1. Prerequisites
- You should be a member of NCI project "dk92"
- Make a copy of the NCI Data Analysis Example Notebooks in one of your working directories
- Some notebooks will require you to access specific dataset projects. The data projects you will need to join are detailed in each notebook.
2. Start a JupyterLab session
You can start a JupyterLab session from NCI ARE platform.
2.1 JupyterLab on the NCI ARE
Follow our JupyterLab User Guide to launch a JupyterLab session at ARE. Please note the ARE JupyterLab session utilises Gadi resources. You will need to
- Choose the appropriate compute resources
- Click "advanced options" and
- Type in "/g/data/dk92/apps/Modules/modulefiles" in the "Module directories" box.
- Type in "NCI-data-analysis/2023.02" in the "Modules" box.
- Click the "Launch" button to start a JupyterLab session.
3. Start a Python Notebook
In the "Launch" interface, you can click "Python" button under Notebook catalogue to start a Python notebook.
Or, you can click "Python" button under Console catalogue to start a Python console.
4. Run the NCI data analysis example
Navigate to the working directory in your JupyterLab session and open a notebook from the NCI Data Analysis Example Notebooks.
Please note you need to invoke different APIs to set up a dynamic Dask cluster within your notebook at ARE. Please check here for more details.
You can monitor your Dask cluster activities by following the Dask-JupyterLab extension documentation.