Notebook fix black'd issues. Docker compose vol map

docker/docker-compose-test.yaml

@@ -11,6 +11,8 @@ services:
     environment:
       MYSQL_ROOT_PASSWORD: simple
     container_name: workflow-miniscope-test-db
+    volumes:
+      - mysql-miniscope:/var/lib/mysql
 
   workflow:
     networks:

notebooks/00-data-download-optional.ipynb

@@ -146,9 +146,9 @@
    "formats": "ipynb,py_scripts//py"
   },
   "kernelspec": {
-   "display_name": "venv-nwb",
+   "display_name": "Python 3.8.11 ('ele')",
    "language": "python",
-   "name": "venv-nwb"
+   "name": "python3"
   },
   "language_info": {
    "codemirror_mode": {
@@ -161,6 +161,11 @@
    "nbconvert_exporter": "python",
    "pygments_lexer": "ipython3",
    "version": "3.8.11"
+  },
+  "vscode": {
+   "interpreter": {
+    "hash": "61456c693db5d9aa6731701ec9a9b08ab88a172bee0780139a3679beb166da16"
+   }
   }
  },
  "nbformat": 4,

notebooks/01-configure.ipynb

@@ -201,8 +201,9 @@
    "main_language": "python"
   },
   "kernelspec": {
-   "display_name": "Python 3.7.9 64-bit ('workflow-calcium-imaging': conda)",
-   "name": "python379jvsc74a57bd01a512f474e195e32ad84236879d3bb44800a92b431919ef0b10d543f5012a23c"
+   "display_name": "Python 3.8.11 ('ele')",
+   "language": "python",
+   "name": "python3"
   },
   "language_info": {
    "codemirror_mode": {
@@ -214,7 +215,12 @@
    "name": "python",
    "nbconvert_exporter": "python",
    "pygments_lexer": "ipython3",
-   "version": "3.7.9"
+   "version": "3.8.11"
+  },
+  "vscode": {
+   "interpreter": {
+    "hash": "61456c693db5d9aa6731701ec9a9b08ab88a172bee0780139a3679beb166da16"
+   }
   }
  },
  "nbformat": 4,

notebooks/02-workflow-structure-optional.ipynb

@@ -51,7 +51,6 @@
    "execution_count": null,
    "id": "693929a9",
    "metadata": {
-    "lines_to_next_cell": 2,
     "title": "Each module contains a schema object that enables interaction with the schema in the database."
    },
    "outputs": [],
@@ -73,7 +72,6 @@
    "execution_count": null,
    "id": "d0ee126a",
    "metadata": {
-    "lines_to_next_cell": 2,
     "title": "The table classes in the module corresponds to a table in the schema in the database."
    },
    "outputs": [],
@@ -98,9 +96,9 @@
     "title": "The first time importing the modules, empty schemas and tables will be created in the database."
    },
    "source": [
-    "# # + By importing the modules for the first time, the schemas and tables will be created inside the database.\n",
+    "# + By importing the modules for the first time, the schemas and tables will be created inside the database.\n",
     "\n",
-    "# # + Once created, importing modules will not create schemas and tables again, but the existing schemas/tables can be accessed and manipulated by the modules."
+    "# + Once created, importing modules will not create schemas and tables again, but the existing schemas/tables can be accessed and manipulated by the modules."
    ]
   },
   {
@@ -112,7 +110,7 @@
    "source": [
     "## DataJoint tools to explore schemas and tables\n",
     "\n",
-    "# # + `dj.list_schemas()`: list all schemas a user has access to in the current database"
+    "# + `dj.list_schemas()`: list all schemas a user has access to in the current database"
    ]
   },
   {
@@ -131,7 +129,6 @@
    "execution_count": null,
    "id": "687dbcb3",
    "metadata": {
-    "lines_to_next_cell": 2,
     "title": "`dj.Diagram()`: plot tables and dependencies in a schema."
    },
    "outputs": [],
@@ -217,7 +214,7 @@
     "title": "`heading`:"
    },
    "source": [
-    "# # + `describe()`: show table definition with foreign key references."
+    "# + `describe()`: show table definition with foreign key references."
    ]
   },
   {
@@ -234,7 +231,6 @@
    "execution_count": null,
    "id": "08837864",
    "metadata": {
-    "lines_to_next_cell": 2,
     "title": "`heading`: show attribute definitions regardless of foreign key references"
    },
    "outputs": [],
@@ -259,7 +255,7 @@
    "source": [
     "# DataJoint Elements installed in `workflow-miniscope`\n",
     "\n",
-    "# # + [`lab`](https://github.com/datajoint/element-lab): lab management related information, such as Lab, User, Project, Protocol, Source."
+    "# + [`lab`](https://github.com/datajoint/element-lab): lab management related information, such as Lab, User, Project, Protocol, Source."
    ]
   },
   {
@@ -322,7 +318,6 @@
    "execution_count": null,
    "id": "dc175fed",
    "metadata": {
-    "lines_to_next_cell": 2,
     "title": "[`miniscope`](https://github.com/datajoint/element-miniscope): miniscope raw recording and processed data"
    },
    "outputs": [],
@@ -354,7 +349,7 @@
  "metadata": {
   "jupytext": {
    "encoding": "# -*- coding: utf-8 -*-",
-   "formats": "ipynb,py_scripts//py",
+   "formats": "ipynb,scripts//py",
    "main_language": "python"
   },
   "kernelspec": {