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LEARNING MATERIALS
Maintenance Notice for 23 July 2019

On Tuesday, July 23, CyVerse will be performing a Ceph storage upgrade from 11:00 AM to 5:00 PM MST. This is not expected to cause disruptions to the affected services. The services to be upgraded include:
- CyVerse authentication (CAS), which provides authentication to CyVerse web applications, e.g., the Discovery Environment and User Portal
- Atmosphere
- Any "Powered by CyVerse" systems or other hosted systems on Tombstone Cloud (please ask if you are unsure)
- Hosted Jupyter Notebooks on jupyter-notebook.cyverse.org

To view the maintenance times for your location: https://bit.ly/2xT1eo7

Please contact support@cyverse.org with any questions or concerns.

 

 

 

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titleUse QIIME available as VICE app in DE first.

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
You can learn more about using QIIME via VICE in DE here (tutorial and webinar)

 

Rationale and background:

...

Warning

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

Iframe
frameborder1
height1500
scrollingyes
alignmiddle
width1000
srchttps://nbviewer.jupyter.org/github/upendrak/qiime2_jupyter_notebook/blob/master/Qiime-2-Jupyter-notebook-Moving-pictures-Tutorial.ipynb