Uploaded image for project: 'IGB'
  1. IGB
  2. IGBF-2863

Use UCSC JSON endpoint to get list of genomes for External View tab

        Details

          Description

          As revealed in IGBF-2855 by Omkar Marne's investigations, the External View functionality for the UCSC Genome Browser fails when the UCSC Distributed Annotation Data source is not active.

          This is because the code is using the internal data source object to retrieve a listing of UCSC genome names.

          However, there is a much better way to get these information. Instead, the External View code can query the UCSC JSON API to get this same information, in JSON format.

          This ticket provides a record of how we are doing this.

            Attachments

              Issue Links

              is blocked by

              Task - A task that needs to be done. IGBF-2855 Investigate activating UCSC DAS source from External View tab

              • Major - Major loss of function.
              • Closed
              relates to

              Task - A task that needs to be done. IGBF-2867 Disable UCSC DAS in igbdefaultprefs.json

              • Major - Major loss of function.
              • Closed

              Task - A task that needs to be done. IGBF-2869 Investigate adding UCSC JSON API as a new data provider

              • Major - Major loss of function.
              • Closed

              Task - A task that needs to be done. IGBF-3655 Replace DAS requirements in IGB and disable DAS by default

              • Major - Major loss of function.
              • To-Do

              Improvement - An improvement or enhancement to an existing feature or task. IGBF-2864 Improve External View error message displayed when no genome is selected

              • Major - Major loss of function.
              • Closed

                Activity

                  People

                  • Assignee:
                    ann.loraine Ann Loraine
                    Reporter:
                    ann.loraine Ann Loraine
                  • Votes:
                    0 Vote for this issue
                    Watchers:
                    3 Start watching this issue

                    Dates

                    • Created:
                      Updated:
                      Resolved: