_config.yml

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# A default configuration that will be loaded for all jupyter books
# See the documentation for help and more options: 
# https://jupyterbook.org/customize/config.html

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# Book settings
title                       : Statistical Mechanics for Chemistry and Biology  # The title of the book. Will be placed in the left navbar.
author                      : Davit Potoyan  # The author of the book
copyright                   : "2021"  # Copyright year to be placed in the footer
logo                        : logo.jpg  # A path to the book logo

exclude_patterns: [_build, Thumbs.db, .DS_Store, "**.ipynb_checkpoints", LICENSE.md]
# Information about where the book exists on the web
repository:
  url                       : https://github.com/DPotoyan/Statmech4ChemBio  # Online location of your book
  branch                    : master  # Which branch of the repository should be used when creating links (optional)
  #path_to_book              : path/to/book  # Optional path to your book, relative to the repository root

launch_buttons:
  colab_url: "https://colab.research.google.com"
  thebe: true
  binderhub_url: "https://mybinder.org"
  notebook_interface: "jupyterlab"

# Auto-exclude files not in the toc
only_build_toc_files        : true
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# Execution settings
execute:
  execute_notebooks         : off  # Whether to execute notebooks at build time. Must be one of ("auto", "force", "cache", "off")
  cache                     : ""    # A path to the jupyter cache that will be used to store execution artifacts. Defaults to `_build/.jupyter_cache/`
  exclude_patterns          : []    # A list of patterns to *skip* in execution (e.g. a notebook that takes a really long time)
  timeout                   : 30    # The maximum time (in seconds) each notebook cell is allowed to run.
  run_in_temp               : false # If `True`, then a temporary directory will be created and used as the command working directory (cwd),
                                    # otherwise the notebook's parent directory will be the cwd.
  allow_errors              : false # If `False`, when a code cell raises an error the execution is stopped, otherwise all cells are always run.
  stderr_output             : show  # One of 'show', 'remove', 'remove-warn', 'warn', 'error', 'severe'


parse:
  myst_enable_extensions:  # default extensions to enable in the myst parser. See https://myst-parser.readthedocs.io/en/latest/using/syntax-optional.html
    - amsmath
    - colon_fence
    - deflist
    - dollarmath
    # - html_admonition
    - html_image
    - linkify
    - replacements
    - smartquotes
    #- substitution
  myst_url_schemes          : [mailto, http, https]  # URI schemes that will be recognised as external URLs in Markdown links

sphinx:
  config:
    html_js_files:
    - https://cdnjs.cloudflare.com/ajax/libs/require.js/2.3.4/require.min.js