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  1. Jalview
  2. JAL-1841

RNA structure consensus is only calculated for base pairs marked with (), and counts are buggy

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    Details

    • Type: Bug
    • Status: Closed
    • Priority: Major
    • Resolution: Fixed
    • Affects Version/s: 2.8.2, 2.9
    • Fix Version/s: 2.10.0
    • Component/s: jvdesktop, jvlite, na
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      Description

      Import some RNA and manually create base pairs by adding an annotation row and right clicking a region, and set the symbol to be either '<' or '>'.

      Jalview will show arrows for these regions, but once the structure consensus row has been created (currently via creating a new view - see JAL-1577), no base pair logo will be shown, even though the Helix colouring will highlight these regions as paired. Conversely, importing a file with base pairs marked in this way works fine - Jalview translates them to an internal representation that is recognised by the calculation routine.

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              Assignee:
              gmungoc Mungo Carstairs
              Reporter:
              jprocter Jim Procter
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                Updated:
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