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  1. Jalview
  2. JAL-1665

Refactor Sequence.getSequenceFeatures to handle either applet or desktop model

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    Details

    • Type: Task
    • Status: Closed
    • Priority: Major
    • Resolution: Fixed
    • Affects Version/s: None
    • Fix Version/s: 2.9
    • Component/s: None
    • Labels:
      None
    • Environment:
      GUI, Desktop

      Description

      Modify Sequence.getSequenceFeatures() to look on either the sequence or its dataset sequence.
      (Applet stores sequence features on the sequence, Desktop on the dataset sequence.)
      This will allow dataset sequences to be created in the applet (to support cDNA/protein mapping) without breaking sequence feature handling.
      NB: Alignment.createDataset(null) creates dataset sequences and also moves sequence features, DBRefIds and PDBIds from the sequence to the dataset sequence.
      Affected use cases, and tests wanted, to be attached.

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          related with

          Bug - A problem which impairs or prevents the functions of the product. JAL-2003 Export features should act on the alignment sequences, not the alignment dataset

          • Minor - Minor loss of function, or other problem where easy workaround is present.
          • Closed

          Bug - A problem which impairs or prevents the functions of the product. JAL-2046 DBRefs and features are duplicated after Sequence.deriveSequence

          • Major - Major loss of function.
          • Closed

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              Assignee:
              gmungoc Mungo Carstairs
              Reporter:
              gmungoc Mungo Carstairs
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                Dates

                Created:
                Updated:
                Resolved: