_config.yml

# Welcome to Jekyll!
#
# This config file is meant for settings that affect your whole blog, values
# which you are expected to set up once and rarely edit after that. If you find
# yourself editing this file very often, consider using Jekyll's data files
# feature for the data you need to update frequently.
#
# For technical reasons, this file is *NOT* reloaded automatically when you use
# 'bundle exec jekyll serve'. If you change this file, please restart the server process.
#
# If you need help with YAML syntax, here are some quick references for you: 
# https://learn-the-web.algonquindesign.ca/topics/markdown-yaml-cheat-sheet/#yaml
# https://learnxinyminutes.com/docs/yaml/
#
# Site settings
# These are used to personalize your new site. If you look in the HTML files,
# you will see them accessed via {{ site.title }}, {{ site.email }}, and so on.
# You can create any custom variable you would like, and they will be accessible
# in the templates via {{ site.myvariable }}.

title: WikiPathways - SANDBOX
tagline: A community curated pathway database
description: WikiPathways is a community curated pathway database dedicated to open science.
baseurl: "" # the subpath of your site, e.g. /blog
url: "https://sandbox.wikipathways.org" # the base hostname & protocol for your site, e.g. http://example.com
twitter_username: wikipathways
mastodon_username: wikipathways
github_username: wikipathways
discussion_forum: github.com/wikipathways/wikipathways-help/discussions

# Build settings
incremental: true
theme: minima 
plugins:
  - jekyll-feed
  # - jekyll-seo-tag
  - jekyll-sitemap
  - jekyll-redirect-from
  - jekyll-include-cache
  
assets:
  sources:
    -_assets/fonts
       
markdown: kramdown
#markdown: CommonMarkGhPages
#commonmark:
#  options: ["SMART", "FOOTNOTES"]
#  extensions: ["strikethrough", "autolink", "table", "tagfilter"]

# Exclude from processing.
# The following items will not be processed, by default.
# Any item listed under the `exclude:` key here will be automatically added to
# the internal "default list".
#
# Excluded items can be processed by explicitly listing the directories or
# their entries' file path in the `include:` list.
#
exclude:
#   - .sass-cache/
  - vendor
  - .jekyll-cache/
#   - gemfiles/
#   - Gemfile
#   - Gemfile.lock
#   - node_modules/
#   - vendor/bundle/
#   - vendor/cache/
#   - vendor/gems/
#   - vendor/ruby/

# Defaults
defaults:
  - scope:
      path: ""
      type: "annotations"
    values:
      layout: "annotation-page"
  - scope:
      path: ""
      type: "authors"
    values:
      layout: "author-page"
  - scope:
      path: ""
      type: "communities"
    values:
      layout: "community-page"
  - scope:
      path: ""
      type: "organisms"
    values:
      layout: "organism-page"
  - scope:
      path: ""
      type: "pathways"
    values:
      layout: "pathway-page"
  - scope:
      path: ""
      type: "drafts"
    values:
      layout: "drafts-page"
  - scope:
      path: ""
    values:
      layout: "default"
      sitemap: false

# Custom collections
collections:
  annotations:
    output: true
  authors:
    output: true
  communities:
    output: true
  organisms:
    output: true
  pathways:
    output: true
  drafts:
    output: true
  browse:
    output: true
  rmd:
    output: true