Uploaded image for project: 'IGB'
  1. IGB
  2. IGBF-2066

Define CyVerse REST calls to be handled by IGB REST endpoint(s)

        Details

        • Type: Task
        • Status: Closed (View Workflow)
        • Priority: Major
        • Resolution: Done
        • Affects Version/s: None
        • Fix Version/s: None
        • Labels:
          None

          Description

          Situation: IGBF-1635 task is to refactor how IGB endpoints work. To better understand what changes are needed in refactoring the endpoints, we need to understand what REST calls CyVerse-IGB will be making.

          Task: Define all of the possible CyVerse REST calls that will need to be handled by the IGB REST endpoints. These will primarily include receiving the URL to the file and any metadata (genome and track colors), and may also involve seeing if IGB is currently open and what genomes are available.

            Attachments

              Issue Links

              relates to

              Task - A task that needs to be done. IGBF-1799 Integrate View in IGB UI with REST apis

              • Major - Major loss of function.
              • Closed

              Improvement - An improvement or enhancement to an existing feature or task. IGBF-1635 Develop a strategy to refactor REST endpoint code used by Galaxy/BAR/CyVerse (maybe AppStore)

              • Major - Major loss of function.
              • Closed

                Activity

                Ascending order - Click to sort in descending order
                Hide
                Permalink
                nfreese Nowlan Freese added a comment -

                IGB REST endpoints that are required for BioViz-CyVerse to work correctly:
                -Check to see if IGB is running (this already exists)
                -Send data URL to IGB (exists in bookmarks with a hook for CyVerse)
                -Send genome info to IGB to load specified genome version (exists in bookmarks as version). Has not been implemented for CyVerse (in the current CyVerse workaround, if a genome is already loaded it loads the data in that genome, if no genome is selected it loads the data as a custom genome.
                -Send foreground track color to IGB (exists in bookmarks as sym_col)
                -Send background track color to IGB (exists in bookmarks as sym_bg)

                Show
                nfreese Nowlan Freese added a comment - IGB REST endpoints that are required for BioViz-CyVerse to work correctly: -Check to see if IGB is running (this already exists) -Send data URL to IGB (exists in bookmarks with a hook for CyVerse) -Send genome info to IGB to load specified genome version (exists in bookmarks as version). Has not been implemented for CyVerse (in the current CyVerse workaround, if a genome is already loaded it loads the data in that genome, if no genome is selected it loads the data as a custom genome. -Send foreground track color to IGB (exists in bookmarks as sym_col) -Send background track color to IGB (exists in bookmarks as sym_bg)
                Hide
                Permalink
                nfreese Nowlan Freese added a comment -

                Moving to needs review and assigning to Srishti.

                Show
                nfreese Nowlan Freese added a comment - Moving to needs review and assigning to Srishti.
                Hide
                Permalink
                nfreese Nowlan Freese added a comment -

                Srishti and I discussed the various REST endpoints needed for CyVerse. Another ticket will be created for implementing the various CyVerse endpoints.

                Moving this issue to closed.

                Show
                nfreese Nowlan Freese added a comment - Srishti and I discussed the various REST endpoints needed for CyVerse. Another ticket will be created for implementing the various CyVerse endpoints. Moving this issue to closed.
                Hide
                Permalink
                nfreese Nowlan Freese added a comment -

                An additional IGB REST endpoint that could be useful:
                -Return list of file types/extensions that IGB accepts.

                Show
                nfreese Nowlan Freese added a comment - An additional IGB REST endpoint that could be useful: -Return list of file types/extensions that IGB accepts.

                  People

                  • Assignee:
                    nfreese Nowlan Freese
                    Reporter:
                    nfreese Nowlan Freese
                  • Votes:
                    0 Vote for this issue
                    Watchers:
                    1 Start watching this issue

                    Dates

                    • Created:
                      Updated:
                      Resolved: