Renamed B1+ maps

https://neurostars.org/t/bids-naming-for-b1-efficiency/27748

data_processing.ipynb

@@ -257,7 +257,7 @@
   {
    "cell_type": "code",
    "execution_count": null,
-   "id": "87a06e2d",
+   "id": "97f53bfb",
    "metadata": {},
    "outputs": [],
    "source": [
@@ -330,7 +330,7 @@
     "        # Siemens maps are in units of flip angle * 10 (in degrees)\n",
     "        acquired_fa = acquired_fa / 10\n",
     "\n",
-    "        # Account for the power loss between the amplifier and the socket. That number was given by Siemens.\n",
+    "        # Account for the power loss between the coil and the socket. That number was given by Siemens.\n",
     "        voltage_at_socket = ref_voltage * 10 ** -0.095\n",
     "\n",
     "        # Compute B1 map in [T/V]\n",
@@ -341,7 +341,7 @@
     "\n",
     "        # Save as NIfTI file\n",
     "        nii_b1 = nib.Nifti1Image(b1_map, nii.affine, nii.header)\n",
-    "        nib.save(nii_b1, f\"{subject}_acq-{shim_mode}_B1plusmap.nii.gz\")"
+    "        nib.save(nii_b1, f\"{subject}_acq-{shim_mode}_TB1map.nii.gz\")"
    ]
   },
   {
@@ -356,7 +356,7 @@
     "for subject in subjects:\n",
     "    os.chdir(os.path.join(path_data, subject, \"fmap\"))\n",
     "    for shim_mode in shim_modes:\n",
-    "        !sct_extract_metric -i {subject}_acq-{shim_mode}_b1plusmap.nii.gz -f {subject}_acq-anat{shim_mode}_TB1TFL_seg.nii.gz -method wa -vert 1:9 -vertfile {subject}_acq-anat{shim_mode}_TB1TFL_seg_labeled.nii.gz -perslice 1 -o TB1TFL_{shim_mode}.csv"
+    "        !sct_extract_metric -i {subject}_acq-{shim_mode}_TB1map.nii.gz -f {subject}_acq-anat{shim_mode}_TB1TFL_seg.nii.gz -method wa -vert 1:9 -vertfile {subject}_acq-anat{shim_mode}_TB1TFL_seg_labeled.nii.gz -perslice 1 -o TB1map_{shim_mode}.csv"
    ]
   },
   {
@@ -367,7 +367,6 @@
    "outputs": [],
    "source": [
     "# Make figure of B1+ values along the spinal cord across shim methods\n",
-    "# WIP\n",
     "\n",
     "import pandas as pd\n",
     "import matplotlib.pyplot as plt\n",
@@ -377,8 +376,7 @@
     "os.chdir(os.path.join(path_data, subject, \"fmap\"))\n",
     "\n",
     "# Pattern to match all files starting with 'TB1TFL_' and ending with '.csv'\n",
-    "file_pattern = f\"TB1TFL_*.csv\"\n",
-    "\n",
+    "file_pattern = f\"TB1map_*.csv\"\n",
     "\n",
     "# Initialize a matplotlib figure\n",
     "plt.figure(figsize=(10, 6))\n",