diff --git a/data_processing-human.ipynb b/data_processing-human.ipynb
index 7e101f5..9a5a555 100644
--- a/data_processing-human.ipynb
+++ b/data_processing-human.ipynb
@@ -277,13 +277,9 @@
     "    # Warping SC segmentation and vertebral levels to TFL fmaps \n",
     "    if subject in ['sub-MSSM1', 'sub-MSSM2', 'sub-MSSM3']:\n",
     "        #https://github.com/spinal-cord-7t/coil-qc-code/issues/43\n",
-    "        !sct_apply_transfo -i ../anat/{subject}_UNIT1_seg_crop.nii.gz -d {subject}_acq-famp_TB1TFL.nii.gz -w warp_{subject}_inv-1_part-mag_MP2RAGE_crop2{subject}_acq-famp_TB1TFL.nii.gz -x linear -o {subject}_acq-famp_TB1TFL_seg-UNIT1reg.nii.gz\n",
-    "        !sct_qc -i {subject}_acq-famp_TB1TFL.nii.gz -s {subject}_acq-famp_TB1TFL_seg-UNIT1reg.nii.gz -p sct_deepseg_sc -qc {path_qc} -qc-subject {subject}\n",
     "        !sct_apply_transfo -i ../anat/{subject}_UNIT1_seg_labeled_crop.nii.gz -d {subject}_acq-famp_TB1TFL.nii.gz -w warp_{subject}_inv-1_part-mag_MP2RAGE_crop2{subject}_acq-famp_TB1TFL.nii.gz -x nn -o {subject}_acq-famp_TB1TFL_seg_labeled-UNIT1reg.nii.gz\n",
     "        !sct_qc -i {subject}_acq-famp_TB1TFL.nii.gz -s {subject}_acq-famp_TB1TFL_seg_labeled-UNIT1reg.nii.gz -p sct_label_vertebrae -qc {path_qc} -qc-subject {subject}\n",
     "    else:\n",
-    "        !sct_apply_transfo -i ../anat/{subject}_UNIT1_seg_crop.nii.gz -d {subject}_acq-famp_TB1TFL.nii.gz -w warp_{subject}_inv-1_part-mag_MP2RAGE_crop2{subject}_acq-anat_TB1TFL.nii.gz -x linear -o {subject}_acq-anat_TB1TFL_seg-UNIT1reg.nii.gz\n",
-    "        !sct_qc -i {subject}_acq-anat_TB1TFL.nii.gz -s {subject}_acq-anat_TB1TFL_seg-UNIT1reg.nii.gz -p sct_deepseg_sc -qc {path_qc} -qc-subject {subject}\n",
     "        !sct_apply_transfo -i ../anat/{subject}_UNIT1_seg_labeled_crop.nii.gz -d {subject}_acq-famp_TB1TFL.nii.gz -w warp_{subject}_inv-1_part-mag_MP2RAGE_crop2{subject}_acq-anat_TB1TFL.nii.gz -x nn -o {subject}_acq-anat_TB1TFL_seg_labeled-UNIT1reg.nii.gz\n",
     "        !sct_qc -i {subject}_acq-anat_TB1TFL.nii.gz -s {subject}_acq-anat_TB1TFL_seg_labeled-UNIT1reg.nii.gz -p sct_label_vertebrae -qc {path_qc} -qc-subject {subject}\n",
     "            \n",
@@ -294,8 +290,6 @@
     "    !sct_qc -i {subject}_acq-famp_TB1DREAM.nii.gz -s {subject}_acq-famp_TB1DREAM_seg_labeled-UNIT1reg.nii.gz -p sct_label_vertebrae -qc {path_qc} -qc-subject {subject}\n",
     "    \n",
     "    # Warping SC segmentation and vertebral level to SNR maps\n",
-    "    !sct_apply_transfo -i ../anat/{subject}_UNIT1_seg_crop.nii.gz -d {subject}_acq-coilQaSagLarge_SNR_T0000.nii.gz -w warp_{subject}_inv-1_part-mag_MP2RAGE_crop2{subject}_acq-coilQaSagLarge_SNR_T0000.nii.gz -x linear -o {subject}_acq-coilQaSagLarge_SNR_T0000_seg-UNIT1reg.nii.gz\n",
-    "    !sct_qc -i {subject}_acq-coilQaSagLarge_SNR_T0000.nii.gz -s {subject}_acq-coilQaSagLarge_SNR_T0000_seg-UNIT1reg.nii.gz -p sct_deepseg_sc -qc {path_qc} -qc-subject {subject}\n",
     "    !sct_apply_transfo -i ../anat/{subject}_UNIT1_seg_labeled_crop.nii.gz -d {subject}_acq-coilQaSagLarge_SNR_T0000.nii.gz -w warp_{subject}_inv-1_part-mag_MP2RAGE_crop2{subject}_acq-coilQaSagLarge_SNR_T0000.nii.gz -x nn -o {subject}_acq-coilQaSagLarge_SNR_T0000_seg_labeled-UNIT1reg.nii.gz\n",
     "    !sct_qc -i {subject}_acq-coilQaSagLarge_SNR_T0000.nii.gz -s {subject}_acq-coilQaSagLarge_SNR_T0000_seg_labeled-UNIT1reg.nii.gz -p sct_label_vertebrae -qc {path_qc} -qc-subject {subject}"
    ]
@@ -529,19 +523,19 @@
     "        #https://github.com/spinal-cord-7t/coil-qc-code/issues/43\n",
     "        # Extract TFL B1+ along the spinal cord\n",
     "        fname_result_b1plus = os.path.join(path_results, f\"{subject}_TFLTB1map.csv\")\n",
-    "        !sct_extract_metric -i {subject}_TFLTB1map.nii.gz -f {subject}_acq-famp_TB1TFL_seg-UNIT1reg.nii.gz -method wa -vert 1:9 -vertfile {subject}_acq-famp_TB1TFL_seg_labeled-UNIT1reg.nii.gz -perlevel 1 -o \"{fname_result_b1plus}\"\n",
+    "        !sct_extract_metric -i {subject}_TFLTB1map.nii.gz -f {subject}_acq-famp_TB1TFL_seg.nii.gz -method wa -vert 1:9 -vertfile {subject}_acq-famp_TB1TFL_seg_labeled-UNIT1reg.nii.gz -perlevel 1 -o \"{fname_result_b1plus}\"\n",
     "    else:   \n",
     "        # Extract TFL B1+ along the spinal cord\n",
     "        fname_result_b1plus = os.path.join(path_results, f\"{subject}_TFLTB1map.csv\")\n",
-    "        !sct_extract_metric -i {subject}_TFLTB1map.nii.gz -f {subject}_acq-anat_TB1TFL_seg-UNIT1reg.nii.gz -method wa -vert 1:9 -vertfile {subject}_acq-anat_TB1TFL_seg_labeled-UNIT1reg.nii.gz -perlevel 1 -o \"{fname_result_b1plus}\"\n",
+    "        !sct_extract_metric -i {subject}_TFLTB1map.nii.gz -f {subject}_acq-anat_TB1TFL_seg.nii.gz -method wa -vert 1:9 -vertfile {subject}_acq-anat_TB1TFL_seg_labeled-UNIT1reg.nii.gz -perlevel 1 -o \"{fname_result_b1plus}\"\n",
     "            \n",
     "    # Extract DREAM B1+ along the spinal cord\n",
     "    fname_result_b1plus = os.path.join(path_results, f\"{subject}_DREAMTB1avgB1map.csv\")\n",
-    "    !sct_extract_metric -i {subject}_DREAMTB1avgB1map.nii.gz -f {subject}_acq-famp_TB1DREAM_seg-UNIT1reg.nii.gz -method wa -vert 1:9 -vertfile {subject}_acq-famp_TB1DREAM_seg_labeled-UNIT1reg.nii.gz -perlevel 1 -o \"{fname_result_b1plus}\"\n",
+    "    !sct_extract_metric -i {subject}_DREAMTB1avgB1map.nii.gz -f {subject}_acq-famp_TB1DREAM_seg.nii.gz -method wa -vert 1:9 -vertfile {subject}_acq-famp_TB1DREAM_seg_labeled-UNIT1reg.nii.gz -perlevel 1 -o \"{fname_result_b1plus}\"\n",
     "    \n",
     "    # Extract SNR along the spinal cord\n",
     "    fname_result_SNR = os.path.join(path_results, f\"{subject}_SNRmap.csv\")\n",
-    "    !sct_extract_metric -i {subject}_acq-coilQaSagLarge_SNR_T0000.nii.gz -f {subject}_acq-coilQaSagLarge_SNR_T0000_seg-UNIT1reg.nii.gz -method wa -vert 1:9 -vertfile {subject}_acq-coilQaSagLarge_SNR_T0000_seg_labeled-UNIT1reg.nii.gz -perlevel 1 -o \"{fname_result_SNR}\""
+    "    !sct_extract_metric -i {subject}_acq-coilQaSagLarge_SNR_T0000.nii.gz -f {subject}_acq-coilQaSagLarge_SNR_T0000_seg.nii.gz -method wa -vert 1:9 -vertfile {subject}_acq-coilQaSagLarge_SNR_T0000_seg_labeled-UNIT1reg.nii.gz -perlevel 1 -o \"{fname_result_SNR}\""
    ]
   },
   {
@@ -941,11 +935,11 @@
     "            if site == \"CRMBM\":\n",
     "                # Flatten the spinal cord in the sagittal plane\n",
     "                if file_name == \"TFLTB1map\":\n",
-    "                    !sct_flatten_sagittal -i sub-{site}{subject_id}_{file_name}.nii.gz -s sub-{site}{subject_id}_acq-anat_TB1TFL_seg-UNIT1reg.nii.gz\n",
+    "                    !sct_flatten_sagittal -i sub-{site}{subject_id}_{file_name}.nii.gz -s sub-{site}{subject_id}_acq-anat_TB1TFL_seg.nii.gz\n",
     "                elif file_name == \"DREAMTB1avgB1map\":\n",
-    "                    !sct_flatten_sagittal -i sub-{site}{subject_id}_{file_name}.nii.gz -s sub-{site}{subject_id}_acq-famp_TB1DREAM_seg-UNIT1reg.nii.gz\n",
+    "                    !sct_flatten_sagittal -i sub-{site}{subject_id}_{file_name}.nii.gz -s sub-{site}{subject_id}_acq-famp_TB1DREAM_seg.nii.gz\n",
     "                else:\n",
-    "                    !sct_flatten_sagittal -i sub-{site}{subject_id}_{file_name}.nii.gz -s sub-{site}{subject_id}_{file_name}_seg-UNIT1reg.nii.gz\n",
+    "                    !sct_flatten_sagittal -i sub-{site}{subject_id}_{file_name}.nii.gz -s sub-{site}{subject_id}_{file_name}_seg.nii.gz\n",
     "            else:\n",
     "                # Co-register data to reference subject, then flatten the spinal cord in the sagittal plane\n",
     "                if file_name == \"TFLTB1map\":\n",
@@ -953,14 +947,14 @@
     "                        type = 'famp'\n",
     "                    else:\n",
     "                        type = 'anat'\n",
-    "                    !sct_register_multimodal -i sub-{site}{subject_id}_{file_name}.nii.gz -iseg sub-{site}{subject_id}_acq-{type}_TB1TFL_seg-UNIT1reg.nii.gz -d ../../sub-{site_ref}{subject_id}/fmap/sub-{site_ref}{subject_id}_{file_name}.nii.gz -dseg ../../sub-{site_ref}{subject_id}/fmap/sub-{site_ref}{subject_id}_acq-anat_TB1TFL_seg-UNIT1reg.nii.gz -param step=1,type=seg,algo=centermassrot,metric=MeanSquares\n",
-    "                    !sct_flatten_sagittal -i sub-{site}{subject_id}_{file_name}_reg.nii.gz -s sub-{site}{subject_id}_acq-{type}_TB1TFL_seg-UNIT1reg.nii.gz\n",
+    "                    !sct_register_multimodal -i sub-{site}{subject_id}_{file_name}.nii.gz -iseg sub-{site}{subject_id}_acq-{type}_TB1TFL_seg.nii.gz -d ../../sub-{site_ref}{subject_id}/fmap/sub-{site_ref}{subject_id}_{file_name}.nii.gz -dseg ../../sub-{site_ref}{subject_id}/fmap/sub-{site_ref}{subject_id}_acq-anat_TB1TFL_seg.nii.gz -param step=1,type=seg,algo=centermassrot,metric=MeanSquares\n",
+    "                    !sct_flatten_sagittal -i sub-{site}{subject_id}_{file_name}_reg.nii.gz -s sub-{site}{subject_id}_acq-{type}_TB1TFL_seg.nii.gz\n",
     "                elif file_name == \"DREAMTB1avgB1map\":\n",
-    "                    !sct_register_multimodal -i sub-{site}{subject_id}_{file_name}.nii.gz -iseg sub-{site}{subject_id}_acq-famp_TB1DREAM_seg-UNIT1reg.nii.gz -d ../../sub-{site_ref}{subject_id}/fmap/sub-{site_ref}{subject_id}_{file_name}.nii.gz -dseg ../../sub-{site_ref}{subject_id}/fmap/sub-{site_ref}{subject_id}_acq-famp_TB1DREAM_seg-UNIT1reg.nii.gz -param step=1,type=seg,algo=centermassrot,metric=MeanSquares\n",
-    "                    !sct_flatten_sagittal -i sub-{site}{subject_id}_{file_name}_reg.nii.gz -s sub-{site}{subject_id}_acq-famp_TB1DREAM_seg-UNIT1reg.nii.gz\n",
+    "                    !sct_register_multimodal -i sub-{site}{subject_id}_{file_name}.nii.gz -iseg sub-{site}{subject_id}_acq-famp_TB1DREAM_seg.nii.gz -d ../../sub-{site_ref}{subject_id}/fmap/sub-{site_ref}{subject_id}_{file_name}.nii.gz -dseg ../../sub-{site_ref}{subject_id}/fmap/sub-{site_ref}{subject_id}_acq-famp_TB1DREAM_seg.nii.gz -param step=1,type=seg,algo=centermassrot,metric=MeanSquares\n",
+    "                    !sct_flatten_sagittal -i sub-{site}{subject_id}_{file_name}_reg.nii.gz -s sub-{site}{subject_id}_acq-famp_TB1DREAM_seg.nii.gz\n",
     "                else:\n",
-    "                    !sct_register_multimodal -i sub-{site}{subject_id}_{file_name}.nii.gz -iseg sub-{site}{subject_id}_{file_name}_seg-UNIT1reg.nii.gz -d ../../sub-{site_ref}{subject_id}/fmap/sub-{site_ref}{subject_id}_{file_name}.nii.gz -dseg ../../sub-{site_ref}{subject_id}/fmap/sub-{site_ref}{subject_id}_{file_name}_seg-UNIT1reg.nii.gz -param step=1,type=seg,algo=centermassrot,metric=MeanSquares\n",
-    "                    !sct_flatten_sagittal -i sub-{site}{subject_id}_{file_name}_reg.nii.gz -s sub-{site}{subject_id}_{file_name}_seg-UNIT1reg.nii.gz\n",
+    "                    !sct_register_multimodal -i sub-{site}{subject_id}_{file_name}.nii.gz -iseg sub-{site}{subject_id}_{file_name}_seg.nii.gz -d ../../sub-{site_ref}{subject_id}/fmap/sub-{site_ref}{subject_id}_{file_name}.nii.gz -dseg ../../sub-{site_ref}{subject_id}/fmap/sub-{site_ref}{subject_id}_{file_name}_seg.nii.gz -param step=1,type=seg,algo=centermassrot,metric=MeanSquares\n",
+    "                    !sct_flatten_sagittal -i sub-{site}{subject_id}_{file_name}_reg.nii.gz -s sub-{site}{subject_id}_{file_name}_seg.nii.gz\n",
     "\n",
     "            "
    ]
@@ -1256,7 +1250,7 @@
  ],
  "metadata": {
   "kernelspec": {
-   "display_name": "Python 3 (ipykernel)",
+   "display_name": "myenv",
    "language": "python",
    "name": "python3"
   },