QIIME with Jupyter notebook is now available as ready to use as a VICE app in DE. This is quicker and easier option instead of trying to do this via Atmosphere. If you need a highly customized version of QIIME then consider using the version in Atmosphere, else use QIIME via DE
Rationale and background:
Do not copy and paste the above line as it will not work since it is specific to my VM.
Part 2: Running QIIME-2 Jupyter notebook
Step 1. Copy/paste this URL into your browser when you connect for the first time. You should see something like this
Step 2. Click the New tab and then bash kernel to launch new Jupyter notebook page
Step 3. Now you can copy and paste the commands from the below notebook to run Qiime2 moving sample tutorial