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  1. Jalview
  2. JAL-3886

Pfam and Rfam alignment retrieval as gzipped stockholm doesn't work on JalviewJS build of 2.11.2

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    Details

    • Type: Bug
    • Status: Open
    • Priority: Blocker
    • Resolution: Unresolved
    • Affects Version/s: 2.11.2, 2.11.2.0, 2.11.2.1, 2.11.2.2, 2.11.2.3, 2.11.2.4
    • Fix Version/s: 2.11.2_js
    • Component/s: jalview-j2s
    • Labels:

      Description

      pfam and rfam gzipped stockholm fails with an exception:
      XFAM URL for retrieval is: https://pfam.xfam.org/family/PF03760/alignment/seed/gzipped
      java.io.IOException: This file is not in valid STOCKHOLM format: First line does not contain '# STOCKHOLM'
      anonymous.anonymous(Unknown Source)
      lost.missing(Unknown Source)

      Most likely the gzipped data handling mechanism has broken here.

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            Assignee:
            jprocter James Procter
            Reporter:
            jprocter James Procter
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              Dates

              Created:
              Updated: