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Viewing and Managing Data

The Discovery Environment allows you to access, view, and manage your files in the CyVerse Data Store. You can upload smaller files, but for large files or large number of files, we recommend faster methods such as Cyberduck. See the Cyberduck page in our Data Store Guide to get started with Cyberduck.



Preview a File and View Metadata in Discovery Environment

In the DE you can preview many file types include images and plain- or delimited-text files. The DE also allows you to associate your data with metadata.

  1. If necessary, login to the https://de.cyverse.org/de/.

  2. Click on Data to open the Data Window.

  3. View a sample fastq file; place the following path in the ‘Viewing’ field of the data window:

    “/iplant/home/shared/cyverse_training/platform_guides/discovery_envirornment/sample_fastq”

    viewing_window

  4. Preview sample.fastq by clicking on the file name.

Tip

You can preview even large files (like fastq files) in the Discovery Environment. Large files will be viewed across several pages. Delimited files (tab, comma, etc.) will be formatted and are sortable.

  1. Select sample.fastq and click on the Metadata menu and select Edit/View Metadata

    Tip

    You can apply one of several metadata templates to your datasets, or use your own. Applying metadata to your datasets makes them more easily searchable, and also prepares them for publication (e.g. to NCBI databases such as the Short Read Archive (SRA)).



Share a File/folder in Discovery Environment with Another CyVerse User

Share data with another CyVerse user by granting permission to read, write, or own files/folders

  1. If necessary, login to the https://de.cyverse.org/de/.

  2. In the Data window, select (checkbox) file(s), folder(s) you wish to share with another user; then under the Share menus select Share with Collaborators…

  3. In the “Manage Sharing” menu, under ‘Selected File(s)/Folder(s) the name of the files and folders you are currently sharing are displayed. Ensure the file you wish to share now is selected.

    manage_sharing

  4. In the ‘search for users’ field search for the CyVerse user you wish to share with by search for their name, or CyVerse username. You may also select ‘Choose from Collaborators’ which will bring up a list of people you have designated as collaborators.

  5. Next, under ‘Permissions’ choose what permission you want to grant the person you are sharing this file with.

  6. Once you are finished, click Done to begin sharing. The user will be notified that a file has been shared with them.

    Hint

    By managing access to data, the DE allows you to share large datasets instantaneously. Data permissions (based on UNIX permissions) are described in this chart:

    Permission level Read Download/Save Metadata Rename Move Delete
    Read X X View      
    Write X X Add/Edit      
    Own X X Add/Edit X X X

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