ENH: insert gradunwarp in bold workflow#3064
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bpinsard wants to merge 3 commits intonipreps:masterfrom
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ENH: insert gradunwarp in bold workflow#3064bpinsard wants to merge 3 commits intonipreps:masterfrom
bpinsard wants to merge 3 commits intonipreps:masterfrom
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Codecov ReportPatch coverage:
Additional details and impacted files@@ Coverage Diff @@
## master #3064 +/- ##
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- Coverage 49.29% 49.15% -0.14%
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Files 46 46
Lines 3593 3609 +16
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+ Hits 1771 1774 +3
- Misses 1822 1835 +13
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Changes proposed in this pull request
The goal of that PR is to integrate gradient unwarping to the BOLD preprocessing workflows (and to anat workflows through update of smriprep).
See #1550.
Relies on an updated version of the gradunwarp https://github.com/bpinsard/gradunwarp/tree/fix/mem_leaks.
Unwarping is applied on the initial ref (to use a single volume, it mainly takes into account the matrix size and affine rather than image content).
Warp-field is then passed to the bold_bold, bold_T1w, bold_std one-step resamplings.
Still a WIP: inserting gradient unwarping seems more challenging for BOLD than for anatomical images. I need to check how that integrates with sdcflows.
Necessary PRs:
nipreps/smriprep#355
nipreps/niworkflows#819
Documentation that should be reviewed
TODO: document the option to pass a gradient coeff file.