Merge pull request #216 from Exabyte-io/fix/notebooks

update: fix 3 nbs (SOF-7561)

Author: VsevolodX

other/materials_designer/custom_transformation.ipynb

@@ -16,12 +16,10 @@
   },
   {
    "cell_type": "code",
-   "execution_count": null,
    "id": "initial_id",
    "metadata": {
     "collapsed": true
    },
-   "outputs": [],
    "source": [
     "import sys\n",
     "\n",
@@ -33,7 +31,9 @@
     "    from mat3ra.utils.jupyterlite.packages import install_packages\n",
     "\n",
     "    await install_packages(\"\")"
-   ]
+   ],
+   "outputs": [],
+   "execution_count": null
   },
   {
    "cell_type": "markdown",
@@ -47,7 +47,6 @@
   },
   {
    "cell_type": "code",
-   "outputs": [],
    "source": [
     "# Material class to hold structural data\n",
     "from mat3ra.made.material import Material\n",
@@ -58,6 +57,7 @@
     "collapsed": false
    },
    "id": "b2fa69b96b195d30",
+   "outputs": [],
    "execution_count": null
   },
   {
@@ -73,7 +73,6 @@
   },
   {
    "cell_type": "code",
-   "outputs": [],
    "source": [
     "from utils.jupyterlite import get_materials\n",
     "\n",
@@ -83,6 +82,7 @@
     "collapsed": false
    },
    "id": "54e68de6c6cc3e03",
+   "outputs": [],
    "execution_count": null
   },
   {
@@ -97,14 +97,12 @@
   },
   {
    "cell_type": "code",
-   "outputs": [],
-   "source": [
-    "new_materials = ..."
-   ],
+   "source": "new_material = materials[0]",
    "metadata": {
     "collapsed": false
    },
    "id": "91069f5712a65dbb",
+   "outputs": [],
    "execution_count": null
   },
   {
@@ -116,14 +114,14 @@
   {
    "metadata": {},
    "cell_type": "code",
-   "outputs": [],
-   "execution_count": null,
    "source": [
     "from utils.visualize import visualize_materials\n",
     "\n",
-    "visualize_materials(new_materials, viewer=\"wave\")"
+    "visualize_materials(new_material, viewer=\"wave\")"
    ],
-   "id": "1029505318aa3656"
+   "id": "1029505318aa3656",
+   "outputs": [],
+   "execution_count": null
   },
   {
    "cell_type": "markdown",
@@ -135,18 +133,18 @@
   },
   {
    "cell_type": "code",
-   "outputs": [],
    "source": [
     "from utils.jupyterlite import set_materials, download_content_to_file\n",
     "\n",
-    "set_materials(new_materials)\n",
+    "set_materials(new_material)\n",
     "# for idx, material in enumerate(new_materials):\n",
     "#   download_content_to_file(new_materials, f\"new_material_{idx}.json\")"
    ],
    "metadata": {
     "collapsed": false
    },
    "id": "7973f7ee67bdc42a",
+   "outputs": [],
    "execution_count": null
   }
  ],

other/materials_designer/import_materials_from_standata.ipynb

@@ -38,6 +38,7 @@
     "    import micropip\n",
     "  \n",
     "    await micropip.install('mat3ra-api-examples', deps=False)\n",
+    "    await micropip.install('mat3ra-utils')\n",
     "    await micropip.install('mat3ra-standata')\n",
     "    from utils.jupyterlite import install_packages\n",
     "    await install_packages(\"\")"

other/materials_designer/passivate_edge.ipynb

@@ -49,8 +49,6 @@
   {
    "metadata": {},
    "cell_type": "code",
-   "outputs": [],
-   "execution_count": null,
    "source": [
     "# Enable interactive selection of coordination threshold\n",
     "IS_COORDINATION_SELECTION_INTERACTIVE = False\n",
@@ -73,7 +71,9 @@
     "SHOW_INTERMEDIATE_STEPS = True\n",
     "CELL_REPETITIONS_FOR_VISUALIZATION = [1, 1, 1]  # Structure repeat in view"
    ],
-   "id": "7e8d8696bb1035e5"
+   "id": "7e8d8696bb1035e5",
+   "outputs": [],
+   "execution_count": null
   },
   {
    "cell_type": "markdown",