Uploaded image for project: 'UGENE'
  1. UGENE
  2. UGENE-6360

"CASAVA FASTQ Filter" worker modifies a FASTQ file unexpectedly

    XMLWordPrintable

    Details

    • Type: Bug
    • Status: Closed
    • Priority: Major
    • Resolution: Fixed
    • Affects Version/s: 1.31.1
    • Fix Version/s: 1.32
    • Component/s: NGS, Workflow
    • Labels:
      None
    • Sprint:
      DEV-32-RELEASE, DEV-33-1, DEV-33-2
    • Affect Type:
      Userdefined

      Description

      If there is a read in a FASTQ file with CASAVA info in the header and there is a read without this info like that:

      @some_header 1:N:0:ACAGTG
CCCCTGTGGGGTGTGTAGCCAGCATCTCTCAGCCCTGCCTGTCACCCAAAATGCTGAATACTTTCCTGGGTCTGTTTTGTGATCCGATAATTCATGATGAC
+
CCCFFFFFHHHCFGHIIJJJJJIJJJJJJJJJJJJJIJJJJJJJJJJJJJJIJJJJIJJHHHHHHFFFFFCEEECCCDDDDDEEDDDDDDDEEDEDDDDED
@EAS54_6_R1_2_1_413_324
CCCTTCTTGTCTTCAGCGTTTCTCC
+
;;3;;;;;;;;;;;;7;;;;;;;88

      then after processing of the file with "CASAVA FASTQ Filter" worker (from "NGS: Basic Functions" group), header of the second read is modified - the info is added to it.

      @some_header 1:N:0:ACAGTG
CCCCTGTGGGGTGTGTAGCCAGCATCTCTCAGCCCTGCCTGTCACCCAAAATGCTGAATACTTTCCTGGGTCTGTTTTGTGATCCGATAATTCATGATGAC
+
CCCFFFFFHHHCFGHIIJJJJJIJJJJJJJJJJJJJIJJJJJJJJJJJJJJIJJJJIJJHHHHHHFFFFFCEEECCCDDDDDEEDDDDDDDEEDEDDDDED
@EAS54_6_R1_2_1_413_324 1:N:0:ACAGTG
CCCTTCTTGTCTTCAGCGTTTCTCC
+
;;3;;;;;;;;;;;;7;;;;;;;88

        Attachments

          Activity

            People

            Assignee:
            kir Kirill Rasputin
            Reporter:
            kir Kirill Rasputin
            Assigned Tester:
            Svetlana Samoilenko
            Watchers:
            3 Start watching this issue

              Dates

              Created:
              Updated:
              Resolved: