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  1. UGENE
  2. UGENE-1062

Type "D" of optional field while reading a BAM file

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    Details

    • Type: Bug
    • Status: Closed
    • Priority: Major
    • Resolution: Fixed
    • Affects Version/s: 1.11
    • Fix Version/s: 1.11.1, 1.12
    • Component/s: None
    • Labels:
    • Tests Type:
      Functional/Unit

      Description

      According to the specification http://samtools.sourceforge.net/SAM1.pdf (see "1.5 The alignment section: optional fields"), there are the following types of optional fields: 'A', 'i', 'f', 'Z', 'H' and 'B'. The last one 'B' is not parsed for some reason during reading of a BAM file (see function BamReader::AlignmentReader::read()).

      Therefore an error occurs, see http://ugene.unipro.ru/forum/YaBB.pl?num=1340703459/0#0.

      An automated test is required as soon as the issue is fixed!

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            Assignee:
            ggrekhov German Grekhov
            Reporter:
            oigl Olga Golosova
            Assigned Tester:
            Vladimir Malinovskiy
            Watchers:
            1 Start watching this issue

              Dates

              Created:
              Updated:
              Resolved: