Add Assembly table views

[Ulthran]

Summary

• add dropdown Assembly menu
• create browse templates for assembly-related tables
• expose new routes and API endpoints
• test new pages

Testing

• black .
• pytest tests/

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https://chatgpt.com/codex/tasks/task_e_687e925d2ce48323b6fdcf80bc2ef3ae

[Copilot]

Pull Request Overview

This PR adds a comprehensive set of Assembly-related views to the application, including both UI templates and API endpoints. It introduces a new Assembly dropdown menu in the navigation to organize related functionality.

• Adds four new browse templates for assemblies, assembly QC, taxonomic assignments, and antimicrobials
• Creates corresponding API endpoints to serve data for these tables
• Updates navigation with a dropdown menu structure for Assembly-related views

Reviewed Changes

Copilot reviewed 7 out of 7 changed files in this pull request and generated no comments.

Show a summary per file

File	Description
app/app.py	Adds 8 new routes (4 browse views + 4 API endpoints) for assembly-related data
app/templates/base.html	Updates navigation to include Assembly dropdown menu with 4 sub-items
app/templates/browse_assemblies.html	New template for displaying assemblies table with 9 columns
app/templates/browse_assembly_qc.html	New template for assembly QC data with 12 columns
app/templates/browse_taxonomic_assignments.html	New template for taxonomic assignment data with 7 columns
app/templates/browse_antimicrobials.html	New template for antimicrobial data with 8 columns
tests/test_api.py	Adds parameterized test covering all 4 new page/API endpoint pairs

Comments suppressed due to low confidence (1)

app/app.py:127

• The Assembly, AssemblyQC, TaxonomicAssignment, and Antimicrobial model imports are not visible in this diff. Ensure these models are properly imported at the top of the file to avoid NameError exceptions.

    return datatables_response(select(Assembly))