Plate Set Auditing

[labkey-nicka]

Rationale

Add auditing of plate sets, plates, and plate assay import events.

Related Pull Requests

• Plate Set Auditing labkey-ui-components#1855
• https://github.com/LabKey/labkey-ui-premium/pull/820
• Plate Set Auditing #7062
• https://github.com/LabKey/limsModules/pull/1683
• Plate Set Auditing testAutomation#2709

Changes

• Add audit event handlers for Plate and PlateSet
• Audit plate set creation, archive, and restore events
• Audit plate creation and assay import
• Audit plate data changes for wells
• Introduce ValidateRunImportedPlateTrigger to reduce burden of validation checks to a single call

[Copilot]

Pull Request Overview

This PR adds comprehensive auditing functionality for plate sets, plates, and plate assay import events. The changes introduce audit event handlers to track creation, archival, restoration, and import events for plates and plate sets, while also consolidating validation logic for plates used in assay runs.

• Add audit event providers and events for tracking plate and plate set lifecycle changes
• Implement comprehensive auditing for plate/plate set operations including creation, deletion, archival, and assay imports
• Introduce ValidateRunImportedPlateTrigger to consolidate plate validation checks into a single trigger

Reviewed Changes

Copilot reviewed 23 out of 23 changed files in this pull request and generated 3 comments.

Show a summary per file

File	Description
WellTable.java	Updates column naming from SampleID to SampleId and adds audit configuration
PlateTable.java	Adds plate trigger factory and audit transaction management for deletions
PlateBean.java	Adds entity properties support with includeEntityProperties parameter
WellTriggerFactory.java	Adds new validation trigger and updates column references to use SampleId
WellData.java	Updates column reference to use SampleId naming
PlateTriggerFactory.java	New trigger factory for handling plate deletion auditing
PlateMapExcelWriter.java	Updates excluded fields to use SampleId naming
PlateSetAuditProvider.java	New audit provider for plate set events
PlateSetAuditEvent.java	New audit event class for plate set operations
PlateAuditProvider.java	New audit provider for plate events
PlateAuditEvent.java	New audit event class for plate operations
PlateSetImpl.java	Adds parent plate set ID property for auditing
PlateManagerTest.java	Updates method calls and column references for consistency
PlateManager.java	Major updates adding audit event handling and transaction management
PlateImpl.java	Adds source plate ID property and user accessor methods
AssayPlateMetadataServiceImpl.java	Adds plate import audit events and minor improvements
PlateSetDataGenerator.java	Updates column reference to use SampleId naming
PlateController.java	Minor variable name improvement
AssayModule.java	Registers new audit type providers
Trigger.java	Removes outdated documentation comments
AuditTypeEvent.java	Minor code formatting improvements
AbstractAuditTypeProvider.java	Code cleanup and formatting improvements
AbstractAssayTsvDataHandler.java	Minor import cleanup and null check improvement

Comments suppressed due to low confidence (1)

assay/src/org/labkey/assay/plate/audit/PlateSetAuditEvent.java:1

• [nitpick] The audit record maps are hardcoded to only track the 'Archived' field. Consider creating a more comprehensive audit record that captures other relevant plate set properties that may have changed during the archive/restore operation.

package org.labkey.assay.plate.audit;

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