[release] Merge Develop into Master for 14.80.0

[github-actions]

Proposed Changes

• Y25-181 - Precursor to Rails 7.2 #5375
• Y25-286 - Add accessioning feedback #5362
  • Closes Y25-286 - Accessioning - Refactor duplicated code #4879
• Y25-286 - Implement HTTP clients to query taxonomy #5353
• Y25-286 - Migrate accessioning lib to HTTP client #5356
  • Closes Y25-286 - Accessioning - Refactor duplicated code #4879
• Y25-286 - Refactor accessioning classes #5368
  • Closes Y25-286 - Accessioning - Refactor duplicated code #4879
• Y25-286 - Remove nonsensical failing test #5379
• Y25-411 - [PR] As a TL (Tris B) I would like SequenceScape to generate a Sample Sheet to load into the Ultima UG 1000 sequencer so that we can run it #5317
• Y25-411 - [PR] Rename CSV files (ZIP entries) #5369
• Y25-411 - [PR] Use id_wafer_lims from ultima sequencing request for the zip entries #5378
• Y25-411 [PR] Get global section input values for Ultima sample sheets from database #5370
• Y25-422 - Ultima warehouse updates #5372
• Y25-428 - Ultima warehouse message #5320
  • Closes Y25-428 - Deliver Ultima messages to unified warehouse #5072
• Y25-480 - Enable Gatekeeper lot registration via V2 API #5333
• Y25-487 - [PR] Heron Decline - new custom endpoint in Sequencescape to provide functionality of Bioscan control locations endpoint in Lighthouse service #5360
• Y25-520 - Fixing model data not being reset for labwhere receptions #5314
• Y25-586 - Part 1 - Ultima AMP plate label printing #5329
  • Closes Y25-586 - As a TL (Tris B), I would like to be able to validate the plates layout at the Amplification batch task. #5272
• Y25-624 - Add 75 Kit Option to LO Flowcell for Aviti Platform #5350
• [dev] Fix duplicate factory ultima_sequencing_batch #5380
• [js] Update terser 5.44.0 → 5.44.1 (patch) #5351
• [ruby] Update bootsnap 1.18.6 → 1.19.0 (minor) #5385
• [ruby] Update faraday-multipart 1.0.4 → 1.1.1 (minor) #5387
• [ruby] Update minitest 5.26.0 → 5.26.1 (patch) #5357
• [ruby] Update mocha 2.7.1 → 2.8.2 (minor) #5384
• [ruby] Update rubocop 1.81.6 → 1.81.7 (patch) #5363
• [ruby] Update rubocop-factory_bot 2.27.1 → 2.28.0 (minor) #5365
• [ruby] Update rubocop-rails 2.33.4 → 2.34.1 (minor) #5388
• [ruby] Update rubocop-rspec 3.7.0 → 3.8.0 (minor) #5367
• [ruby] Update rubocop-rspec_rails 2.31.0 → 2.32.0 (minor) #5366
• [ruby] Update whenever 1.0.0 → 1.1.0 (minor) #5390

Instructions for Reviewers

• Check stories are ready for release.
• Check for any database migrations.
• Check for debug code.
• Check version is appropriate.

Everything above the horizontal rule will be overwritten on the next push
This PR was auto-generated on 2025-11-28T10:03:59+00:00

---

Additional Context

Notes to include in release email:

• Fix for taxonomy lookup when editing samples
• Behind the scenes tweaks to accessioning

[codecov]

Codecov Report

❌ Patch coverage is 85.19231% with 77 lines in your changes missing coverage. Please review.
✅ Project coverage is 87.14%. Comparing base (2d19a31) to head (0de8033).
⚠️ Report is 48 commits behind head on master.

Files with missing lines	Patch %	Lines
app/models/accession_service/base_service.rb	71.87%	36 Missing ⚠️
app/jobs/sample_accessioning_job.rb	82.00%	8 Missing and 1 partial ⚠️
app/controllers/batches_controller.rb	33.33%	6 Missing ⚠️
app/controllers/studies/information_controller.rb	0.00%	6 Missing ⚠️
app/controllers/qc_reports_controller.rb	0.00%	3 Missing ⚠️
app/controllers/plate_summaries_controller.rb	0.00%	2 Missing ⚠️
app/controllers/sdb/sample_manifests_controller.rb	0.00%	2 Missing ⚠️
app/models/accession_service/ena_service.rb	71.42%	2 Missing ⚠️
app/models/accessionable/base.rb	0.00%	2 Missing ⚠️
app/resources/api/v2/lot_resource.rb	80.00%	2 Missing ⚠️
... and 7 more

Additional details and impacted files

@@            Coverage Diff             @@
##           master    #5347      +/-   ##
==========================================
+ Coverage   87.01%   87.14%   +0.12%     
==========================================
  Files        1445     1454       +9     
  Lines       32169    32478     +309     
  Branches     3372     3395      +23     
==========================================
+ Hits        27993    28303     +310     
+ Misses       4163     4161       -2     
- Partials       13       14       +1     

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