Troubleshoot iScan Integration

The firewall protects the iScan control computer by filtering incoming traffic to remove potential threats. The firewall is enabled by default to block all inbound connections. Keep the firewall enabled and allow outbound connections.

For the instrument to connect to BaseSpace Sequence Hub, you will need to add regional platform endpoints and instrument specific endpoints to the allow list on your firewall. Regional endpoints and further detail can be found in Security and Networking for Illumina instrument control computers.

The following table shows the applicable endpoints for the iScan.

Endpoint	Category	Purpose
ica.illumina.com	Required	Send IDAT files to ICA
o.ss2.us	Required	Certificate authorization
ocsp.digicert.com	Required	Certificate authorization
ocsp.pki.goog/gsr2	Required	Certificate authorization
ocsp.rootca1.amazontrust.com	Required	Certificate authorization
ocsp.rootg2.amazontrust.com	Required	Certificate authorization
ocsp.sca1b.amazontrust.com	Required	Certificate authorization
fonts.gstatic.com	Required	Display fonts
fonts.googleapis.com	Recommended	Display fonts
cdn.walkme.com	Recommended	Telemetry
cdn3.userzoom.com	Recommended	Telemetry
dpm.demdex.net	Recommended	Telemetry
illuminainc.demdex.net	Recommended	Telemetry
illuminainc.tt.omtrdc.net	Recommended	Telemetry
smetrics.illumina.com	Recommended	Telemetry
google.com	Recommended	Telemetry
google-analytics.com	Recommended	Telemetry
stats.g.doubleclick.net	Recommended	Telemetry
illumina.com	Optional	Access Illumina support material

IDAT Fail Status

iScan will mark certain samples with a FAIL status if the registration quality is too poor for that particular section. Selected samples that are marked with FAIL status will be excluded from analysis and there would be no results for that sample, even though IDATs are generated. These samples will not be available for selection through beadChip table or samplesheet upload when launching analysis.

The registration quality can be found in the metrics.txt file. More information on that file can be found in the iScan documentation.