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  1. UGENE
  2. UGENE-4630

Opening of FASTQ file with invalid lines

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    Details

    • Type: Improvement
    • Status: Closed
    • Priority: Minor
    • Resolution: Fixed
    • Affects Version/s: None
    • Fix Version/s: 1.23
    • Component/s: None
    • Labels:
      None

      Description

      If any FASTQ entry is incorrect, the file cannot be loaded at all. Therefore, if a line is invalid, an appropriate sequence can be skipped and the file can be parsed further.

      The following should be done:
      The valid records must be parsed and opened.
      If the file is opened in GUI, a warning notification must appear. When the notification is clicked, a report is opened. The report contains detailed information about each invalid record: the line number and the problem occurred.
      If the file is processed by any algorithm (e.g. short reads are aligned), the task report should contains detailed information about skipped reads.
      If the file is processed by the Workflow Designer, a warning message should be shown on the dashboard.

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            Assignee:
            vaskin Yura Vaskin
            Reporter:
            atiunov Aleksey Tiunov [X] (Inactive)
            Assigned Tester:
            Denis Kandrov
            Watchers:
            4 Start watching this issue

              Dates

              Created:
              Updated:
              Resolved: