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  1. Jalview
  2. JAL-2187

Test Jalview 2.10 with DockeRNA docker based RNA services

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    Details

    • Type: Task
    • Status: Open
    • Priority: Major
    • Resolution: Unresolved
    • Affects Version/s: None
    • Fix Version/s: None
    • Component/s: None
    • Labels:
      None

      Description

      Jalview relies on RNAview to process RNA data from PDB files. Fabrice Jossinet has made it possible to run local installs of the service, and we should:
      1. check that Jalview is compatible with the locally installable system.
      2. if #1 - raise enhancements to allow users to configure their own RNA processing services.
      3. if #1 - roll out a dedicated service for Jalview users to avoid stressing Assemble2's public services.

      Details on installing DockeRNA are at: https://assemble2.wordpress.com/2016/07/20/assemble2-meets-docker/

        Attachments

          Issue Links

          blocks

          Bug - A problem which impairs or prevents the functions of the product. JAL-1142 fix up RNAML and PDB parsing to cope with nucleic acids as ligands

          • Critical - Crashes, loss of data, severe memory leak.
          • Open

          Bug - A problem which impairs or prevents the functions of the product. JAL-1941 Exception when retrieving RnaView RNA secondary structure

          • Critical - Crashes, loss of data, severe memory leak.
          • In Progress

          Improvement - An improvement or enhancement to an existing feature or task. JAL-1214 use pdb ID code in place of datafile when processing structure with Annotate3d service

          • Major - Major loss of function.
          • Open
          related with

          Improvement - An improvement or enhancement to an existing feature or task. JAL-2198 support extended base-pair annotation in Jalview and linked VARNA view

          • Major - Major loss of function.
          • Open

            Activity

              People

              Assignee:
              jprocter James Procter
              Reporter:
              jprocter James Procter
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                Dates

                Created:
                Updated: