SciDEX — Task: [Demo] Add Mol* 3D protein viewer to hypothesis pa

Embed RCSB PDB Mol* viewer on hypothesis detail pages that have a target_gene with known protein structures. Maps gene names to PDB IDs, loads the 3D structure viewer inline. Quest 17 task A17.1. IMPORTANT: Keep Mol* protein viewer on entity/hypothesis/challenge detail pages where it adds value. Do NOT feature it prominently on /showcase. Showcase should highlight: debate transcripts, hypothesis cards with scores, evidence tables, KG visualizations, and notebooks — the core discovery exchange features. ## REOPENED TASK — CRITICAL CONTEXT This task was previously marked 'done' but the audit could not verify the work actually landed on main. The original work may have been: - Lost to an orphan branch / failed push - Only a spec-file edit (no code changes) - Already addressed by other agents in the meantime - Made obsolete by subsequent work **Before doing anything else:** 1. **Re-evaluate the task in light of CURRENT main state.** Read the spec and the relevant files on origin/main NOW. The original task may have been written against a state of the code that no longer exists. 2. **Verify the task still advances SciDEX's aims.** If the system has evolved past the need for this work (different architecture, different priorities), close the task with reason "obsolete: " instead of doing it. 3. **Check if it's already done.** Run `git log --grep=''` and read the related commits. If real work landed, complete the task with `--no-sha-check --summary 'Already done in '`. 4. **Make sure your changes don't regress recent functionality.** Many agents have been working on this codebase. Before committing, run `git log --since='24 hours ago' -- ` to see what changed in your area, and verify you don't undo any of it. 5. **Stay scoped.** Only do what this specific task asks for. Do not refactor, do not "fix" unrelated issues, do not add features that weren't requested. Scope creep at this point is regression risk. If you cannot do this task safely (because it would regress, conflict with current direction, or the requirements no longer apply), escalate via `orchestra escalate` with a clear explanation instead of committing.

Completion Notes

Auto-completed by supervisor after successful deploy to main

Git Commits (1)

[Demo] Verify Mol* task already complete on main: 96% hypothesis coverage, full implementation in api.py [task:fd1197a5-19b7-4f3c-b5dc-1fced03eabaa]2026-04-13

Spec File

[Demo] Add Mol* 3D protein viewer to hypothesis pages for target proteins

ID: fd1197a5-19b Priority: 95 Type: one_shot Status: open

Goal

Embed RCSB PDB Mol* viewer on hypothesis detail pages that have a target_gene with known protein structures. Maps gene names to PDB IDs, loads the 3D structure viewer inline. Quest 17 task A17.1.

Acceptance Criteria

☐ Concrete deliverables created

☐ Work log updated with timestamped entry

Work Log

2026-04-13 16:30 PT — Slot 0 (verification)

Re-evaluated task in light of current main state
Confirmed Mol* 3D viewer already on main via commits:

- 293a64391 — [Demo] Expand Mol 3D protein viewer coverage from 83% to 96% of hypotheses (166→192 of 199 hypotheses with Mol viewers)
- 6638ea5c3 — [UI] Mol* 3D viewer already implemented in hypothesis_detail()
- afebddfec — [Demo] Add Mol* 3D protein viewers to walkthrough pages
- 7fb8ef909 — [Artifacts] Enrich targets with PDB/UniProt IDs + fix challenge Mol* auto-linking
- db23ef9cf — [Artifacts] Add 8 PDB + 3 UniProt protein mappings for Mol* viewers
- 91ec0016e — [Quality] Remove Mol protein viewer section from /showcase page (Mol remains on entity/hypothesis/challenge pages where it adds value)

Verified current main: api.py lines 19407–19455 and 27205–27455 contain full Mol* implementation
Spec status: open on main (multiple documentation-only branches were created attempting to close it)
Task is substantively complete. CLI has DB access issue in this environment; task supervisor will verify on merge.

Payload JSON

{
  "requirements": {
    "coding": 8
  },
  "completion_shas": [
    "8d7c79d5a7ef31d89a458a37d88a3b07760c547d"
  ],
  "completion_shas_checked_at": "2026-04-13T23:25:37.613890+00:00"
}