Open OnDemand is an intuitive, innovative, and interactive interface to remote computing resources. The key benefit for SCINet users is that they can use any web browser, including browsers on a mobile phone, to access Ceres.
There are several interactive apps that can be run in Open OnDemand including Jupyter, RStudio Server, Geneious, CLC Genomics Workbench, and more. The desktop app allows a user to run any GUI software.
If you are using Atlas Open OnDemand, visit the Atlas Open OnDemand Guide for more information.
To access Open OnDemand on the Ceres cluster, go to Ceres OpenOndemand
Access
Follow the GUI login instructions to access.
Using OOD
Shell Access
To open a shell, select the Clusters dropdown menu and choose >_Ceres Shell Access. This will open a new tab with an interactive console session on the login node.
Files
Open OnDemand includes a file manager. To open it, select the Files dropdown menu and choose the desired directory. Files can be uploaded, downloaded, viewed, and edited all from the web browser.
Launching Interactive Apps
Several interactive apps are available on Open Ondemand, and more can be added later.
To launch an interactive app, select the Interactive Apps dropdown menu and choose the desired app. It will open the My Interactive Sessions page where settings for app can be selected such as the partition or app version to run.
After selections have been made, pressing Launch will submit an interactive job. This job will be displayed as the topmost entry in the My Interactive Sessions page. The bottom of the intaractive app’s job information card will display text saying the job is starting or, if it has already started, “Connect to Interactive App Name.” Press the Connect button to launch the app in a new tab.
Logging Out
To log out of Ceres Open OnDemand, click the Log Out button.
Using Clipboard to Copy/Paste Data
While Open OnDemand(OOD) v 3.0.x does do copy/paste with chrome browser, there is no official support for it. There is a very high likelihood that this “feature” will break due to it being unsupported on noVNC.
The only supported way to copy/paste on noVNC is via the clipboard feature. This will work regardless of the browser you are using.
Remote -> Local
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From a Desktop/CLC session, copy the contents you need
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In this example, I am copying the contents from a Desktop OOD session to a text editor on my local machine
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Select the text you need and right-click to Copy (as seen in image below)
- To sanitize the text prior to copying, you can use Mousepad text editor(Application -> Accessories -> Mousepad)
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Use Mousepad to copy all the text you need, this way you can copy the text in one step.
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From Mousepad, select the text, right-click and copy.
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noVNC has a control bar that includes a clipboard, to access it, click on the tab at the center on the left of the window.
- Click to tab to show and then select the clipboard icon.
- The clipboard will have the text in your buffer.
- The text from the noVNC clipboard is like any text in your browser, you can copy the text from here and then paste it in your local machine.
- For quick copy/paste you can have the clipboard open and then select the text you need and it will be instantly displayed in the clipboard buffer
Local Machine -> Remote
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Copy the text you need from your local machine and then paste into the noVNC clipboard
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Once in the clipboard buffer, it can be pasted into the text editor/application on the remote session.
Interactive Applications
These are some of the applications that are available on Open OnDemand:
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Jupyter
Jupyter is an Integrated Development Environment (IDE) that provides an interactive and collaborative environment for scientific computing. This interactive coding environment allows for immediate execution and visualization of code, facilitating on-the-fly data analysis and visualization. It supports over 40 programming languages (including Python, R, Julia, Java, and Scala) and seamlessly integrates with popular data science libraries.
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CLC Genomics Workbench
Before You Begin, email scinet_vrsc@USDA.GOV so that the admins can setup the import/export directories and permissions for access.