The Clarity LIMS Product Analytics Integration v1.2.0 allows you to aggregate and analyze lab data from the workflow in a single location. The integration also integrates Clarity LIMS data into the Clarity LIMS Product Analytics (CLPA) service. Data are uploaded to the Illumina Connected Analytics (ICA) service.
Refer to individual integration package requirement on enabling UPA. Note that ICA subscription is only required to view data on ICA UI.
CLPA integration supports the workflows: NovaSeq 6000 v3, NextSeq 1000/2000, NovaSeq X Series and Library Prep Validation.
Other workflows can be customized to add Clarity LIMS Product Analytics integration capabilities. For more information, refer to Automation and Workflow Customization.
Clarity LIMS Product Analytics Integration v1.2.0 is used with Clarity LIMS v6.2 and later. The integration supports on-site and hosted installations of Clarity LIMS. Illumina Preset Protocols (IPP) v2.6 or later is required for automation.
Clarity LIMS Product Analytics Integration v1.2.0 supports the applicable workflows identified in Supported Workflows.
Components
Clarity LIMS Product Analytics Integration v1.2.0 includes the following required components:
BaseSpaceLIMS-unified-products-analytics — The core service of the Clarity LIMS Product Analytics Integration. This service installs the daemon service that publishes messages to the product analytics through Illumina Connected Analytics.
BaseSpaceLIMS-unified-products-analytics-scripts — The automation scripts of the Clarity LIMS Product Analytics Integration. If new workflows or new product analytics scripts are introduced, this component can be upgraded.
Automation Scripts
The Clarity LIMS Product Analytics Integration v1.2.0 automation scripts are installed through the BaseSpaceLIMS-unified-products-analytics-scripts RPM. These scripts process Clarity LIMS data and prepare data for upload to Illumina Connected Analytics. There are two types of CLPA scripts: common and workflow-specific.
Common Clarity LIMS Product Analytics Scripts
Common CLPA scripts can be used with any compatible workflows. The following lists and describes the common CLPA scripts.
Register Step Started Automation
Script Name: common/step_started.groovy
Trigger Location: Step
Trigger Style: Automatic upon entry
Purpose/Notes:
Saves information on the step start time.
Can be used on any step.
Register Step Completed Automation
Script Name: common/step_completed.groovy
Trigger Location: Step
Trigger Style: Automatic upon exit
Purpose/Notes:
Saves information on the step-completed time.
Can be used on any step.
Register Pool Automation
Script Name: common/register_sample.groovy
Trigger Location: Step
Trigger Style: Automatic upon entry
Purpose/Notes:
Saves sample information used by the lab workflow.
Can be used on any step.
It is recommended that this script is enabled at the first step of the workflow.
Only one is required per workflow.
This script requires the Submitted Sample field named Illumina Universal Sample Identifier.
Register Sample Automation
Script Name: common/pooling.groovy
Trigger Location: Step
Trigger Style: Automatic upon exit
Purpose/Notes:
Saves pool and library information used by the Clarity LIMS workflow.
Can be used on any pooling step.
It is expected that libraries in the pool have been through the Add Labels step. Control samples do not need a label.
Workflow-specific scripts work with Illumina workflows. These scripts require a specific set of custom fields and a specific protocol order in the workflow. The following shows the workflow-specific scripts.
As many of the scripts share trigger location and style, they are combined into a single automation. Unless specified otherwise, the automations are applicable to all CLPA-enabled versions of the relevant workflow steps.
Records the NextSeq1k2k analysis status and result.
This script requires the Cloud Analysis Workflow Versions and Local Analysis Workflow Versions custom fields from the Load to Reagent Cartridge (NextSeq 1000/2000 Sequencing) step.
AUTOMATED - Sequencing Run (NovaSeq X Series Sequencing)
Trigger Location: Step
Trigger Style: Automatic upon entry
Purpose/Notes:
Records the sequencing run configuration.
This script requires all custom fields related to the run configuration from the Load to Library Tube Strip (NovaSeq X Series Sequencing) step.
These scripts require custom fields to be available at their corresponding steps (listed under Clarity LIMS Product Analytics Automation Name and Remarks). Adding or enabling workflow-specific CLPA scripts on non-Illumina workflows is not supported. Data loss can occur.
