diff --git a/pipelines/rcpl_with_fieldmap_correction.py b/pipelines/rcpl_with_topup_fieldmap_correction.py similarity index 99% rename from pipelines/rcpl_with_fieldmap_correction.py rename to pipelines/rcpl_with_topup_fieldmap_correction.py index 254185d..c22d697 100644 --- a/pipelines/rcpl_with_fieldmap_correction.py +++ b/pipelines/rcpl_with_topup_fieldmap_correction.py @@ -9,7 +9,7 @@ from PUMI.pipelines.anat.func_to_anat import func2anat from nipype.interfaces import utility -from PUMI.pipelines.func.deconfound import fieldmap_correction +from PUMI.pipelines.func.deconfound import fieldmap_correction_topup from PUMI.pipelines.func.func_proc import func_proc_despike_afni from PUMI.pipelines.func.timeseries_extractor import pick_atlas, extract_timeseries_nativespace from PUMI.utils import mist_modules, mist_labels, get_reference @@ -407,7 +407,7 @@ def rcpl(wf, bbr=True, **kwargs): reorient_fmap_wf = Node(Reorient2Std(output_type='NIFTI_GZ'), name="reorient_fmap_wf") wf.connect('inputspec', 'fmap', reorient_fmap_wf, 'in_file') - fieldmap_corr = fieldmap_correction('fieldmap_corr') + fieldmap_corr = fieldmap_correction_topup('fieldmap_corr') wf.connect(reorient_func_wf, 'out_file', fieldmap_corr, 'main') wf.connect('inputspec', 'bold_json', fieldmap_corr, 'main_json') wf.connect(reorient_fmap_wf, 'out_file', fieldmap_corr, 'fmap')