 2023
d3bc3f6
Update xcp_d/utils/hcp2fmriprep.py
kahinimehta Mar 7, 2023
f4b3785
Update xcp_d/utils/hcp2fmriprep.py
kahinimehta Mar 7, 2023
b7b7442
Update xcp_d/utils/hcp2fmriprep.py
kahinimehta Mar 7, 2023
1757782
update
Mar 7, 2023
0a78839
update
Mar 7, 2023
ff98165
lint
Mar 7, 2023
5253097
update
Mar 8, 2023
0800943
Merge branch 'main' into hcp-dcan-ingression-refactor
kahinimehta Mar 8, 2023
78e1876
update
Mar 8, 2023
bbf2ee1
Merge branch 'hcp-dcan-ingression-refactor' of https://github.com/tsa…
Mar 8, 2023
87678dd
Simplify anat_dir_orig.
tsalo Mar 8, 2023
c056d2f
update
Mar 8, 2023
6112f9c
update
Mar 8, 2023
fa6e6bc
update
Mar 8, 2023
d8da0c1
update
Mar 8, 2023
24c2a38
update
Mar 8, 2023
a232566
update
Mar 8, 2023
f75dc35
update
Mar 8, 2023
e27b63f
update
Mar 8, 2023
d683ffa
update
Mar 9, 2023
8e7ec6a
update
Mar 9, 2023
2f2168d
update
Mar 9, 2023
c4e49ac
lint
Mar 9, 2023
5187809
Update xcp_d/utils/hcp2fmriprep.py
kahinimehta Mar 9, 2023
fc787bd
Update xcp_d/utils/hcp2fmriprep.py
kahinimehta Mar 9, 2023
f99af75
Update xcp_d/utils/hcp2fmriprep.py
kahinimehta Mar 9, 2023
c7dd56a
Update xcp_d/utils/hcp2fmriprep.py
kahinimehta Mar 9, 2023
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