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  1. Jalview
  2. JAL-1067

implement parser for T-COFFEE score file associated with an alignment

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    Details

    • Type: Task
    • Status: Resolved
    • Priority: Major
    • Resolution: Fixed
    • Affects Version/s: 2.7
    • Fix Version/s: 2.8
    • Labels:
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      Description

      A new parser to import scores from a T-COFFEE file as per-sequence Alignment annotation rows. This parser should by default mark the imported rows as 'hidden' to ensure they don't get displayed below the alignment.

      The architecture of the parser should follow the jalview.io model (ie extend from the jalview.io.FileParse) framework so that it can be used by the applet and application. At the very least, it should implement a method like jalview.io.AlignmentAnnotationFile.parseAnnotationFrom(AlignmentI, Reader) so it can be called in the same way by jalview.

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              Assignee:
              paolodt paolo di tommaso
              Reporter:
              jprocter Jim Procter
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