Inactive checkboxes on the Select screen indicate tests that require assistance from an Illumina field
representative.
Perform a System Check
1 From the Manage Instrument screen, select System Check. When prompted to close the control
software, select Yes.
2 Load the consumables as follows:
a If a used flow cell is not already on the instrument, load a used flow cell.
NOTE
Illumina recommends using a high output flow cell for system check purposes.
b Empty the spent reagents container and return it to the instrument.
c Load the buffer wash cartridge containing 120 ml laboratory-grade water in the center reservoir.
d Load the reagent wash cartridge. Make sure that the reagent wash cartridge is empty and clean.
3 Select Load. The software moves the flow cell and reagent wash cartridge into position. Select Next.
4 Select Next. The system check begins.
5 [Optional] When the system check is complete, select View next to the check name to view the values
associated with each check.
6 Select Next. The system check report opens.
7 Select Save to save the report to a zipped file. Navigate to a network location to save the file.
8 When finished, select Exit.
9 When prompted to close the service software and restart the control software, select Yes. The control
software restarts automatically.
Motion Checks
System Check Description
BSM Checks the gain and distance of the Bottle Straw Mechanism (BSM)to confirm that the module
is working properly.
FCLM & FAM Checks the gain and distance of the Flow Cell Load Mechanism (FCLM) and Fluid Automation
Module (FAM) to confirm that the modules are working properly.
Stage Tests Checks the travel limits and performance of the XY-stage and 6 Z-stages, 1 for each camera.
Optics Check
System Check Description
Flow Cell
Registration
Measures flow cell tilt on an optical plane, tests camera functionality, tests the imaging module,
and verifies registration of the flow cell in the correct imaging position.
Document # 15046563 v04
For Research Use Only. Not for use in diagnostic procedures.
34
NextSeq 500 System Guide
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