Troubleshooting laser coolant temperature errors on the NovaSeq 6000

The following errors may occur during a NovaSeq 6000 run, though the run may proceed:

• Laser coolant temperature is out of range.

• The coolant might not be reaching the optical compartment.

• The coolant might not be reaching the flow cell holder.

Troubleshooting steps:

• Check the lab temperature.

  • Elevated lab temperature or other equipment that increases room temperature can cause these errors. The recommended temperature range for a NovaSeq 6000 is 19°C to 25°C (22°C ±3°C). For more information, refer to NovaSeq Site Prep Guide.

• Power cycle the instrument. For additional details, search for Knowledge Base article How to Power Cycle the NovaSeq 6000 System.

  • If the instrument initializes successfully after the power cycle, proceed to the next run.

  • If the lab temperature is within the recommended range and error recurs after a power cycle, collect the thermal report located in C:\ProgramData\Illumina\NovaSeq\NovaSeqTemp[run folder]\Logs Folder\Thermal Report and contact Illumina Technical Support for the next steps.

Note: System checks will not be helpful for these errors.

For any feedback or questions regarding this article (Illumina Knowledge Article #3300), contact Illumina Technical Support [e-mail].