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  1. Jalview
  2. JAL-1803

PDB chain id not saved in Jalview project

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    Details

    • Type: Improvement
    • Status: Closed
    • Priority: Critical
    • Resolution: Fixed
    • Affects Version/s: 2.8.2, 2.9.0b2
    • Fix Version/s: 2.10.0
    • Component/s: Structures
    • Labels:
      None

      Description

      jalview.xsd type pdbentry has attributes for id, type, file but not for chainId.
      Hence this is not restored when the project is reloaded.
      Noticed while making assertions in unit test for Chimera save/restore session.

      Not sure of the impact if any.
      The fix, if needed, would be to add a new optional attribute for chainId in the schema, write/read this where the other PDBEntry properties are processed.

        Attachments

          Issue Links

          blocks

          Bug - A problem which impairs or prevents the functions of the product. JAL-2157 Cannot import PDB 4uj3

          • Major - Major loss of function.
          • Resolved

          New Feature - A new feature of the product, which has yet to be developed. JAL-1479 PDB<->Uniprot mappings from SIFTS

          • Critical - Crashes, loss of data, severe memory leak.
          • Closed
          depends on

          Improvement - An improvement or enhancement to an existing feature or task. JAL-2194 resolve PDBEntry and DBRefs from older jalviews with PDB IDs with appended chaincode

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

          Story - Created by Jira Software - do not edit or delete. Issue type for a user story. JAL-2040 Import homology models for a target/template alignment

          • Major - Major loss of function.
          • Open

          New Feature - A new feature of the product, which has yet to be developed. JAL-674 display secondary structure of known structures on alignment

          • Major - Major loss of function.
          • Closed

          Improvement - An improvement or enhancement to an existing feature or task. JAL-1711 allow PDB chain code to be specified when entering a specific PDB ID for a sequence

          • Major - Major loss of function.
          • Closed

          Task - A task that needs to be done. JAL-2196 Better encapsulation of PDBEntry properties

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

            Activity

              People

              Assignee:
              jprocter James Procter
              Reporter:
              gmungoc Mungo Carstairs
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                Dates

                Created:
                Updated:
                Resolved: