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For overview information, see Discovery Environment on the CyVerse website.

DISCOVERY ENVIRONMENT USER MANUAL

Maintenance: Tues, 28 Jan 2020

ACCESS TO OR USAGE OF THE FOLLOWING SERVICES WILL BE UNAVAILABLE OR DISRUPTED:

Discovery Environment         8:00am to 5:00pm MST
The Discovery Environment will be unavailable while patches and updates are applied.
        ** Currently running analyses will be terminated. Please plan accordingly.

Data Store                    8:00am to 5:00pm MST
The Data Store will be unavailable during the maintenance period.
 
Data Commons                  8:00am to 5:00pm MST
The Data Commons will be unavailable during the maintenance period.
 
Atmosphere and Cloud Services 8:00am to 5:00pm MST
Marana Cloud: Atmosphere instances in the Marana Cloud will be operational; however, you will not be able to use the Data Store within your instance, and you may not be able to access the Atmosphere web interface.
 
User Portal                   8:00am to 5:00pm MST
The User Portal, http://user.cyverse.org, will be unavailable while we perform maintenance and updates.
 
Agave/Science API             8:00am to 5:00pm MST
The Agave/Science API will be unavailable during this maintenance period.
 
DNA Subway                    8:00am to 5:00pm MST
DNA Subway will be unavailable during this maintenance period.
 
The following services will NOT be affected by the maintenance: CyVerse Wiki and JIRA

Keep up to date with our maintenance schedules on the CyVerse public calendar
http://www.cyverse.org/maintenance-calendar
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Using the Apps window and submitting an analysis

This section includes:

The root page DEmanual:@self could not be found in space Discovery Environment Manual.

An app is the mechanism you use to submit an analysis.

 What's an app? tool? analysis?
  • App: Interface of a tool that has been configured and made available for use in the DE. The same tool can be used in more than one app, and may also be created by different integrators with different intents and interfaces.
  • Tool: Software program (executable binary or executable) that is installed on a server and integrated into the back end of the DE for use in DE apps.
  • Analysis: Detailed examination of data performed in the DE by selecting one or more apps to perform a desired task for the purpose of discussion or interpretation.

Within the Apps window, you open the app to use for your analysis, and then select the file or files to use, define the settings as needed, and launch the analysis. As the analysis proceeds through the job, you receive updates about its progress. Once the analysis is completed, you retrieve and analysis the results.

Click Apps to open the Apps window.

Folders and files navigation and list

The Category section on the left shows the app categories, divided into two major sections:

  • Workspace apps: These apps are available only to you and include the apps you are currently working on (Apps under development), your list of favorite apps, and the list of apps you have submitted for public use. Select a category in this pane to display its contents in the right pane.
    • Apps under development are the apps and workflows you are in the process of creating and editing and have not yet been shared.
    • Favorite Apps are the apps you frequently use.
    • My public apps are the apps and workflows you have shared with the public.
  • Public Apps and High-Performance Computing: The right section shows the selected path to the folders and files available in the current category, the integrator's name, and any ratings entered by other users. Select the app to use for your analysis from this section. New for the 1.8.7 release, the selected folder is displayed above the right pane.
    To view information about the app or tool, click to the left of the app name. If the app name is displayed in red font color or in the Archive category, the app is unavailable and cannot be used:

Apps and Workflows

At the top of the Apps window are the menus for managing apps and workflows:

Apps search

Enter part of an app name to find the App to use.

Window icons

At the top right of each window are the window icons.

Customizing the Apps window

You can sort on any column in the Apps list, and hide or show columns to customize the look of your list.

  1. Hover over any column header in the list until a down arrow appears on the right side of the column:
  2. Click the down arrow:

    • To sort on the column, click either Sort Ascending or Sort Descending.
    • To hide or show a column, point to Columns, and then select or clear the checkbox for the column.
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