BI-2848 - New Genotyping Page Backend: linkage to sample submission

[humsika]

Description

Story: BI-2848

This change adds backend support for the new Genotyping page by linking successful genotype imports to sample submissions and exposing a new endpoint for the frontend.

Summary of changes made:

• Added support for linking sample_submission and importer_import through the new genotype_import join table
• Added GET endpoint: /programs/{programId}/geno/imports
• Added response fields needed by frontend, including:
  • sampleSubmissionId
  • projectNameForSampleSubmission
  • sampleSubmissionCreatedBy
  • genotypingFileName
  • genotypingImportDate
  • genotypingImportBy
• Added paging, sorting, and filtering support for the endpoint
• Updated the genotype import flow so only successful genotype imports are linked/shown on the Genotyping page
• Updated/added controller and service tests for the new endpoint and service behavior

Dependencies

• DB migration for genotype_import must be applied
• jOOQ generated classes should be up to date
• bi-web (frontend): feature/BI-2679
• bi-api (backend): feature/BI-2848

Testing

Validate the Backend/API by performing the following through manual testing:

1. Run DB migration and ensure generated jOOQ classes are updated
2. Upload a valid genotype VCF for a sample submission
3. Verify the record appears in:
   • genotype_import
   • GET /v1/programs/{programId}/geno/imports
4. Verify endpoint supports:
   • paging
   • sorting
   • filtering
5. Verify response includes sampleSubmissionId for frontend linking
6. Verify failed/invalid genotype imports do not appear in the Genotyping page response

Example API checks:

• Base:
  • GET /v1/programs/{programId}/geno/imports?page=1&pageSize=10
• Sorted:
  • GET /v1/programs/{programId}/geno/imports?page=1&pageSize=10&sortField=genotypingImportDate&sortOrder=DESC
• Filtered:
  • GET /v1/programs/{programId}/geno/imports?page=1&pageSize=10&projectNameForSampleSubmission=Sample1
  • GET /v1/programs/{programId}/geno/imports?page=1&pageSize=10&genotypingFileName=vcf

Expected behavior:

• Successful imports are returned
• Failed imports are not returned
• Invalid program returns 404
• Unauthorized/forbidden access returns appropriate auth response
• Empty result set returns standard empty data response

Checklist:

• I have performed a self-review of my own code
• I have tested my code and ensured it meets the acceptance criteria of the story
• I have create/modified unit and/or integration tests to cover this change or tests are not applicable
• I have commented my code, particularly in hard-to-understand areas
• I have either updated the source of truth or arranged for update with product owner if needed https://breedinginsight.atlassian.net/wiki/spaces/BI/pages/1559953409/Source+of+Truth

[nickpalladino]

Nice job and thorough tests. I left a few minor coding standard comments and had a couple suggestions on design and tests.