Added docs on Wavefront reconstruction for Roddier method and more ge…

…nerally to study Transport of intensity equation (TIE)

NormalizingFlows.ipynb

@@ -2060,7 +2060,7 @@
     "### Introduction\n",
     "\n",
     "The fundamental equation we need here, is known for a very long time, and relates to change of variable, initially used to integrate quantities in physics.\n",
-    "Given an invertible function:$f:\\underset{Z}{z} \\mapsto \\underset{X}{x}$ and a distribution $p_{\\theta}(z), \\; z \\in Z$, the change of variable forumla reads\n",
+    "Given an invertible function:$f:\\underset{Z}{z} \\mapsto \\underset{X}{x}$ and a distribution $p_{\\theta}(z), \\; z \\in Z$, the change of variable formula reads\n",
     "\n",
     "\\begin{align*}\n",
     "  p_{\\theta}'(x) &= p_{\\theta}\\left( f^{-1}(x) \\right) |det \\left( J_{f^{-1}} \\right)| \\\\\n",
@@ -2569,7 +2569,7 @@
    "name": "python",
    "nbconvert_exporter": "python",
    "pygments_lexer": "ipython3",
-   "version": "3.6.9"
+   "version": "3.8.5"
   }
  },
  "nbformat": 4,

RoddierWaveFrontReconstruction.ipynb

@@ -92,11 +92,45 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "### Irradiance transport equation\n",
+    "### Irradiance transport equation / Transport of intensity equation (TIE)\n",
     "\n",
     "#### Introduction\n",
     "Although this equation is referred to as \"Irradiance transport equation\" in the original paper from Roddier, it is more often refered to as \"transport of intensity equation\", see wikipedia: https://en.m.wikipedia.org/wiki/Transport-of-intensity_equation\n",
     "\n",
+    "It has been extensively studied in the past, and still is a topic of interest for some physics researchers, we find interesting to cite two papers before going into more details for Roddier method.\n",
+    "\n",
+    "The first one, named ***Deterministic phase retrieval: a Green's function solution*** is an article from 1983 that aimed at studying the partial differential equation, and formulate a solution based on Green's function:"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "#IFrame(\"doc/Optics/teague1983.pdf\", width=1200, height=800)"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "metadata": {},
+   "source": [
+    "The second one, named: ***On a universal solution to the transport-of-intensity equation*** presents an iterative approach to solve the pde, with stability considerations:"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "#IFrame(\"doc/Optics/1912.07371.pdf\", width=1200, height=800)"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "metadata": {},
+   "source": [
     "The irradiance transport partial differential equation reads:\n",
     "\n",
     "\\begin{align*}\n",
@@ -267,7 +301,7 @@
    "name": "python",
    "nbconvert_exporter": "python",
    "pygments_lexer": "ipython3",
-   "version": "3.6.9"
+   "version": "3.8.10"
   }
  },
  "nbformat": 4,

keras-vq-vae-for-image-generation.ipynb

@@ -9,11 +9,14 @@
    },
    "outputs": [
     {
-     "name": "stdout",
-     "output_type": "stream",
-     "text": [
-      "2.4.1\n",
-      "2.4.0\n"
+     "ename": "ModuleNotFoundError",
+     "evalue": "No module named 'tensorflow'",
+     "output_type": "error",
+     "traceback": [
+      "\u001b[0;31m---------------------------------------------------------------------------\u001b[0m",
+      "\u001b[0;31mModuleNotFoundError\u001b[0m                       Traceback (most recent call last)",
+      "\u001b[0;32m<ipython-input-1-1310f9d43c9e>\u001b[0m in \u001b[0;36m<module>\u001b[0;34m\u001b[0m\n\u001b[1;32m      7\u001b[0m \u001b[0;34m\u001b[0m\u001b[0m\n\u001b[1;32m      8\u001b[0m \u001b[0;31m# TF/Keras\u001b[0m\u001b[0;34m\u001b[0m\u001b[0;34m\u001b[0m\u001b[0;34m\u001b[0m\u001b[0m\n\u001b[0;32m----> 9\u001b[0;31m \u001b[0;32mimport\u001b[0m \u001b[0mtensorflow\u001b[0m \u001b[0;32mas\u001b[0m \u001b[0mtf\u001b[0m\u001b[0;34m\u001b[0m\u001b[0;34m\u001b[0m\u001b[0m\n\u001b[0m\u001b[1;32m     10\u001b[0m \u001b[0;31m#import tensorflow.keras as K\u001b[0m\u001b[0;34m\u001b[0m\u001b[0;34m\u001b[0m\u001b[0;34m\u001b[0m\u001b[0m\n\u001b[1;32m     11\u001b[0m \u001b[0;32mfrom\u001b[0m \u001b[0mtensorflow\u001b[0m \u001b[0;32mimport\u001b[0m \u001b[0mkeras\u001b[0m\u001b[0;34m\u001b[0m\u001b[0;34m\u001b[0m\u001b[0m\n",
+      "\u001b[0;31mModuleNotFoundError\u001b[0m: No module named 'tensorflow'"
      ]
     }
    ],
@@ -1146,7 +1149,7 @@
    "name": "python",
    "nbconvert_exporter": "python",
    "pygments_lexer": "ipython3",
-   "version": "3.6.9"
+   "version": "3.8.5"
   }
  },
  "nbformat": 4,