{
  "version": 3,
  "created_at": "2026-07-11T22:56:44.624Z",
  "task_summary": "Finalize the Project Tolera hackathon package: manuscripts, numbers, website, deck, and prize submission",
  "agents": [],
  "phases": [
    {
      "name": "Plan",
      "delegations": [
        {
          "steps": [
            {
              "title": "Confirm conventions and consistency decisions",
              "description": "Before editing, lock the cross-cutting decisions with a short set of questions: (a) canonical author line and affiliations (pMHC uses 'Ruth-Anne Pai, PhD + Claude AI (research support)' with Pai Advisory LLC; EAC has placeholders; CCL26 omits contact) — pick one convention for all three; (b) canonical contact email/site; (c) exact standardized disclosure block wording (AI-generated, not peer-reviewed, in-silico, not medical advice) and hackathon acknowledgment; (d) whether Claude AI stays as a listed 'author' vs. an acknowledgment (journal/bioRxiv policies generally disallow AI authorship — I'll flag this); (e) whether the EAC/Barrett's stream is framed as the 3rd manuscript across all deliverables. Deliver a one-page decisions memo (consistency_decisions.md) capturing the agreed standard.",
              "title_ref": "decisions"
            },
            {
              "title": "Build the reconciled metrics ledger",
              "description": "Mine the artifact store + the three manuscripts to produce one authoritative accomplishments ledger. Quantitative: constructs/binders designed per stream, ipTM ranges and top values, targets nominated, datasets/cohorts mined (9-cohort meta-analysis, TCGA n=182, GTEx), peptide×allele evaluations (4,640→832 binders), decoy-calibration stats, # manuscripts (3), # skills/repos (verify the '8' claim against GitHub), # summaries, videos, website pages, specialist agents. Qualitative: the honesty-gating/self-correction story, the pivot narrative, patient-led framing. Cross-check every number against its source artifact so nothing is confabulated; flag any claim that can't be traced. Deliver accomplishments_ledger.md (narrative + provenance) and accomplishments_ledger.csv (metric, value, source, used-where). This becomes the single source of truth for site/deck/submission.",
              "title_ref": "ledger"
            },
            {
              "title": "Refine and harmonize the 3 manuscripts",
              "description": "Apply the locked conventions to all three Drive manuscripts: standardize title-block format, author line, affiliations, corresponding contact; add a uniform front-matter disclosure banner (AI-generated, not peer-reviewed, in-silico, not medical advice) and a matching end-matter block (Funding, Conflicts of Interest, Data & Code Availability, Acknowledgments incl. hackathon + Claude Science). Personalize the EAC placeholders. Fix the misfiled lay summary (pMHC_nanoparticle sits in the CCL26 folder). Keep each manuscript's science untouched — edits are front/back matter and consistency only. Write edits back to Drive as new versions (or export .docx to the workspace + save as artifacts if you prefer I not overwrite Drive), and produce a manuscript_consistency_report.md diffing before/after.",
              "title_ref": "manuscripts"
            },
            {
              "title": "Rebuild the website",
              "description": "Regenerate the site (edit pages.py/build.py, re-run) to: (1) add the EAC/Barrett's stream as a first-class third manuscript and stream everywhere it belongs (home streams, manuscripts page, stats); (2) update all stale numbers from the ledger ('2 manuscripts'→3, construct/binder/target/repo counts); (3) enforce WCAG AAA — run a contrast audit on the dark theme (≥7:1 normal text, ≥4.5:1 large), fix any failing tokens in style.css, verify skip-link/alt-text/heading order/focus states; (4) apply person-first language throughout ('person living with EoE', not 'EoE patient/sufferer'); (5) refresh exec/lay summary language on the site to match the harmonized manuscripts. Deliver updated HTML/CSS + an accessibility_audit.md with the contrast pass/fail table.",
              "title_ref": "website"
            },
            {
              "title": "Update the 3-minute deck and talking points",
              "description": "Revise the 12-slide deck (Final Hackathon Deck): fold in the EAC/Barrett's stream and the new numbers from the ledger; fix '2 manuscripts'→3 on slides 7 and 11; correct the chapter-numbering order (slides currently jump Ch6→Ch5); ensure the accomplishment stats match the ledger exactly. Rewrite speaker notes to fit a strict 3-minute delivery (rehearsed word budget ~390–450 words) and produce a separate talking_points.md with per-slide timing, the one-sentence throughline, and anticipated-question backup lines. Deliver the updated .pptx + talking_points.md.",
              "title_ref": "deck"
            },
            {
              "title": "Strengthen the Gladstone prize text submission",
              "description": "Revise the text submission to make the strongest, honest case: weave in the third (EAC/Barrett's) stream and the reconciled numbers, sharpen the 'democratization / patient-led / build-from-the-bench' throughline, and make the Claude Science usage answer concrete and specific. Ensure the site URL and repo links are correct and live. Keep the authentic first-person voice. If the prize has explicit judging criteria (impact, use of Claude, novelty, completeness), map the submission against them and note any gaps. Deliver revised_text_submission.md with a short rationale of what changed and why.",
              "title_ref": "submission"
            },
            {
              "title": "Whole-package consistency pass and iterate",
              "description": "Cross-check the full package — website, deck, talking points, text submission, manuscripts — for a single consistent story: identical numbers everywhere (from the ledger), consistent naming (Project Tolera, stream names, target names), consistent disclosures, consistent contact/links, person-first language, and AAA where applicable. Produce final_package_review.md: a checklist of every claim/number and where it appears, flagged inconsistencies resolved, and a prioritized 'if you have 30 more minutes' list. Iterate on any item you flag until the package is internally airtight.",
              "title_ref": "review"
            }
          ]
        }
      ],
      "id": "phase-0"
    }
  ],
  "desired_outputs": [
    "Three manuscripts with consistent front matter (authors, affiliations, contact, funding/COI/data-availability, AI-generated + not-peer-reviewed disclosure, hackathon acknowledgment)",
    "A reconciled metrics ledger (accomplishments_ledger.md + .csv) as the single source of truth",
    "Rebuilt website reflecting all 3 streams, AAA-accessible, person-first language",
    "Updated 3-minute deck + talking points incorporating EAC work and new numbers",
    "Revised Gladstone prize text submission",
    "A final package-consistency review memo"
  ],
  "feasibility": {
    "rationale": "All inputs are in hand: three manuscripts + summaries (Drive), the deck, the text submission, and the full artifact store including today's EAC/Barrett's work. The work is editorial consistency, a reconciled metrics ledger, and rebuilding three presentation deliverables to match. No new computation required. Main judgment calls — author/affiliation conventions, whether to fold the EAC stream into the pitch — will be confirmed with you before I commit changes.",
    "confidence": "high"
  }
}