Search SRA Gateway User Manual

Gateway Access

• Create a gateway account at https://www.searchsra.org/. Use 'Create account'. Provide your details and you will receive an email for account verification.
• Click the link in the email received and confirm your email. Hint: The email sometimes tends to land on 'Junk email' or 'Trash'.
• When the gateway administrator grants access, you would receive a notification email.
• Log in to the gateway, You are ready to Search through the SRA!

Getting Started

• When logged in you would be on your home page, Workspace.
• You would see your application placeholders.
• Choose the one you want to use and click to navigate to the 'Create Experiment' page.
• To your right, you would see all your recent experiments.
• On the top-right menu, you will have
  • Workspace (you are there now)
  • Groups
  • Settings
• The left vertical menu is the child menu of what you select from the above, right-hand drop-down menu.
• Workspace has
  • Dashboard
  • Experiments
  • Projects
  • Storage
• What is an Experiment? - Experiment is the gateway record you create in order to launch a job in a remote cluster/supercomputer/HPC.

Save & Launch an Experiment

• To create a new Experiment from the Dashboard select your application.
• In Create Experiment default values are provided for the name.
  • Experiment Description (Optional)
  • Project (LOV) - Last used will be selected for you
  • Application (LOV)
  • Application configurations will have default set values with option to change.
  • Application Inputs (Mandatory)
• Save & Launch
• When providing Application inputs;
  • Fasta-Reference-File (Mandatory)
  • Select existing Search IDs File OR provide your own.
• After providing the files you could 'Save' the experiment for later submission. If saved you could edit the experiment prior to launching.
• Once launched, you could cancel the experiment, which will cancel the job running in the remote cluster.

Other Gateway Features

• Users can share their experiments with other gateway users or user groups. When sharing, you can decide on the level of access to grant.
  • Read Access
  • Write Access
• To create new experiments similar to an existing one, you can clone the experiment from Experiment Summary page.
• Users can create their own user groups to share research experiments, data files.
• Group Resource Profile of the user enables to user to use their own research allocation/logins for computations.