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  1. Jalview
  2. JAL-2175

Pfam roundtrip adds spaces to sequence

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    Details

    • Type: Bug
    • Status: Closed
    • Priority: Major
    • Resolution: Fixed
    • Affects Version/s: 2.9.0b2
    • Fix Version/s: 2.10.0
    • Component/s: jvdesktop, jvlite
    • Labels:
      None

      Description

      Load uniref50.fa, output as PFAM to textbox, new window - most sequences have acquired leading spaces.

      Also behind the failure of RNAStructExportImport.testRNAStructExport().

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          Issue Links

          related with

          Epic - Created by Jira Software - do not edit or delete. Issue type for a big user story that needs to be broken down. JAL-1867 Tests to validate files generated by Jalview

          • Blocker - Blocks development and/or testing work, production could not run.
          • Open

          Bug - A problem which impairs or prevents the functions of the product. JAL-1954 cannot import pfam format files with tab separators

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

          Bug - A problem which impairs or prevents the functions of the product. JAL-2221 Pfam format parser will strip leading spaces from sequences where space is used as a gap character

          • Trivial - Cosmetic problem like misspelt words or misaligned text.
          • Open

            Activity

              People

              Assignee:
              jprocter James Procter
              Reporter:
              gmungoc Mungo Carstairs
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                Dates

                Created:
                Updated:
                Resolved: