#1427 closed enhancement (fixed)

Make use of the header information in FASTQ files

Reported by: Nicklas Nordborg Owned by: Nicklas Nordborg
Priority: major Milestone: Reggie v4.41.2
Component: net.sf.basedb.reggie Keywords:
Cc:

Description

The import wizard for external JSON/FASTQ could maybe use some information that is present in the header of FASTQ files. We should be able to get:

  • Serial number of the sequencer
  • Run number
  • Flow cell barcode

This information should be verified against the information in the JSON file.

Change History (4)

comment:1 by Nicklas Nordborg, 15 months ago

In 6947:

References #1427: Make use of the header information in FASTQ files

The first header line in the FASTQ files is loaded. Checks are implemented to to make sure that they have the same value for SerialNumber, RunNumber and FlowCellID.

comment:2 by Nicklas Nordborg, 15 months ago

In 6948:

References #1427: Make use of the header information in FASTQ files

Implemented checks to verify that the values in the JSON file are the same as in the FASTQ files.

comment:3 by Nicklas Nordborg, 15 months ago

In 6949:

References #1427: Make use of the header information in FASTQ files

Implemented functionality for using the information from the FASTQ file in case it is missing in the JSON file.

comment:4 by Nicklas Nordborg, 15 months ago

Resolution: fixed
Status: newclosed
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