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rf: Allow callers to pass a pre-computed epi2anat transform for SyN #485

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rf: Allow callers to pass a pre-computed epi2anat transform for SyN #485

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6627730
rf: Deprecate unused t1w_inversion argument
effigies Mar 26, 2025
b513e98
rf: Allow callers to pass a pre-computed epi2anat transform for SyN
effigies Mar 26, 2025
e9de921
sty: flake8
effigies Mar 26, 2025
560ac91
docker: Remove unused c3d_affine_tool
effigies Mar 26, 2025
9b369f9
docker: Add dev stage that does not require building a wheel
effigies Mar 26, 2025
6d0b2e2
Merge branch 'master' into syn-refactor
effigies May 13, 2025
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10 changes: 5 additions & 5 deletions sdcflows/workflows/fit/tests/test_syn.py
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Original file line number Diff line number Diff line change
Expand Up @@ -25,6 +25,8 @@
import json

import acres
import numpy as np
import nibabel as nb
import pytest
from nipype.pipeline import engine as pe

Expand All @@ -44,12 +46,11 @@
@pytest.mark.parametrize(
("n_bold", "coregister", "sd_prior"),
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Suggested change
("n_bold", "coregister", "sd_prior"),
("n_bold", "coregister"),

[
(1, True, True),
# Switch to False once we have a transform in tests/data
(2, True, False),
(1, True),
(2, True),
]
)
def test_syn_wf(tmpdir, datadir, workdir, outdir, sloppy_mode, n_bold, coregister, sd_prior):
def test_syn_wf(tmpdir, datadir, workdir, outdir, sloppy_mode, n_bold, coregister):
"""Build and run an SDC-SyN workflow."""
derivs_path = datadir / "ds000054" / "derivatives"
smriprep = derivs_path / "smriprep-0.6" / "sub-100185" / "anat"
Expand All @@ -60,7 +61,6 @@ def test_syn_wf(tmpdir, datadir, workdir, outdir, sloppy_mode, n_bold, coregiste
omp_nthreads=4,
debug=sloppy_mode,
auto_bold_nss=True,
sd_prior=sd_prior,
coregister=coregister,
)
prep_wf.inputs.inputnode.in_epis = [
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