_quarto-right-to-trial.yml

project:
  type: website
  output-dir: _site/right-to-trial
  execute-dir: project
  resources:
    - knowledge/data/
    - assets/
    - _redirects
    - robots.txt
    - llms.txt
  render:
    # Paper is copied to index.qmd by render script
    - index.qmd
    - knowledge/appendix/parameters-and-calculations.qmd

# Custom fields for render-quarto.py
dih-render:
  emoji: "⚖️"
  index-source: knowledge/appendix/right-to-trial-fda-upgrade-act.qmd
  redirect-from: https://right-to-trial.warondisease.org
  fallback-404-redirect-domain: https://manual.WarOnDisease.org  # Redirects here if path doesn't exist on this site
  pdf-output-file: right-to-trial-fda-upgrade-act.pdf
  netlify-site-id: "f0cfd162-dc07-474f-9b19-367ce1c1616f"
  netlify-cname: "right-to-trial-warondisease-org.netlify.app"
  show-confidence-intervals: false  # Legislative text, not academic paper
  concept-terms:
    - term: "Right to Trial"
      aliases:
        - "Right-to-Trial and FDA Upgrade Act"
      manual-target: knowledge/solution/dfda.qmd
  # Image generation prompts (used by scripts/images/generate-project-branding-images.ts)
  favicon-prompt: "A gavel with a medical cross/caduceus symbol."

profiles:
  default:
    dotenv:
      allowEmptyValues: true

author:
  - name: Mike P. Sinn
    email: m@warondisease.org
    orcid: 0009-0006-0212-1094
    affiliations:
      - name: "Institute for Accelerated Medicine"
        url: https://acceleratedmedicine.org

website:
  title: "Right to Trial & FDA Upgrade Act"
  description: 'Act to modernize medical research and treatment access through an open-source FDA.gov v2, giving patients the right to participate in trials.'
  site-url: https://manual.warondisease.org/knowledge/appendix/right-to-trial-fda-upgrade-act.html
  favicon: assets/icons/dih-favicon.png
  page-navigation: true
  page-footer:
    left: "© 2025 [Institute for Accelerated Medicine](https://acceleratedmedicine.org) | [CC BY-NC 4.0](https://creativecommons.org/licenses/by-nc/4.0/)"
    center: "[PDF](/right-to-trial-fda-upgrade-act.pdf) | [All Papers](https://manual.warondisease.org/knowledge/papers.html)"
    right: "[VOTE](https://WarOnDisease.org)"
  navbar:
    right:
      - text: "dFDA Protocol"
        href: https://dfda-spec.warondisease.org
      - text: "VOTE"
        href: https://WarOnDisease.org

execute:
  fig-path: "knowledge/figures/"
  cache: false
  freeze: auto  # Only re-run cells when content changes
  daemon: 300
  daemon-restart: false
  env:
    PYTHONPATH: "."

metadata:
  doi: "10.5281/zenodo.19076852"
  # Zenodo Concept DOI (stable across all versions - use for citations and new versions)
  importance: 76
  creator: "Mike P. Sinn"
  orcid: "0009-0006-0212-1094"
  primary-author: "Mike P. Sinn"
  byline: "Mike P. Sinn"
  human-author: "Mike P. Sinn"
  author-email: "mike@warondisease.org"
  author-url: "https://mikesinn.com"
  author-website: "https://mikesinn.com"
  contact: "mike@warondisease.org"
  language: "en-US"
  subject: "Clinical Trials, Drug Development, Healthcare Reform, Regulatory Policy, Patient Rights"
  category: "Legislative Text, Public Policy, Healthcare Reform"
  coi-statement: "The author declares no competing interests."
  data-availability: "All data and code used in this analysis are publicly available at https://github.com/wishonia/earth-optimization-protocol"
  ethics-statement: "This document is proposed legislation. No human subjects were involved in its drafting, though quite a few would benefit from its passage."
  funding: "This research received no funding."
  github-profile: "https://github.com/mikepsinn"
  linkedin: "https://www.linkedin.com/in/mikesinn"
  orcid-url: "https://orcid.org/0009-0006-0212-1094"
  google-scholar: "https://scholar.google.com/citations?user=RjDd_qcAAAAJ"
  keywords:
    - right-to-trial
    - fda-upgrade
    - clinical-trials
    - drug-development
    - healthcare-reform
    - regulatory
    - patient-rights
    - open-data
    - decentralized-trials
    - fda-v2
  version: "1.0"
  edition: "First Edition"
  copyright: "© 2025 Mike P. Sinn"
  copyright-year: "2025"
  license: "CC BY-NC 4.0"
  license-url: "https://creativecommons.org/licenses/by-nc/4.0/"
  rights: "Creative Commons Attribution-NonCommercial 4.0 International License"
  publisher: "Institute for Accelerated Medicine"
  publisher-url: "https://acceleratedmedicine.org"
  publisher-name: "Mike P. Sinn"
  publisher-email: "mike@warondisease.org"
  repo-url: "https://github.com/wishonia/earth-optimization-protocol"
  issue-url: "https://github.com/wishonia/earth-optimization-protocol/issues"
  source-url: "https://github.com/wishonia/earth-optimization-protocol"
  geographic-coverage: "United States, Global"
  audience: "Policy Makers, Healthcare Professionals, Patient Advocates, Researchers, General Public"
  format: "Legislative Text"
  type: "Policy"
  genre: "Healthcare Policy, Regulatory Reform"
  medium: "Digital"
  twitter-site: "https://x.com/warondisease"
  twitter-creator: "https://x.com/warondisease"
  og-site-name: "Right to Trial Act"

  # Identifiers
  # doi: ""

  # Open Graph metadata (enables per-page custom OG images)
  open-graph: true
  image: "https://manual.warondisease.org/assets/og/right-to-trial-og-1200x630.jpg"

  # Publication tracking
  publishing:
    own-site:
      url: "https://manual.warondisease.org/knowledge/appendix/right-to-trial-fda-upgrade-act.html"
      status: pending
    preprints:
      - platform: zenodo
        status: auto-uploaded
        url: "https://zenodo.org/record/19076852"
        doi: "10.5281/zenodo.19076852"

# Remove "Appendix" prefix
language:
  crossref-apx-prefix: ""
  section-title-appendices: ""

# Bibliography: Single source of truth for all citations
bibliography: references.bib
csl: nature-annotated.csl  # Renders 'abstract' field (quotes) in bibliography

jupyter: dih-project-kernel

format:
  html:
    lightbox: auto
    theme:
      - cosmo
    mermaid:
      theme: neutral
    echo: false
    number-sections: true
    toc: true
    toc-depth: 3
    css:
      - styles.css
      - economics-overrides.css
    include-before-body:
      - file: assets/html/page-loader.html
    include-after-body:
      - file: assets/html/site-enhancements-loader.html
    include-in-footer:
      - file: assets/html/generated-footer.html
    include-in-header:
      - text: |
          <!-- Icons (project-specific) -->
          <link rel="icon" type="image/png" sizes="32x32" href="/assets/icons/dih-favicon-32x32.png">
          <link rel="icon" type="image/png" sizes="16x16" href="/assets/icons/dih-favicon-16x16.png">
          <link rel="apple-touch-icon" sizes="180x180" href="/assets/icons/dih-apple-touch-icon.png">
          <link rel="icon" type="image/png" sizes="192x192" href="/assets/icons/dih-android-chrome-192x192.png">
          <link rel="icon" type="image/png" sizes="512x512" href="/assets/icons/dih-android-chrome-512x512.png">
      - file: assets/html/google-analytics.html
      - file: assets/html/hypothesis.html
      - file: assets/html/fonts-preload.html
    citation-hover: true
    code-fold: true
    link-citations: true
    smooth-scroll: true
    code-tools: false
    filters: [assets/filters/live-version-note.lua]
  pdf:
    output-file: "right-to-trial-fda-upgrade-act.pdf"
    documentclass: article
    institute: "Institute for Accelerated Medicine"
    echo: false
    toc: true
    toc-depth: 3
    number-sections: true
    colorlinks: true
    link-citations: true
    date: ""
    include-in-header:
      - callout-bw.tex
      - institute-header.tex
      - text: |
          \paperurl{https://manual.warondisease.org/knowledge/appendix/right-to-trial-fda-upgrade-act.html}
    geometry:
      - top=1in
      - bottom=1in
      - left=1in
      - right=1in
    fontsize: 11pt
    filters: [assets/filters/live-version-note.lua]