Before uploading a file to the CSSI DCC portal, consult the ISA-Tab specification . This specification describes how to structure your investigation data to create an Investigation-Study-Assay tab-delimited (ISA-Tab) archive file. This may involve configuring it using open-source software made for this purpose.

ISA-Tab files that you upload must be in .zip format. Use Globus to upload files larger than 100 GB.

To upload ISA-Tab files

1. Log in to the CSSI DCC Portal.

2. Select Investigations > Upload. The Upload ISA Archives page appears.
   
   
   

   If your user account has a role with the Upload Files, Group Owner, and Manage Multi Upload permissions, additional tabs are visible on this page. This section describes how to use only the Upload Single ISA Archive tabs. Instructions for the remaining tabs will be available in the CSSI DCC Portal Administrator's Guide.

3. Enter a unique name for your new folder. Note that this name can differ from the title within the ISA-Tab archive file.

4. Click Create. The folder name you specified appears in the list of folders at the top of the page, and the File Upload section appears, with the new folder name above it.
   
   

5. If the File Upload section of the page is not visible, click Open in the row for the folder of interest to show it.

    
   
   

6. Select the ISA-TAB archive file you want to upload to this folder 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  

   When the system finishes processing the upload request, the uploaded file appears as a new folder in the list of folders at the top of the page. At this point, the new folder contains only one investigation version. Consider making this version open access so that the general public can use it in CSSI DCC. For instructions on previewing it and making it open access, refer to Making an Investigation Open Access.
   
    
   
   

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

   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 investigation folder, which means that the data can be recovered, if necessary. (The concept known as a folder in the DCC portal home is known as a project in the Admin Dashboard.) For information, refer to Tentatively Deleting an Investigation Project.