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  1. IGB
  2. IGBF-2638

Test Operators - Annotation Tracks - Linux

        Details

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

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            relates to

            Task - A task that needs to be done. IGBF-2657 Investigate Find Junctions when deletion present

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

            Task - A task that needs to be done. IGBF-2636 Test Operators - Annotation Tracks - MacOS

            • Major - Major loss of function.
            • Closed

            Task - A task that needs to be done. IGBF-2637 Test Operators - Annotation Tracks - Windows

            • Major - Major loss of function.
            • Closed

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              nfreese Nowlan Freese added a comment - - edited

              There is an issue observable when testing the Find Junctions and Find Junctions Tophat. In the example data on the left side there is an oddly shaped find junction with a value of 1. This is in fact not a "junction" but a deletion. However, following the introduction of soft-clips deletions are shown as breaks in the read, similar to a junction but coded differently in the cigar string. However, it appears that find junctions is counting deletions as junctions. This behavior will need to be corrected.

              Note that this issue is not specific to 9.1.6

              No other issues found.

              Tested on Linux Fedora 27 GNOME 3.26.2

              Show
              nfreese Nowlan Freese added a comment - - edited There is an issue observable when testing the Find Junctions and Find Junctions Tophat. In the example data on the left side there is an oddly shaped find junction with a value of 1. This is in fact not a "junction" but a deletion. However, following the introduction of soft-clips deletions are shown as breaks in the read, similar to a junction but coded differently in the cigar string. However, it appears that find junctions is counting deletions as junctions. This behavior will need to be corrected. Note that this issue is not specific to 9.1.6 No other issues found. Tested on Linux Fedora 27 GNOME 3.26.2
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              ssegu Sai Supreeth Segu (Inactive) added a comment -

              Everything looks good. Moving to closed

              Show
              ssegu Sai Supreeth Segu (Inactive) added a comment - Everything looks good. Moving to closed

                People

                • Assignee:
                  nfreese Nowlan Freese
                  Reporter:
                  ann.loraine Ann Loraine
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                  • Created:
                    Updated:
                    Resolved: