batch_single_subject.sh: Remove rootlets/lesion sections

Since the sections are moved to the end of the course, these are now redundant.

single_subject/batch_single_subject.sh

@@ -115,35 +115,6 @@ sct_compute_compression -i t2_compressed_seg.nii.gz -vertfile t2_compressed_seg_
 
 
 
-# Lesion analysis
-# ======================================================================================================================
-cd ../t2_lesion
-# Segment the spinal cord and intramedullary lesion using the SCIsegV2 model
-# Note: t2.nii.gz contains a fake lesion for the purpose of this tutorial
-sct_deepseg -i t2.nii.gz -task seg_sc_lesion_t2w_sci -qc ~/qc_singleSubj
-# Note: Two files are output:
-# - t2_sc_seg.nii.gz: the spinal cord segmentation
-# - t2_lesion_seg.nii.gz: the lesion segmentation
-
-# Check results using FSLeyes
-fsleyes t2.nii.gz -cm greyscale t2_sc_seg.nii.gz -cm red -a 70.0 t2_lesion_seg.nii.gz -cm blue-lightblue -a 70.0 &
-
-# Compute various morphometric measures, such as number of lesions, lesion length, lesion volume, etc.
-sct_analyze_lesion -m t2_lesion_seg.nii.gz -s t2_sc_seg.nii.gz -qc ~/qc_singleSubj
-
-
-
-# Rootlets segmentation
-# ======================================================================================================================
-cd ../t2
-# Segment the spinal nerve rootlets
-sct_deepseg -i t2.nii.gz -task seg_spinal_rootlets_t2w -qc ~/qc_singleSubj
-
-# Check results using FSLeyes
-fsleyes t2.nii.gz -cm greyscale t2_seg.nii.gz -cm subcortical -a 70.0 &
-
-
-
 # Registering T2 data to the PAM50 template
 # ======================================================================================================================
 cd ../t2