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  1. UGENE
  2. UGENE-5194

BWA and BWA MEM can't process several files with reads

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    Details

    • Type: Bug
    • Status: Closed
    • Priority: Major
    • Resolution: Fixed
    • Affects Version/s: 1.21
    • Fix Version/s: 1.25
    • Component/s: NGS, Workflow
    • Labels:
    • Story Points:
      1
    • Tests Type:
      Functional/Unit
    • Sprint:
      DEV-23-1, DEV-24-2, DEV-25-1
    • Affect Type:
      Userdefined

      Description

      1. Tools -> NGS data analysis -> Map reads to reference.
      2. Choose BWA or BWA MEM.
      3. Reference: _common_data/bwa/index1/ecoli.fa.amb.
      4. Reads:
        • _common_data\e_coli\e_coli_reads/e_coli_1_1.fastq
        • _common_data\e_coli\e_coli_reads/e_coli_1_2.fastq
      5. Click Start.
      6. Click Import.
        => Error appears: Truncated file: "ecoli.sam"Document was removed.

      Another scenario:

      1. Tools -> NGS data analysis -> Map reads to reference.
      2. Choose BWA or BWA MEM.
      3. Reference: _common_data/bwa/index1/ecoli.fa.amb.
      4. Set "Paired-end".
      5. Reads:
        • _common_data\e_coli\e_coli_reads/e_coli_1_1.fastq [Upstream]
        • _common_data\e_coli\e_coli_reads/e_coli_1_2.fastq [Downstream]
        • _common_data\e_coli\e_coli_reads/e_coli_2_1.fastq [Upstream]
        • _common_data\e_coli\e_coli_reads/e_coli_2_2.fastq [Downstream]
      6. Click Start.
        => Error appears: In paired-end mode it possible to analyze only 2 read sets using BWA.

      So, it is possible to set this data, but it is impossible to get result. The same is in WD.

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              Assignee:
              kir Kirill Rasputin
              Reporter:
              ggrekhov German Grekhov
              Assigned Tester:
              Eugenia Pushkova [X] (Inactive)
              Watchers:
              4 Start watching this issue

                Dates

                Created:
                Updated:
                Resolved: