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  1. IGB
  2. IGBF-2101

Produce Graph Sym from BAI

        Details

        • Type: Task
        • Status: Closed (View Workflow)
        • Priority: Blocker
        • Resolution: Done
        • Affects Version/s: None
        • Fix Version/s: None
        • Labels:
          None
        • Story Points:
          4
        • Epic Link:
        • Sprint:
          Fall 6 : 28 Oct to 8 Nov, Fall 7 : 11 Nov to 22 Nov, Fall 8 : 25 Nov to 6 Dec

          Description

          Situation: The current implementation uses a workaround to produce a bedgraph file from the BAI file, then reads in the bedgraph file. The BAI file should instead produce a graph sym object to display in IGB.

          Task: Implement a change so that loading the BAI file produces a graph sym object in IGB, and does not output a bedgraph file. In IGB, there are methods for producing graph sym objects from bam files in Track Operations Depth Graph, so we might be able to use the same code.

            Attachments

              Issue Links

              blocks

              Task - A task that needs to be done. IGBF-2103 Load bai from URL

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

              Story - Created by JIRA Software - do not edit or delete. Issue type for a user story. IGBF-1920 Visualizing the index

              • Major - Major loss of function.
              • Closed

                Activity

                Ascending order - Click to sort in descending order
                nfreese Nowlan Freese created issue -
                nfreese Nowlan Freese made changes -
                Field Original Value New Value
                Epic Link IGBF-1919 [ 18010 ]
                nfreese Nowlan Freese made changes -
                Link This issue relates to IGBF-1920 [ IGBF-1920 ]
                nfreese Nowlan Freese made changes -
                Link This issue blocks IGBF-2103 [ IGBF-2103 ]
                nfreese Nowlan Freese made changes -
                Attachment pacBio.bam [ 14483 ]
                Attachment pacBio.bam.bai [ 14484 ]
                svallapu Sai Charan Reddy Vallapureddy (Inactive) made changes -
                Assignee Sai Charan Reddy Vallapureddy [ svallapu ]
                svallapu Sai Charan Reddy Vallapureddy (Inactive) made changes -
                Status To-Do [ 10305 ] In Progress [ 3 ]
                ann.loraine Ann Loraine made changes -
                Sprint Fall 6 : 28 Oct to 8 Nov [ 77 ] Fall 6 : 28 Oct to 8 Nov, Fall 7 : 11 Nov to 22 Nov [ 77, 78 ]
                ann.loraine Ann Loraine made changes -
                Rank Ranked higher
                ann.loraine Ann Loraine made changes -
                Sprint Fall 6 : 28 Oct to 8 Nov, Fall 7 : 11 Nov to 22 Nov [ 77, 78 ] Fall 6 : 28 Oct to 8 Nov, Fall 7 : 11 Nov to 22 Nov, Fall 8 : 25 Nov to 6 Dec [ 77, 78, 79 ]
                ann.loraine Ann Loraine made changes -
                Rank Ranked higher
                svallapu Sai Charan Reddy Vallapureddy (Inactive) made changes -
                Status In Progress [ 3 ] Needs 1st Level Review [ 10005 ]
                nfreese Nowlan Freese made changes -
                Status Needs 1st Level Review [ 10005 ] First Level Review in Progress [ 10301 ]
                nfreese Nowlan Freese made changes -
                Assignee Sai Charan Reddy Vallapureddy [ svallapu ] Nowlan Freese [ nfreese ]
                nfreese Nowlan Freese made changes -
                Status First Level Review in Progress [ 10301 ] Ready for Pull Request [ 10304 ]
                nfreese Nowlan Freese made changes -
                Assignee Nowlan Freese [ nfreese ] Sai Charan Reddy Vallapureddy [ svallapu ]
                svallapu Sai Charan Reddy Vallapureddy (Inactive) made changes -
                Status Ready for Pull Request [ 10304 ] Pull Request Submitted [ 10101 ]
                nfreese Nowlan Freese made changes -
                Status Pull Request Submitted [ 10101 ] Reviewing Pull Request [ 10303 ]
                nfreese Nowlan Freese made changes -
                Status Reviewing Pull Request [ 10303 ] Merged Needs Testing [ 10002 ]
                nfreese Nowlan Freese made changes -
                Status Merged Needs Testing [ 10002 ] Post-merge Testing In Progress [ 10003 ]
                nfreese Nowlan Freese made changes -
                Assignee Sai Charan Reddy Vallapureddy [ svallapu ] Nowlan Freese [ nfreese ]
                nfreese Nowlan Freese made changes -
                Attachment HG002.GRCh38.2x250.bam.bai [ 14546 ]
                nfreese Nowlan Freese made changes -
                Resolution Done [ 10000 ]
                Status Post-merge Testing In Progress [ 10003 ] Closed [ 6 ]
                nfreese Nowlan Freese made changes -
                Assignee Nowlan Freese [ nfreese ] Sai Charan Reddy Vallapureddy [ svallapu ]

                  People

                  • Assignee:
                    svallapu Sai Charan Reddy Vallapureddy (Inactive)
                    Reporter:
                    nfreese Nowlan Freese
                  • Votes:
                    0 Vote for this issue
                    Watchers:
                    3 Start watching this issue

                    Dates

                    • Created:
                      Updated:
                      Resolved: