Troubleshooting
If an automation trigger does not appear to run its corresponding scripts, see the following sections in the Clarity LIMS API documentation:
| • | Troubleshooting Automated Informatics |
| • | Troubleshooting Automation in the API |
If an error occurs that does not provide direction on how to proceed, complete the following steps:
| 1. | Confirm the version of the installed Illumina NovaSeq Integration Package by running the following command on the Clarity LIMS server command line: |
rpm -qa | grep -i novaseq
| 2. | If the error is related to the AUTOMATED - NovaSeq Run (NovaSeq 6000 v3.3) step, review the log file information. See Logging for more details. |
If the automated run step starts, but does not complete:
| 1. | Use one of the following methods to open the in progress step in Clarity LIMS: |
| • | Log in to the default user account. |
| • | In Lab View, find the step in the Recent Activities pane. |
| • | Search for the step in Clarity LIMS, using either the Library Tube, or Flowcell barcode as the search term. The steps depend on whether the search is a NovaSeq Standard or NovaSeq Xp run. |
| 2. | On the Record Details screen, the Sequencing Log multiline text field contains logging information. |
If unable to reach the Record Details screen, or if the Sequencing Log field does not contain enough information to resolve the issue, review the sequencer-api.log file, described in the following sections.
| 3. | Contact the BaseSpace Clarity LIMS support team, supplying the relevant information from the troubleshooting steps already performed. |
