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  1. Jalview
  2. JAL-397

PDBresnum das source: pdb id strings cannot be used to verify against source

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    • Mantis ID:
      54560

      Description


      The pdbresum source takes ids like :
      1SKY and 1SKY.B

      We should be able to verify the following sequence against the DAS source and update the start/end :

      >1sky.B
      DTIINQKDQNMICIYVAIGQKESTVATVVETLAKHGAPDYTIVVTASASQPAPLLFLAPY

      The following exception is raised when the fetch dbrefs->PDBresnum entry is selected:
      INFO: requesting sequence from http://das.sanger.ac.uk/das/biojavapdbuniprot/sequence?segment=1SKY.B
      Exception in thread "Thread-67" java.lang.NullPointerException
      at jalview.ws.DBRefFetcher.transferReferences(DBRefFetcher.java:503)
      at jalview.ws.DBRefFetcher.run(DBRefFetcher.java:372)
      at java.lang.Thread.run(Unknown Source)

      retrievals work as normal.

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            Assignee:
            jprocter James Procter
            Reporter:
            jprocter James Procter
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              Dates

              Created:
              Updated: