_config.yml

# -----------------------------------------------------------------------------
# Site settings
# -----------------------------------------------------------------------------

title: Enquist Lab # the website title (if blank, full name will be used instead)
first_name: Brian
middle_name: J.
last_name: Enquist
contact_note: >
  The best way to reach me is by email. I am based at the University of Arizona and the Santa Fe Institute.
description: > # the ">" symbol means to ignore newlines until "footer_text:"
  Macroecology Lab at the University of Arizona and Santa Fe Institute.
  Scaling from cells to the biosphere: global ecology, functional biology, and biodiversity science.
footer_text: >
  Powered by <a href="https://jekyllrb.com/" target="_blank">Jekyll</a> with <a href="https://github.com/alshedivat/al-folio">al-folio</a> theme.
  Hosted by <a href="https://pages.github.com/" target="_blank">GitHub Pages</a>.
keywords: macroecology, biodiversity, trait-based ecology, BIEN, plant functional traits, scaling, University of Arizona, Santa Fe Institute
lang: en
icon: 🌿

url: https://enquistlab.github.io
baseurl: ""
last_updated: true
back_to_top: true

# -----------------------------------------------------------------------------
# Theme
# -----------------------------------------------------------------------------
repo_theme_light: default
repo_theme_dark: dark
repo_trophies:
  enabled: false

external_services:
  github_readme_stats_url: https://github-readme-stats.vercel.app
  github_profile_trophy_url: https://github-profile-trophy.vercel.app

# -----------------------------------------------------------------------------
# RSS Feed
# -----------------------------------------------------------------------------

# -----------------------------------------------------------------------------
# Layout
# -----------------------------------------------------------------------------
navbar_fixed: true
footer_fixed: true
search_enabled: true
socials_in_search: true
posts_in_search: true
bib_search: true

max_width: 1000px

# -----------------------------------------------------------------------------
# Open Graph & Schema.org
# -----------------------------------------------------------------------------
serve_og_meta: true
serve_schema_org: true
og_image:

# -----------------------------------------------------------------------------
# Analytics and search engine verification
# -----------------------------------------------------------------------------
google_site_verification:

# -----------------------------------------------------------------------------
# Blog
# -----------------------------------------------------------------------------
blog_name: Enquist Lab News
blog_description: Updates from the Enquist Macroecology Lab
permalink: /blog/:year/:title/
lsi: false

pagination:
  enabled: true

related_blog_posts:
  enabled: true
  max_related: 5

giscus:
  repo:
  repo_id:
  category: Comments
  category_id:
  mapping: title
  strict: 1
  reactions_enabled: 1
  input_position: bottom
  dark_theme: dark
  light_theme: light
  emit_metadata: 0
  lang: en

disqus_shortname:

external_sources:
  - name: wordpress
    rss_url: https://brianjenquist.wordpress.com/feed/
    categories: [legacy-wordpress]
    tags: [wordpress, archive]

# -----------------------------------------------------------------------------
# Newsletter
# -----------------------------------------------------------------------------
newsletter:
  enabled: false

# -----------------------------------------------------------------------------
# Collections
# -----------------------------------------------------------------------------
collections:
  books:
    output: true
  news:
    defaults:
      layout: post
    output: true
  projects:
    output: true
  teachings:
    output: true

# -----------------------------------------------------------------------------
# Jekyll settings
# -----------------------------------------------------------------------------
markdown: kramdown
highlighter: rouge
kramdown:
  input: GFM
  syntax_highlighter_opts:
    css_class: "highlight"
    span:
      line_numbers: false
    block:
      line_numbers: false
      start_line: 1

include: ["_pages", "_scripts"]
exclude:
  - bin/
  - CONTRIBUTING.md
  - CUSTOMIZE.md
  - Dockerfile
  - docker-compose.yml
  - docker-compose-slim.yml
  - FAQ.md
  - Gemfile
  - Gemfile.lock
  - INSTALL.md
  - LICENSE
  - lighthouse_results/
  - package.json
  - package-lock.json
  - _pages/about_einstein.md
  - purgecss.config.js
  - README.md
  - readme_preview/
  - vendor
keep_files:
  - CNAME
  - .nojekyll

plugins:
  - jekyll-3rd-party-libraries
  - jekyll-cache-bust
  - jekyll-email-protect
  - jekyll-feed
  - jekyll-get-json
  - jekyll-jupyter-notebook
  - jekyll-link-attributes
  - jekyll-minifier
  - jekyll-paginate-v2
  - jekyll-regex-replace
  - jekyll/scholar
  - jekyll-sitemap
  - jekyll-socials
  - jekyll-tabs
  - jekyll-terser
  - jekyll-toc
  - jekyll-twitter-plugin

# -----------------------------------------------------------------------------
# Jekyll Scholar
# -----------------------------------------------------------------------------
scholar:
  last_name: [Enquist]
  first_name: [Brian, B., B.J.]

  style: apa
  locale: en

  source: /_bibliography/
  bibliography: papers.bib
  bibliography_template: bib

  replace_strings: true
  join_strings: true

  details_dir: bibliography
  details_layout: bibtex.html
  details_link: Details

  query: "@*"
  group_by: year
  group_order: descending

enable_publication_badges:
  altmetric: true
  dimensions: true
  google_scholar: true
  inspirehep: false

filtered_bibtex_keywords:
  [
    abbr,
    abstract,
    additional_info,
    altmetric,
    annotation,
    arxiv,
    award,
    award_name,
    bibtex_show,
    blog,
    code,
    dimensions,
    eprint,
    google_scholar_id,
    hal,
    html,
    inspirehep_id,
    pdf,
    pmid,
    poster,
    preview,
    selected,
    slides,
    supp,
    video,
    website,
  ]

max_author_limit: 5
more_authors_animation_delay: 10
enable_publication_thumbnails: false

# -----------------------------------------------------------------------------
# Jekyll Link Attributes
# -----------------------------------------------------------------------------
external_links:
  enabled: true
  rel: external nofollow noopener
  target: _blank

# -----------------------------------------------------------------------------
# Responsive WebP Images
# -----------------------------------------------------------------------------
imagemagick:
  enabled: false
  widths: [480, 800, 1400]
  input_directories:
    - assets/img/
  input_formats:
    - ".jpg"
    - ".jpeg"
    - ".png"
    - ".tiff"
  output_formats:
    webp: "-quality 85"

# -----------------------------------------------------------------------------
# Jekyll Minifier
# -----------------------------------------------------------------------------
jekyll-minifier:
  compress_javascript: true
  uglifier_args:
    harmony: true

# -----------------------------------------------------------------------------
# Jekyll Archives
# -----------------------------------------------------------------------------
jekyll-archives:
  enabled: [year, tags, categories]
  layouts:
    year: archive-year
    tag: archive-tag
    category: archive-category
  permalinks:
    year: "/blog/:year/"
    tag: "/blog/tag/:name/"
    category: "/blog/category/:name/"

# -----------------------------------------------------------------------------
# HTML Compression
# -----------------------------------------------------------------------------
compress_html:
  clippings: all
  comments: all
  endings: all
  profile: false
  blanklines: false
  ignore:
    envs: [development]

# -----------------------------------------------------------------------------
# Jekyll TOC
# -----------------------------------------------------------------------------
toc:
  min_level: 1
  max_level: 2

# -----------------------------------------------------------------------------
# Misc
# -----------------------------------------------------------------------------
enable_darkmode: true
enable_navbar_social: false
enable_project_categories: true
enable_medium_zoom: true
enable_progressbar: true
enable_video_embedding: false
enable_cookie_consent: false
third_party_libraries:
  download: false # if true, download the versions of the libraries specified below and use the downloaded files
  bootstrap-table:
    integrity:
      css: "sha256-uRX+PiRTR4ysKFRCykT8HLuRCub26LgXJZym3Yeom1c="
      js: "sha256-4rppopQE9POKfukn2kEvhJ9Um25Cf6+IDVkARD0xh78="
    url:
      css: "https://cdn.jsdelivr.net/npm/bootstrap-table@{{version}}/dist/bootstrap-table.min.css"
      js: "https://cdn.jsdelivr.net/npm/bootstrap-table@{{version}}/dist/bootstrap-table.min.js"
    version: "1.22.4"
  chartjs:
    integrity:
      js: "sha256-0q+JdOlScWOHcunpUk21uab1jW7C1deBQARHtKMcaB4="
    url:
      js: "https://cdn.jsdelivr.net/npm/chart.js@{{version}}/dist/chart.umd.min.js"
    version: "4.4.1"
  d3:
    integrity:
      js: "sha256-1rA678n2xEx7x4cTZ5x4wpUCj6kUMZEZ5cxLSVSFWxw="
    url:
      js: "https://cdn.jsdelivr.net/npm/d3@{{version}}/dist/d3.min.js"
    version: "7.8.5"
  diff2html:
    integrity:
      css: "sha256-IMBK4VNZp0ivwefSn51bswdsrhk0HoMTLc2GqFHFBXg="
      js: "sha256-eU2TVHX633T1o/bTQp6iIJByYJEtZThhF9bKz/DcbbY="
    url:
      css: "https://cdn.jsdelivr.net/npm/diff2html@{{version}}/bundles/css/diff2html.min.css"
      js: "https://cdn.jsdelivr.net/npm/diff2html@{{version}}/bundles/js/diff2html-ui.min.js"
    version: "3.4.47"
  echarts:
    integrity:
      js:
        library: "sha256-QvgynZibb2U53SsVu98NggJXYqwRL7tg3FeyfXvPOUY="
        dark_theme: "sha256-sm6Ui9w41++ZCWmIWDLC18a6ki72FQpWDiYTDxEPXwU="
    url:
      js:
        library: "https://cdn.jsdelivr.net/npm/echarts@{{version}}/dist/echarts.min.js"
        dark_theme: "https://cdn.jsdelivr.net/npm/echarts@{{version}}/theme/dark-fresh-cut.js"
    version: "5.5.0"
  google_fonts:
    url:
      fonts: "https://fonts.googleapis.com/css2?family=Source+Sans+3:wght@300;400;500;600;700&family=Source+Serif+4:wght@400;600;700&family=Material+Icons&display=swap"
  highlightjs:
    integrity:
      css:
        light: "sha256-Oppd74ucMR5a5Dq96FxjEzGF7tTw2fZ/6ksAqDCM8GY="
        dark: "sha256-nyCNAiECsdDHrr/s2OQsp5l9XeY2ZJ0rMepjCT2AkBk="
    url:
      css:
        light: "https://cdn.jsdelivr.net/npm/highlight.js@{{version}}/styles/github.min.css"
        dark: "https://cdn.jsdelivr.net/npm/highlight.js@{{version}}/styles/github-dark.min.css"
    version: "11.9.0"
  imagesloaded:
    integrity:
      js: "sha256-htrLFfZJ6v5udOG+3kNLINIKh2gvoKqwEhHYfTTMICc="
    url:
      js: https://cdn.jsdelivr.net/npm/imagesloaded@{{version}}/imagesloaded.pkgd.min.js
    version: "5.0.0"
  img-comparison-slider:
    integrity:
      css: "sha256-3qTIuuUWIFnnU3LpQMjqiXc0p09rvd0dmj+WkpQXSR8="
      js: "sha256-EXHg3x1K4oIWdyohPeKX2ZS++Wxt/FRPH7Nl01nat1o="
      map: "sha256-3wfqS2WU5kGA/ePcgFzJXl5oSN1QsgZI4/edprTgX8w="
    url:
      css: "https://cdn.jsdelivr.net/npm/img-comparison-slider@{{version}}/dist/styles.min.css"
      js: "https://cdn.jsdelivr.net/npm/img-comparison-slider@{{version}}/dist/index.min.js"
      map: "https://cdn.jsdelivr.net/npm/img-comparison-slider@{{version}}/dist/index.js.map"
    version: "8.0.6"
  jquery:
    integrity:
      js: "sha256-/xUj+3OJU5yExlq6GSYGSHk7tPXikynS7ogEvDej/m4="
    url:
      js: "https://cdn.jsdelivr.net/npm/jquery@{{version}}/dist/jquery.min.js"
    version: "3.6.0"
  leaflet:
    integrity:
      css: "sha256-q9ba7o845pMPFU+zcAll8rv+gC+fSovKsOoNQ6cynuQ="
      js: "sha256-MgH13bFTTNqsnuEoqNPBLDaqxjGH+lCpqrukmXc8Ppg="
      js_map: "sha256-YAoQ3FzREN4GmVENMir8vgHHypC0xfSK3CAxTHCqx1M="
    local:
      images: "images/"
    url:
      css: "https://cdn.jsdelivr.net/npm/leaflet@{{version}}/dist/leaflet.min.css"
      images: "https://cdn.jsdelivr.net/npm/leaflet@{{version}}/dist/images/"
      js: "https://cdn.jsdelivr.net/npm/leaflet@{{version}}/dist/leaflet.min.js"
      js_map: "https://cdn.jsdelivr.net/npm/leaflet@{{version}}/dist/leaflet.js.map"
    version: "1.9.4"
  lightbox2:
    integrity:
      css: "sha256-uypRbsAiJcFInM/ndyI/JHpzNe6DtUNXaWEUWEPfMGo="
      js: "sha256-A6jI5V9s1JznkWwsBaRK8kSeXLgIqQfxfnvdDOZEURY="
    url:
      css: "https://cdn.jsdelivr.net/npm/lightbox2@{{version}}/dist/css/lightbox.min.css"
      js: "https://cdn.jsdelivr.net/npm/lightbox2@{{version}}/dist/js/lightbox.min.js"
    version: "2.11.5"
  mathjax:
    integrity:
      js: "sha256-MASABpB4tYktI2Oitl4t+78w/lyA+D7b/s9GEP0JOGI="
    local:
      fonts: "output/chtml/fonts/woff-v2/"
    url:
      fonts: "https://cdn.jsdelivr.net/npm/mathjax@{{version}}/es5/output/chtml/fonts/woff-v2/"
      js: "https://cdn.jsdelivr.net/npm/mathjax@{{version}}/es5/tex-mml-chtml.js"
    version: "3.2.2"
  masonry:
    integrity:
      js: "sha256-Nn1q/fx0H7SNLZMQ5Hw5JLaTRZp0yILA/FRexe19VdI="
    url:
      js: "https://cdn.jsdelivr.net/npm/masonry-layout@{{version}}/dist/masonry.pkgd.min.js"
    version: "4.2.2"
  mdb:
    integrity:
      css: "sha256-jpjYvU3G3N6nrrBwXJoVEYI/0zw8htfFnhT9ljN3JJw="
      css_map: "sha256-iYYMNfsJdVZjvsebJulg09miBXM4/GMTJgv1u5EZFFM="
      js: "sha256-NdbiivsvWt7VYCt6hYNT3h/th9vSTL4EDWeGs5SN3DA="
      js_map: "sha256-UPgyn4YNsT0khkBK5553QwhnlbTlU0aa+igyc6qP1bE="
    url:
      css: "https://cdn.jsdelivr.net/npm/mdbootstrap@{{version}}/css/mdb.min.css"
      css_map: "https://cdn.jsdelivr.net/npm/mdbootstrap@{{version}}/css/mdb.min.css.map"
      js: "https://cdn.jsdelivr.net/npm/mdbootstrap@{{version}}/js/mdb.min.js"
      js_map: "https://cdn.jsdelivr.net/npm/mdbootstrap@{{version}}/js/mdb.min.js.map"
    version: "4.20.0"
  medium_zoom:
    integrity:
      js: "sha256-ZgMyDAIYDYGxbcpJcfUnYwNevG/xi9OHKaR/8GK+jWc="
    url:
      js: "https://cdn.jsdelivr.net/npm/medium-zoom@{{version}}/dist/medium-zoom.min.js"
    version: "1.1.0"
  mermaid:
    integrity:
      js: "sha256-TtLOdUA8mstPoO6sGvHIGx2ceXrrX4KgIItO06XOn8A="
    url:
      js: "https://cdn.jsdelivr.net/npm/mermaid@{{version}}/dist/mermaid.min.js"
    version: "10.7.0"
  photoswipe:
    integrity:
      js: "sha256-VCBpdxvrNNxGHNuTdNqK9kPFkev2XY7DYzHdmgaB69Q="
    url:
      css: "https://cdn.jsdelivr.net/npm/photoswipe@{{version}}/dist/photoswipe.min.css"
      js: "https://cdn.jsdelivr.net/npm/photoswipe@{{version}}/dist/photoswipe.esm.min.js"
    version: "5.4.4"
  photoswipe-lightbox:
    integrity:
      js: "sha256-uCw4VgT5DMdwgtjhvU9e98nT2mLZXcw/8WkaTrDd3RI="
    url:
      js: "https://cdn.jsdelivr.net/npm/photoswipe@{{version}}/dist/photoswipe-lightbox.esm.min.js"
    version: "5.4.4"
  plotly:
    integrity:
      js: "sha256-oy6Be7Eh6eiQFs5M7oXuPxxm9qbJXEtTpfSI93dW16Q="
    url:
      js: "https://cdn.jsdelivr.net/npm/plotly.js@{{version}}/dist/plotly.min.js"
    version: "3.0.1"
  polyfill:
    url:
      js: "https://cdnjs.cloudflare.com/polyfill/v{{version}}/polyfill.min.js?features=es6"
    version: "3"
  pseudocode:
    integrity:
      css: "sha256-VwMV//xgBPDyRFVSOshhRhzJRDyBmIACniLPpeXNUdc="
      js: "sha256-aVkDxqyzrB+ExUsOY9PdyelkDhn/DfrjWu08aVpqNlo="
    url:
      css: "https://cdn.jsdelivr.net/npm/pseudocode@{{version}}/build/pseudocode.min.css"
      js: "https://cdn.jsdelivr.net/npm/pseudocode@{{version}}/build/pseudocode.min.js"
    version: "2.4.1"
  spotlight:
    integrity:
      css: "sha256-Dsvkx8BU8ntk9Iv+4sCkgHRynYSQQFP6gJfBN5STFLY="
    url:
      css: "https://cdn.jsdelivr.net/npm/spotlight.js@{{version}}/dist/css/spotlight.min.css"
      js: "https://cdn.jsdelivr.net/npm/spotlight.js@{{version}}/dist/spotlight.bundle.min.js"
    version: "0.7.8"
  swiper:
    integrity:
      css: "sha256-yUoNxsvX+Vo8Trj3lZ/Y5ZBf8HlBFsB6Xwm7rH75/9E="
      js: "sha256-BPrwikijIybg9OQC5SYFFqhBjERYOn97tCureFgYH1E="
      map: "sha256-lbF5CsospW93otqvWOIbbhj80CjazrZXvamD7nC7TBI="
    url:
      css: "https://cdn.jsdelivr.net/npm/swiper@{{version}}/swiper-bundle.min.css"
      js: "https://cdn.jsdelivr.net/npm/swiper@{{version}}/swiper-element-bundle.min.js"
      map: "https://cdn.jsdelivr.net/npm/swiper@{{version}}/swiper-element-bundle.min.js.map"
    version: "11.0.5"
  swiper-map:
    integrity:
      js: "sha256-hlZaH8ySXX97bZaetnrtYlKuhx3oEXFz/s2IXchu6vk="
    url:
      js: "https://cdn.jsdelivr.net/npm/swiper@11.1.0/swiper-element-bundle.min.js.map"
    version: "11.0.5"
  vanilla-cookieconsent:
    integrity:
      css: "sha256-ygRrixsQlBByBZiOcJamh7JByO9fP+/l5UPtKNJmRsE="
      js: "sha256-vG4vLmOB/AJbJ6awr7Wg4fxonG+fxAp4cIrbIFTvRXU="
    url:
      css: "https://cdn.jsdelivr.net/npm/vanilla-cookieconsent@{{version}}/dist/cookieconsent.css"
      js: "https://cdn.jsdelivr.net/npm/vanilla-cookieconsent@{{version}}/dist/cookieconsent.umd.js"
    version: "3.1.0"
  vega:
    integrity:
      js: "sha256-Yot/cfgMMMpFwkp/5azR20Tfkt24PFqQ6IQS+80HIZs="
      js_map: "sha256-z0x9ICA65dPkZ0JVa9wTImfF6n7AJsKc6WlFE96/wNA="
    url:
      js: "https://cdn.jsdelivr.net/npm/vega@{{version}}/build/vega.min.js"
      js_map: "https://cdn.jsdelivr.net/npm/vega@{{version}}/build/vega.min.js.map"
    version: "5.27.0"
  vega-embed:
    integrity:
      js: "sha256-FPCJ9JYCC9AZSpvC/t/wHBX7ybueZhIqOMjpWqfl3DU="
      js_map: "sha256-VBbfSEFYSMdX/rTdGrONEHNP6BprCB7H/LpMMNt/cPA="
    url:
      js: "https://cdn.jsdelivr.net/npm/vega-embed@{{version}}/build/vega-embed.min.js"
      js_map: "https://cdn.jsdelivr.net/npm/vega-embed@{{version}}/build/vega-embed.min.js.map"
    version: "6.24.0"
  vega-lite:
    integrity:
      js: "sha256-TvBvIS5jUN4BSy009usRjNzjI1qRrHPYv7xVLJyjUyw="
      js_map: "sha256-l2I4D5JC23Ulsu6e3sKVe5AJ+r+DFkzkKnZS8nUGz28="
    url:
      js: "https://cdn.jsdelivr.net/npm/vega-lite@{{version}}/build/vega-lite.min.js"
      js_map: "https://cdn.jsdelivr.net/npm/vega-lite@{{version}}/build/vega-lite.min.js.map"
    version: "5.16.3"
  venobox:
    integrity:
      css: "sha256-ohJEB0/WsBOdBD+gQO/MGfyJSbTUI8OOLbQGdkxD6Cg="
      js: "sha256-LsGXHsHMMmTcz3KqTaWvLv6ome+7pRiic2LPnzTfiSo="
    url:
      css: "https://cdn.jsdelivr.net/npm/venobox@{{version}}/dist/venobox.min.css"
      js: "https://cdn.jsdelivr.net/npm/venobox@{{version}}/dist/venobox.min.js"
    version: "2.1.8"