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FIX: Multiple T2ws, coerce reference to string #333

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Jan 4, 2024
Merged

FIX: Multiple T2ws, coerce reference to string #333

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3 changes: 2 additions & 1 deletion nibabies/workflows/anatomical/base.py
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Original file line number Diff line number Diff line change
Expand Up @@ -285,7 +285,8 @@ def init_infant_anat_wf(

(t2w_template_wf, t2w_preproc_wf, [("outputnode.anat_ref", "inputnode.in_anat")]),
(t2w_template_wf, anat_derivatives_wf, [
("outputnode.anat_valid_list", "inputnode.t2w_source_files")]),
("outputnode.anat_valid_list", "inputnode.t2w_source_files"),
("outputnode.anat_realign_xfm", "inputnode.t2w_ref_xfms")]),

(t1w_preproc_wf, coregistration_wf, [("outputnode.anat_preproc", "inputnode.in_t1w")]),
(t1w_preproc_wf, coreg_report_wf, [("outputnode.anat_preproc", "inputnode.t1w_preproc")]),
Expand Down
4 changes: 2 additions & 2 deletions nibabies/workflows/anatomical/template.py
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Expand Up @@ -274,7 +274,7 @@
(anat_reorient, applyxfm_aseg, [('out_file', 'reference_image')]),
(aseg_xfm, applyxfm_aseg, [('out', 'transforms')]),
(applyxfm_aseg, aseg_reorient, [('output_image', 'in_file')]),
(applyxfm_aseg, outputnode, [('out_file', 'anat_aseg')]),
(aseg_reorient, outputnode, [('out_file', 'anat_aseg')]),
])
# fmt:on

Expand Down Expand Up @@ -305,4 +305,4 @@


def get_reference(anatomicals: list, anat_reference: str) -> int:
return anatomicals.index(anat_reference)
return anatomicals.index(str(anat_reference))

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