Troubleshooting a flow cell registration stall during pre run checks on first run on NextSeq 500/550
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On the first run after upgrading the NextSeq 500/550 to NextSeq Control Software (NCS) v4.0.X, the pre-run checks can take around 30 minutes to complete flow cell registration. This is expected, as the instrument will be downloading drives to perform the check.
Allow the pre-run check to continue as long as no errors appear.
If an option appears to retry the pre-run check, this may indicate a communication issue. This can be resolved by reseating the flow cell and power cycling the instrument.
For further information, see How to Power Cycle the NextSeq 500/550.
For any feedback or questions regarding this article (Illumina Knowledge Article #2112), contact Illumina Technical Support techsupport@illumina.com.
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