diff --git a/data_processing.ipynb b/data_processing.ipynb index c5fb73a..e957549 100644 --- a/data_processing.ipynb +++ b/data_processing.ipynb @@ -260,7 +260,7 @@ " for shim_mode in shim_modes:\n", " # Don't do it for CoV_T2starw\n", " if shim_mode != 'CoV':\n", - " !sct_register_multimodal -i {subject}_acq-{shim_mode}_T2starw.nii.gz -d {subject}_acq-CoV_T2starw_crop.nii.gz -dseg {subject}_acq-CoV_T2starw_crop_seg.nii.gz -param step=1,type=im,algo=slicereg,metric=CC -qc {path_qc}" + " !sct_register_multimodal -i {subject}_acq-{shim_mode}_T2starw.nii.gz -d {subject}_acq-CoV_T2starw_crop.nii.gz -dseg {subject}_acq-CoV_T2starw_crop_seg.nii.gz -param step=1,type=im,algo=dl -qc {path_qc}" ] }, {