Update all notebooks to latest version

Author: jorgensd

Dockerfile

@@ -1,6 +1,4 @@
-FROM dokken92/dolfinx_custom:pyvista_itk
-
-RUN pip3 install notebook
+FROM dokken92/dolfinx_custom:12022021
 
 # create user with a home directory
 ARG NB_USER

chapter1/fundamentals_code.ipynb

@@ -91,7 +91,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 4,
+   "execution_count": 5,
    "metadata": {},
    "outputs": [],
    "source": [
@@ -100,7 +100,7 @@
     "u_D.vector.ghostUpdate(addv=PETSc.InsertMode.INSERT, mode=PETSc.ScatterMode.FORWARD)\n",
     "fdim = mesh.topology.dim - 1\n",
     "boundary_facets = dolfinx.mesh.locate_entities_boundary(\n",
-    "    mesh, fdim, lambda x: numpy.full(x.shape[1], True, dtype=numpy.bool))\n",
+    "    mesh, fdim, lambda x: numpy.full(x.shape[1], True, dtype=bool))\n",
     "bc = dolfinx.DirichletBC(u_D, dolfinx.fem.locate_dofs_topological(V, fdim, boundary_facets))"
    ]
   },
@@ -114,7 +114,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 5,
+   "execution_count": 6,
    "metadata": {},
    "outputs": [],
    "source": [
@@ -132,7 +132,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 6,
+   "execution_count": 7,
    "metadata": {},
    "outputs": [],
    "source": [
@@ -148,7 +148,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 7,
+   "execution_count": 8,
    "metadata": {},
    "outputs": [],
    "source": [
@@ -169,7 +169,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 8,
+   "execution_count": 9,
    "metadata": {},
    "outputs": [],
    "source": [
@@ -189,7 +189,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 9,
+   "execution_count": 10,
    "metadata": {},
    "outputs": [],
    "source": [
@@ -214,7 +214,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 10,
+   "execution_count": 11,
    "metadata": {},
    "outputs": [],
    "source": [
@@ -253,15 +253,15 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 11,
+   "execution_count": 12,
    "metadata": {},
    "outputs": [
     {
      "name": "stdout",
      "output_type": "stream",
      "text": [
       "L2-error: 2.83e-02\n",
-      "Error_max = 1.78e-15\n"
+      "Error_max = 7.11e-15\n"
      ]
     }
    ],
@@ -280,6 +280,13 @@
     "error_max = numpy.max(numpy.abs(u_vertex_values - u_ex_vertex_values))\n",
     "print(\"Error_max = {0:.2e}\".format(error_max))"
    ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "metadata": {},
+   "outputs": [],
+   "source": []
   }
  ],
  "metadata": {

chapter1/membrane_code.ipynb

@@ -46,7 +46,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 2,
+   "execution_count": 3,
    "metadata": {},
    "outputs": [],
    "source": [
@@ -59,7 +59,7 @@
     "u_D.vector.ghostUpdate(addv=PETSc.InsertMode.INSERT, mode=PETSc.ScatterMode.FORWARD)\n",
     "fdim = mesh.topology.dim - 1\n",
     "boundary_facets = dolfinx.mesh.locate_entities_boundary(\n",
-    "    mesh, fdim, lambda x: numpy.full(x.shape[1], True, dtype=numpy.bool))\n",
+    "    mesh, fdim, lambda x: numpy.full(x.shape[1], True, dtype=bool))\n",
     "bc = dolfinx.DirichletBC(u_D, dolfinx.fem.locate_dofs_topological(V, fdim, boundary_facets))"
    ]
   },
@@ -72,7 +72,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 3,
+   "execution_count": 4,
    "metadata": {},
    "outputs": [],
    "source": [
@@ -91,7 +91,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 4,
+   "execution_count": 5,
    "metadata": {},
    "outputs": [],
    "source": [
@@ -217,8 +217,8 @@
      "name": "stdout",
      "output_type": "stream",
      "text": [
-      "L2-error: 3.92e-16\n",
-      "Error_max = 8.88e-16\n"
+      "L2-error: 2.04e-15\n",
+      "Error_max = 3.11e-15\n"
      ]
     }
    ],
@@ -237,6 +237,13 @@
     "error_max = numpy.max(numpy.abs(u_vertex_values - u_ex_vertex_values))\n",
     "print(\"Error_max = {0:.2e}\".format(error_max))"
    ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "metadata": {},
+   "outputs": [],
+   "source": []
   }
  ],
  "metadata": {