Manual Upgrade

MiSeqDx Integration v1.10.0 includes the MiSeqDx v1.2 workflow upgrade. This upgrade is typically done through the RPM. To upgrade the workflow manually, create the Validate Single Input automation and update its trigger information as follows.

ℹ️ Before updating the automations, make sure the MiSeqDx v1.1 workflow is installed.

Create Validate Single Input Automation

1. In Clarity LIMS, under Configuration, select the Automation tab.

2. Select New Automation.

3. Create an automation called Validate Single Input.

4. In the Command Line field, add the following string:

   bash -l -c "/opt/gls/clarity/bin/java -jar /opt/gls/clarity/extensions/ngs-common/v5/EPP/ngs-extensions.jar -i {stepURI:v2} -u {username} -p {password} script:validateSampleCount -min 1 -max 1"

5. Under Automation Use, enable this automation for the Denature and Dilute master steps on all variant workflows.

Change Trigger Point for the Validate Single Input Automation

1. In Clarity LIMS, under Configuration, select the Lab Work tab.

2. Find the Denature and Dilute steps in all variant workflows.

3. In the Automation section of each step, update the Trigger Location and Trigger Style for the Validate Single Input automation as follows.

   • Trigger Location — Step

   • Trigger Style — Automatic upon entry