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Only users who have registered for and logged in to the CSSI DCC Portal can upload investigation data. During registration, you must also select the I would like to upload Investigation data checkbox and be approved. For more information, refer to Registering to Use the CSSI DCC Portal. If you need an administrator to delete an investigation version from a project, click the Contact Us link at the bottom of the screen.

Uploading ISA-Tab Files

Before uploading a file to the CSSI DCC portal, consult the ISA-Tab specification

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1. Log in to the CSSI DCC Portal.
2. Select Investigations > Upload.
   The Upload ISA TAB Files page appears.
   

3. Click New Project.
   The Project Properties page appears.

   Info
   A project is simply a container for the ISA-Tab file. It allows you to track multiple versions of ISA-Tab file uploads to this project. It is a best practice for each investigation to have its own project.

   
   
   

4. Enter a unique title for your new project. Note that this title and that of the ISA-Tab file that the project contains can be different.

5. Click Save Project.
   The new project is listed under Investigation Projects.
   

   Info
   If the File Upload section of the page is not visible, click Open next to the project name to show it.

   
    

6. Select the file you want to upload to this project in one of the following ways:

   • Drag and drop the ISA-Tab archive file from your computer to the Drop your files here box surrounded by the dashed lines:
     

   • Click the Drop your files here box image and browse to where the file is stored.
     The file is listed in the File Upload area and the status is listed as Ready.

7. If the file is 100 GB or smaller, click Upload selected files. If the file is larger than 100 GB, use Globus instead. 

   The file begins processing and the status moves through the following stages:

   • Uploading
   • Processing Queued    
   • Queued
   • Preparing uploaded files
   • Parsing ISA TAB Metadata    
   • Preparing Data Files    
   • Validating assay files and file sizes    
   • File processed successfully    

   • Success: file processed successfully  

   Once an administrator approves the upload request, the uploaded file appears as a new project version in the Investigation Projects section of the page. It is not yet published, so you must now publish it to use it in CSSI DCC. For instructions on previewing and publishing it, refer to Publishing ISA-Tab Files to the CSSI DCC Portal.
   
   
   

   If needed now or later, click Edit to change the project name. 
   
   

   Show If
   group GP-CFW_DES_DEV
   Info icon false title Note Visible to GP-CFW_DES_DEV Users Only If your user account has a role with the Upload Files permission and Manage Investigations permission, a Delete button is available next to the Edit button. This button performs a "soft" delete of the project, which means that the data can be recovered, if necessary. For information, refer to Tentatively Deleting an Investigation Project.

Uploading Large Files with Globus

Globus is a service that enables large file transfers securely. You must have an account with Globus before you use it to upload investigation files to CSSI DCC. If you do not already have an account, you are prompted to create one when you start the upload process.

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1. Begin uploading your ISA-Tab file by creating a project in CSSI DCC and selecting a file. For more information on this process, go to Uploading ISA-Tab Files.

2. On the Upload ISA TAB Files page, click .
   If you have not yet logged into Globus, a log in page appears.
   
   

   Info
   title Globus Documentation and Support
   For more information about using Globus, consult their documentation Multiexcerpt include MultiExcerptName ExitDisclaimer nopanel true PageWithExcerpt wikicontent:Exit Disclaimer to Include and/or support Multiexcerpt include MultiExcerptName ExitDisclaimer nopanel true PageWithExcerpt wikicontent:Exit Disclaimer to Include .

   After you successfully log in, the Globus Transfer Files page appears. One of the Endpoints you configured is already populated, though you can change it.
   
   

3. Select the starting endpoint (on the left) where the file(s) you want to upload reside(s). Narrow down to the path if necessary. 
   

4. Confirm or change the destination endpoint (on the right).
   

5. Click the right arrow button that points to the destination to begin the transfer request. A message briefly appears on the screen when the transfer request is submitted successfully. When the transfer succeeds, Globus sends a notification email message.
   
   
   

6. To view the resulting list of files in the destination endpoint, click refresh list on the right.
   
   Once an administrator approves the upload request, the uploaded, not-yet-published file appears as a new project version in the Investigation Projects section of the page.
   

7. Since you have not yet published the uploaded file, you must publish it to use it in CSSI DCC. For instructions on previewing and publishing it, refer to Publishing ISA-Tab Files to the CSSI DCC Portal.
   
   

Understanding Upload Errors

Controlling Access to Investigation Data

Publishing ISA-Tab Files to the CSSI DCC Portal

Editing or Removing the Embargo Date for an Investigation

Viewing Publish History

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