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Fix 2nd layer nav links#41

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el-rabies wants to merge 11 commits intomainfrom
fix-2nd-layer-nav-links
Open

Fix 2nd layer nav links#41
el-rabies wants to merge 11 commits intomainfrom
fix-2nd-layer-nav-links

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adamjohnwright and others added 11 commits March 18, 2026 11:58
Pushes to main deploy to the next release version folder
(e.g. /96/website/) and pushes to prod deploy to the current
production version folder (e.g. /95/website/). Version is determined
dynamically from the ContentService database version endpoint.

Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
- Change type-only namespace imports to `import type` (Relationship,
  Analysis, TissueExperiment) for isolatedModules compatibility
- Change `import X = Namespace.Type` aliases to `type X = ...`
- Remove unused default import from reactome-cytoscape-style, use
  named Types export instead
- Raise anyComponentStyle budget from 8kB to 16kB
- Add reactome-cytoscape-style library build step to deploy workflow

Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
Add /content/detail/:id route with a full detail page that includes:
- Description tab (reusing PathwayBrowser's DescriptionTabComponent)
- Locations in the PathwayBrowser section showing hierarchical tree
  of where an entity/event exists in Reactome's pathway hierarchy
- Provider stubs for services required by the description tab
- Animations support and PDBe Molstar for structure visualization

Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
- Move LocationsTree into the description-tab as a proper section with
  divider header and TOC entry ("Locations in the Pathway Browser")
- Add species filtering, expand/collapse all, tree connector lines,
  type icons, and arrow expand icons matching site design language
- Add pathway-browser SVG icon assets to WebsiteAngular build config
  so entity icons (protein, pathway, etc.) render correctly
- Clean up detail component to pass showLocations flag instead of
  rendering LocationsTree standalone

Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
Provide DatePipe in DetailComponent to fix NullInjectorError that
silently broke the authorship template rendering. Add Created as a
separate row, fix @for tracking to use $index instead of dbId to
avoid JSOG shared-reference conflicts, and unset the background
override so detail pages match the standard page background.

Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
All search result types now have working detail pages:
- Complex, Set, Pathway, and DNA Sequence use the existing detail page
- Interactor results navigate to a new interactor detail page with
  summary info, synonyms, and interaction partners with Reactome entities
- Icon results navigate to a new icon detail page with SVG preview,
  credits, references, and associated physical entities
- Search links are now type-aware, routing each type to its correct page

Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
Extract diagramFromData() from DiagramService for reuse, create
ReactionDiagramComponent that fetches reaction layout JSON and renders
it client-side via Cytoscape. Integrate as a new section in
DescriptionTabComponent for reaction-type entities.

Fixes: handle missing endShape on INPUT connectors, missing centre on
PTM attachment shapes, and bidirectional arm segment traversal for
reaction diagrams from the ReactionExporter.

Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
- Change type-only namespace imports to `import type` (Relationship,
  Analysis, TissueExperiment) for isolatedModules compatibility
- Change `import X = Namespace.Type` aliases to `type X = ...`
- Remove unused default import from reactome-cytoscape-style, use
  named Types export instead
- Raise anyComponentStyle budget from 8kB to 16kB
- Add reactome-cytoscape-style library build step to deploy workflow

Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
@el-rabies el-rabies linked an issue Mar 19, 2026 that may be closed by this pull request
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2nd Level nav bar links

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