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FIX: Pass reference image to unwarp_wf, use reference fieldwarp for single shot #2945

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merged 2 commits into from
Mar 6, 2023
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FIX: Pass reference image to unwarp_wf, use reference fieldwarp for single shot #2945

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FIX: Pass reference image to unwarp_wf, use reference fieldwarp for s…
effigies Jan 31, 2023
62ba697
PIN: sdcflows 2.3.0
effigies Mar 2, 2023
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7 changes: 5 additions & 2 deletions fmriprep/workflows/bold/base.py
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Original file line number Diff line number Diff line change
Expand Up @@ -1173,6 +1173,9 @@ def _last(inlist):
(initial_boldref_wf, coeff2epi_wf, [
("outputnode.ref_image", "inputnode.target_ref"),
("outputnode.bold_mask", "inputnode.target_mask")]),
(initial_boldref_wf, unwarp_wf, [
("outputnode.ref_image", "inputnode.distorted_ref"),
]),
(coeff2epi_wf, unwarp_wf, [
("outputnode.fmap_coeff", "inputnode.fmap_coeff")]),
(bold_hmc_wf, unwarp_wf, [
Expand Down Expand Up @@ -1266,11 +1269,11 @@ def _last(inlist):
]),
(unwarp_wf, bold_t1_trans_wf, [
# TEMPORARY: For the moment we can't use frame-wise fieldmaps
(("outputnode.fieldwarp", pop_file), "inputnode.fieldwarp"),
(("outputnode.fieldwarp_ref", pop_file), "inputnode.fieldwarp"),
]),
(unwarp_wf, bold_std_trans_wf, [
# TEMPORARY: For the moment we can't use frame-wise fieldmaps
(("outputnode.fieldwarp", pop_file), "inputnode.fieldwarp"),
(("outputnode.fieldwarp_ref", pop_file), "inputnode.fieldwarp"),
]),
])
# fmt:on
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2 changes: 1 addition & 1 deletion pyproject.toml
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Expand Up @@ -32,7 +32,7 @@ dependencies = [
"psutil >= 5.4",
"pybids >= 0.15.2",
"requests",
"sdcflows ~= 2.2.2",
"sdcflows ~= 2.3.0",
"smriprep @ git+https://github.com/nipreps/smriprep.git@master",
"tedana ~= 0.0.9",
"templateflow >= 23.0.0",
Expand Down