README.md

@@ -104,7 +104,7 @@ Here are some things to try.
 
 Once installed as described above, type
 
-    $ source venv/3.7/bin/activate
+    $ source venv/3.10/bin/activate
     $ jupyter notebook --notebook-dir notebooks/
 
 The following jupyter extensions are recommended but not required
@@ -119,6 +119,15 @@ The following jupyter extensions are recommended but not required
 
 We have created a public [`VRS-demo-notebooks`](https://app.terra.bio/#workspaces/terra-outreach/VRS-demo-notebooks) workspace in Terra that contains the demo notebooks along with instructions for running them with minimal setup. To get started, see either the [`VRS-demo-notebooks`](https://app.terra.bio/#workspaces/terra-outreach/VRS-demo-notebooks) workspace or the [`Terra.ipynb`](notebooks/Terra.ipynb) notebook in this repository.
 
+## Running the Notebooks with VS Code
+
+[VS Code](https://code.visualstudio.com/) is a code editor developed by Microsoft. It is lightweight, highly customizable, and supports a wide range of programming languages, with a robust extension system. You can download VS Code [here](https://code.visualstudio.com/Download).
+
+**1. Open VS Code**: Launch Visual Studio Code.
+**2. Install the Jupyter Extension**: Use Extensions view (Ctrl+Shift+X or ⌘+Shift+X) to install the [Jupyter extension](https://marketplace.visualstudio.com/items?itemName=ms-toolsai.jupyter).
+**3. Open the Project in VS Code**: Navigate to your project folder and open it in VS Code.
+**4. Select the Jupyter Kernel**: In a notebook, click `Select Kernel` at the top right. Select the option where the path is `venv/3.10/bin/python3`. See [here](https://code.visualstudio.com/docs/datascience/jupyter-kernel-management) for more information on managing Jupyter Kernels in VS Code.
+**5. Run the Notebook**: After selecting the kernel you can now run the notebook.
 
 # Development
 

docker-compose.yml

@@ -17,12 +17,12 @@ services:
     network_mode: bridge
     ports:
       - 5000:5000
-  
+
   uta:
     # Test:
-    # psql -XAt postgres://anonymous@localhost/uta -c 'select count(*) from transcript'
-    # 249909
-    image: biocommons/uta:uta_20180821
+    # psql -XAt postgres://anonymous@localhost/uta -c 'select count(*) from uta_20210129b.transcript'
+    # 314227
+    image: biocommons/uta:uta_20210129b
     volumes:
       - uta_vol:/var/lib/postgresql/data
     ports:

notebooks/PGx.ipynb

@@ -23,7 +23,7 @@
    "source": [
     "## Imports and Configuration\n",
     "\n",
-    "**NOTE:** A dynamic, web-based version of VRS-Python may be loaded through [mybinder.org](https://mybinder.org/v2/gh/ga4gh/vrs-python/pgxhttps://mybinder.org/v2/gh/ga4gh/vrs-python/pgx) where this notebook may be run without any local installation. Steps:\n",
+    "**NOTE:** A dynamic, web-based version of VRS-Python may be loaded through [mybinder.org](https://mybinder.org/v2/gh/ga4gh/vrs-python/pgx) where this notebook may be run without any local installation. Steps:\n",
     "1. Navigate to the [VRS-Python mybinder.org build](https://mybinder.org/v2/gh/ga4gh/vrs-python/pgx)\n",
     "2. Once the Binder build is completed, navigate to notebooks/PGx.ipynb\n",
     "3. Under kernel, select `VRS_kernel`"