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  1. UGENE
  2. UGENE-632

Can't import BAM file (NA12878.chrom1)

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    Details

    • Type: Bug
    • Status: Closed
    • Priority: Critical
    • Resolution: Cannot Reproduce
    • Affects Version/s: 1.9.7
    • Fix Version/s: 1.12
    • Component/s: NGS
    • Labels:
    • Affect Type:
      Userdefined

      Description

      When I import the "NA12878.chrom1.LS454.ssaha2.CEU.high_coverage.20100311.bam" (from 1000 Genomes), an error occurs:

      "[ERROR][19:02] Subtask

      {Adding document to project: NA12878.chrom1.LS454.ssaha2.CEU.high_coverage.20100311.bam}

      is failed: Subtask

      {BAM/SAM file import: NA12878.chrom1.LS454.ssaha2.CEU.high_coverage.20100311.bam}

      is failed: Subtask

      {Convert BAM to UGENE database (NA12878.chrom1.LS454.ssaha2.CEU.high_coverage.20100311.bam.ugenedb)}

      is failed: Unexpected end of fileDocument was removed"

      All contigs were selected in the import dialog. The error occurs at the end of the import. It shows "100%" of the task completed for some time and then the task completes with the error.

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            Assignee:
            ggrekhov German Grekhov
            Reporter:
            oigl Olga Golosova
            Assigned Tester:
            Ivan Protsyuk
            Watchers:
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              Dates

              Created:
              Updated:
              Resolved: