update section headings

Author: dnjohnstone

01 GaAs Nanowire - Data Inspection - Preprocessing - Unsupervised Machine Learning.ipynb

@@ -336,14 +336,14 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "## <a id='vdf'></a> 3. Virtual Diffraction Imaging & Selecting Regions"
+    "# <a id='vdf'></a> 3. Virtual Diffraction Imaging & Selecting Regions"
    ]
   },
   {
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "### 3.1 Interactive VDF Imaging"
+    "## 3.1 Interactive VDF Imaging"
    ]
   },
   {
@@ -416,7 +416,7 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "### 3.2 Form multiple images using a VDF Generator"
+    "## 3.2 Form multiple images using a VDF Generator"
    ]
   },
   {
@@ -506,7 +506,7 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "### 3.3 Select a region in the scan"
+    "## 3.3 Select a region in the scan"
    ]
   },
   {
@@ -669,7 +669,7 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "## 5. Azimuthal Integration & Background Subtraction"
+    "# 5. Azimuthal Integration & Background Subtraction"
    ]
   },
   {
@@ -740,7 +740,7 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "## <a id='vec'></a> 6. Peak Finding & Vector Analysis"
+    "# <a id='vec'></a> 6. Peak Finding & Vector Analysis"
    ]
   },
   {
@@ -887,7 +887,7 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "### 6.1 Imaging using found diffraction conditions"
+    "## 6.1 Imaging using found diffraction conditions"
    ]
   },
   {

02 GaAs Nanowire - Phase Mapping - Orientation Mapping.ipynb

@@ -34,13 +34,12 @@
    "source": [
     "1. <a href='#loa'> Load & Inspect Data</a>\n",
     "2. <a href='#pre'> Pre-processing</a>\n",
-    "3. <a href='#vdf'> Template matching</a>\n",
-    "    1. [Build template library](#Build-the-template-library)\n",
-    "    2. [Indexing](#Indexing)\n",
-    "4. <a href='#ml'> Vector matching</a>\n",
-    "    1. [Build vector library](#Build-the-vector-library)\n",
-    "    2. [Indexing vectors](#Indexing-vectors)\n",
-    "5. <a href='#vec'> Results</a>"
+    "3. <a href='#tem'> Template matching</a>\n",
+    "    1. <a href='#tema'> [Build Template Library]</a>\n",
+    "    2. <a href='#temb'>[Indexing]</a>\n",
+    "4. <a href='#vec'> Vector Matching</a>\n",
+    "    1. <a href='#veca'> [Build Vector Library]</a>\n",
+    "    2. <a href='#vecb'>[Indexing Vectors]</a>"
    ]
   },
   {
@@ -375,7 +374,7 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "## 3.2. Simulate Diffraction for all Structures & Orientations"
+    "## <a id='temb'></a> 3.2. Simulate Diffraction for all Structures & Orientations"
    ]
   },
   {
@@ -473,7 +472,7 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "## 3.3. Pattern Matching Indexation"
+    "## <a id='temb'></a> 3.3. Pattern Matching Indexation"
    ]
   },
   {
@@ -617,7 +616,7 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "## 4.1. Define Library of Structures"
+    "## <a id='veca'></a> 4.1. Define Library of Structures"
    ]
   },
   {
@@ -809,7 +808,7 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "## 4.3. Vector Matching Indexation"
+    "## <a id='vecb'></a> 4.3. Vector Matching Indexation"
    ]
   },
   {