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  1. Jalview
  2. JAL-2025

Error when querying PDB Service with sequence name containing special characters

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    Details

    • Type: Bug
    • Status: Closed
    • Priority: Major
    • Resolution: Fixed
    • Affects Version/s: None
    • Fix Version/s: 2.10.0
    • Component/s: None
    • Labels:

      Description

      Jalview uses the following algorithm to retrieve PDB structures for a given sequence:
         - Search for structures with PDBEntry ref if available
         - Else search for structures with DbRefEntries for UniProt or PDB
         - Finally if the above two steps is unsuccessful then search for structures using the sequence name
      If the code execution reaches the third execution path above, and the sequence name contains special characters which conflicts with Apache Solr language then an exception is raised.

      This bug was reported by @Stuart MacGowan.

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            Assignee:
            tcnofoegbu Tochukwu Charles N Ofoegbu
            Reporter:
            tcnofoegbu Tochukwu Charles N Ofoegbu
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              Updated:
              Resolved: