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Add missing html files
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@amrit110
amrit110 committed Apr 17, 2024
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1 change: 0 additions & 1 deletion .gitignore
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Expand Up @@ -12,7 +12,6 @@ venv
mlruns
.profile
.env
*.html
_extract
*.gzip
*checkpoint*
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120 changes: 120 additions & 0 deletions docs/source/_templates/base.html
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<!doctype html>
<html class="no-js"{% if language is not none %} lang="{{ language }}"{% endif %}>
<head>
{%- block site_meta -%}
<meta charset="utf-8"/>
<meta name="viewport" content="width=device-width,initial-scale=1"/>
<meta name="color-scheme" content="light dark">
<meta name="google-site-verification" content="i0qQRaR9OA3tSz_9tDocdcXGY27Ox_cy4FrvTHD2C_0" />

{%- if metatags %}{{ metatags }}{% endif -%}

{# Make sure all pages have a description or Bing does not like us #}
{% if 'name="description"' not in metatags %}
<meta name="description" content="CyclOps Python API documentation">
{% endif %}

{%- block linktags %}
{%- if hasdoc('about') -%}
<link rel="author" title="{{ _('About these documents') }}" href="{{ pathto('about') }}" />
{%- endif -%}
{%- if hasdoc('genindex') -%}
<link rel="index" title="{{ _('Index') }}" href="{{ pathto('genindex') }}" />
{%- endif -%}
{%- if hasdoc('search') -%}
<link rel="search" title="{{ _('Search') }}" href="{{ pathto('search') }}" />
{%- endif -%}
{%- if hasdoc('copyright') -%}
<link rel="copyright" title="{{ _('Copyright') }}" href="{{ pathto('copyright') }}" />
{%- endif -%}
{%- if next -%}
<link rel="next" title="{{ next.title|striptags|e }}" href="{{ next.link|e }}" />
{%- endif -%}
{%- if prev -%}
<link rel="prev" title="{{ prev.title|striptags|e }}" href="{{ prev.link|e }}" />
{%- endif -%}
{#- rel="canonical" (set by html_baseurl) -#}
{%- if pageurl %}
<link rel="canonical" href="{{ pageurl|e }}" />
{%- endif %}
{%- endblock linktags %}

{# Favicon #}
{%- if favicon_url -%}
<link rel="shortcut icon" href="{{ favicon_url }}"/>
{%- endif -%}

{#- Generator banner -#}
<meta name="generator" content="sphinx-{{ sphinx_version }}, furo {{ furo_version }}"/>

{# Bing webmasters meta tag #}
<meta name="msvalidate.01" content="8D2A5032F006424CAF54C0DDCD16F666" />

{%- endblock site_meta -%}

{#- Site title -#}
{%- block htmltitle -%}
{# See Sphinx monkey patch in conf.py #}
{% if 'title' in metas %}
<title>{{ metas.title }}</title>
{% elif not docstitle %}
<title>{{ title|striptags|e }}</title>
{% elif pagename == master_doc %}
<title>{{ docstitle|striptags|e }}</title>
{% else %}
<title>{{ title|striptags|e }} - {{ docstitle|striptags|e }}</title>
{% endif %}
{%- endblock -%}

{%- block styles -%}

{# Custom stylesheets #}
{%- block regular_styles -%}
{%- for css in css_files -%}
{% if css|attr("filename") -%}
{{ css_tag(css) }}
{%- else -%}
<link rel="stylesheet" href="{{ pathto(css, 1)|e }}" type="text/css" />
{%- endif %}
{% endfor -%}
{%- endblock regular_styles -%}

{#- Theme-related stylesheets -#}
{%- block theme_styles %}
{% include "partials/_head_css_variables.html" with context %}
{%- endblock -%}

{%- block extra_styles %}
{%- endblock -%}

{%- endblock styles -%}

{#- Custom front matter #}
{%- block extrahead -%}{%- endblock -%}

{# Custom JS #}
{%- block regular_scripts -%}
{% for path in script_files -%}
{{ js_tag(path) }}
{% endfor -%}
{%- endblock regular_scripts -%}

{# Theme-related JavaScript code #}
{%- block theme_scripts -%}
{%- endblock -%}

{# Footer icons #}
<script src="https://kit.fontawesome.com/2c1f516901.js" crossorigin="anonymous"></script>

</head>
<body>
{% block body %}
<script>
document.body.dataset.theme = localStorage.getItem("theme") || "auto";
</script>
{% endblock %}

{%- block scripts -%}
{%- endblock scripts -%}
</body>
</html>
231 changes: 231 additions & 0 deletions docs/source/_templates/page.html
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{% extends "base.html" %}

{% block body -%}
{{ super() }}
{% include "partials/icons.html" %}

<input type="checkbox" class="sidebar-toggle" name="__navigation" id="__navigation">
<input type="checkbox" class="sidebar-toggle" name="__toc" id="__toc">
<label class="overlay sidebar-overlay" for="__navigation">
<div class="visually-hidden">Hide navigation sidebar</div>
</label>
<label class="overlay toc-overlay" for="__toc">
<div class="visually-hidden">Hide table of contents sidebar</div>
</label>

{% if theme_announcement -%}
<div class="announcement">
<aside class="announcement-content">
{% block announcement %} {{ theme_announcement }} {% endblock announcement %}
</aside>
</div>
{%- endif %}

<div class="page">
<header class="mobile-header">
<div class="header-left">
<label class="nav-overlay-icon" for="__navigation">
<div class="visually-hidden">Toggle site navigation sidebar</div>
<i class="icon"><svg><use href="#svg-menu"></use></svg></i>
</label>
</div>
<div class="header-center">
<a href="{{ pathto(master_doc) }}"><div class="brand">{{ docstitle if docstitle else project }}</div></a>
</div>
<div class="header-right">
<div class="theme-toggle-container theme-toggle-header">
<button class="theme-toggle">
<div class="visually-hidden">Toggle Light / Dark / Auto color theme</div>
<svg class="theme-icon-when-auto"><use href="#svg-sun-half"></use></svg>
<svg class="theme-icon-when-dark"><use href="#svg-moon"></use></svg>
<svg class="theme-icon-when-light"><use href="#svg-sun"></use></svg>
</button>
</div>
<label class="toc-overlay-icon toc-header-icon{% if furo_hide_toc %} no-toc{% endif %}" for="__toc">
<div class="visually-hidden">Toggle table of contents sidebar</div>
<i class="icon"><svg><use href="#svg-toc"></use></svg></i>
</label>
</div>
</header>
<aside class="sidebar-drawer">
<div class="sidebar-container">
{% block left_sidebar %}
<div class="sidebar-sticky">
{%- for sidebar_section in sidebars %}
{%- include sidebar_section %}
{%- endfor %}
</div>
{% endblock left_sidebar %}
</div>
</aside>
<div class="main">
<div class="content">
<div class="article-container">
<a href="#" class="back-to-top muted-link">
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 24 24">
<path d="M13 20h-2V8l-5.5 5.5-1.42-1.42L12 4.16l7.92 7.92-1.42 1.42L13 8v12z"></path>
</svg>
<span>{% trans %}Back to top{% endtrans %}</span>
</a>
<div class="content-icon-container">
{% if theme_top_of_page_button == "edit" -%}
{%- include "components/edit-this-page.html" with context -%}
{%- elif theme_top_of_page_button != None -%}
{{ warning("Got an unsupported value for 'top_of_page_button'") }}
{%- endif -%}
{#- Theme toggle -#}
<div class="theme-toggle-container theme-toggle-content">
<button class="theme-toggle">
<div class="visually-hidden">Toggle Light / Dark / Auto color theme</div>
<svg class="theme-icon-when-auto"><use href="#svg-sun-half"></use></svg>
<svg class="theme-icon-when-dark"><use href="#svg-moon"></use></svg>
<svg class="theme-icon-when-light"><use href="#svg-sun"></use></svg>
</button>
</div>
<label class="toc-overlay-icon toc-content-icon{% if furo_hide_toc %} no-toc{% endif %}" for="__toc">
<div class="visually-hidden">Toggle table of contents sidebar</div>
<i class="icon"><svg><use href="#svg-toc"></use></svg></i>
</label>
</div>
<article role="main">
{% block content %}{{ body }}{% endblock %}
</article>
</div>
<footer>
{% block footer %}
<div class="related-pages">
{% if next -%}
<a class="next-page" href="{{ next.link }}">
<div class="page-info">
<div class="context">
<span>{{ _("Next") }}</span>
</div>
<div class="title">{{ next.title }}</div>
</div>
<svg class="furo-related-icon"><use href="#svg-arrow-right"></use></svg>
</a>
{%- endif %}
{% if prev -%}
<a class="prev-page" href="{{ prev.link }}">
<svg class="furo-related-icon"><use href="#svg-arrow-right"></use></svg>
<div class="page-info">
<div class="context">
<span>{{ _("Previous") }}</span>
</div>
{% if prev.link == pathto(master_doc) %}
<div class="title">{{ _("Home") }}</div>
{% else %}
<div class="title">{{ prev.title }}</div>
{% endif %}
</div>
</a>
{%- endif %}
</div>
<div class="bottom-of-page">
<div class="left-details">
{%- if show_copyright %}
<div class="copyright">
{%- if hasdoc('copyright') %}
{% trans path=pathto('copyright'), copyright=copyright|e -%}
<a href="{{ path }}">Copyright</a> &#169; {{ copyright }}
{%- endtrans %}
{%- else %}
{% trans copyright=copyright|e -%}
Copyright &#169; {{ copyright }}
{%- endtrans %}
{%- endif %}
</div>
{%- endif %}
<!--
{% trans %}Made with {% endtrans -%}
{%- if show_sphinx -%}
{% trans %}<a href="https://www.sphinx-doc.org/">Sphinx</a> and {% endtrans -%}
<a class="muted-link" href="https://pradyunsg.me">@pradyunsg</a>'s
{% endif -%}
{% trans %}
<a href="https://github.com/pradyunsg/furo">Furo</a>
{% endtrans %}
-->
{%- if last_updated -%}
<div class="last-updated">
{% trans last_updated=last_updated|e -%}
Last updated on {{ last_updated }}
{%- endtrans -%}
</div>
{%- endif %}
</div>
<div class="right-details">
{% if theme_footer_icons or READTHEDOCS -%}
<div class="icons">
{% if theme_footer_icons -%}
{% for icon_dict in theme_footer_icons -%}
<a class="muted-link {{ icon_dict.class }}" href="{{ icon_dict.url }}" aria-label="{{ icon_dict.name }}">
{{- icon_dict.html -}}
</a>
{% endfor %}
{%- else -%}
{#- Show Read the Docs project -#}
{%- if READTHEDOCS and slug -%}
<a class="muted-link" href="https://readthedocs.org/projects/{{ slug }}" aria-label="On Read the Docs">
<svg x="0px" y="0px" viewBox="-125 217 360 360" xml:space="preserve">
<path fill="currentColor" d="M39.2,391.3c-4.2,0.6-7.1,4.4-6.5,8.5c0.4,3,2.6,5.5,5.5,6.3 c0,0,18.5,6.1,50,8.7c25.3,2.1,54-1.8,54-1.8c4.2-0.1,7.5-3.6,7.4-7.8c-0.1-4.2-3.6-7.5-7.8-7.4c-0.5,0-1,0.1-1.5,0.2 c0,0-28.1,3.5-50.9,1.6c-30.1-2.4-46.5-7.9-46.5-7.9C41.7,391.3,40.4,391.1,39.2,391.3z M39.2,353.6c-4.2,0.6-7.1,4.4-6.5,8.5 c0.4,3,2.6,5.5,5.5,6.3c0,0,18.5,6.1,50,8.7c25.3,2.1,54-1.8,54-1.8c4.2-0.1,7.5-3.6,7.4-7.8c-0.1-4.2-3.6-7.5-7.8-7.4 c-0.5,0-1,0.1-1.5,0.2c0,0-28.1,3.5-50.9,1.6c-30.1-2.4-46.5-7.9-46.5-7.9C41.7,353.6,40.4,353.4,39.2,353.6z M39.2,315.9 c-4.2,0.6-7.1,4.4-6.5,8.5c0.4,3,2.6,5.5,5.5,6.3c0,0,18.5,6.1,50,8.7c25.3,2.1,54-1.8,54-1.8c4.2-0.1,7.5-3.6,7.4-7.8 c-0.1-4.2-3.6-7.5-7.8-7.4c-0.5,0-1,0.1-1.5,0.2c0,0-28.1,3.5-50.9,1.6c-30.1-2.4-46.5-7.9-46.5-7.9 C41.7,315.9,40.4,315.8,39.2,315.9z M39.2,278.3c-4.2,0.6-7.1,4.4-6.5,8.5c0.4,3,2.6,5.5,5.5,6.3c0,0,18.5,6.1,50,8.7 c25.3,2.1,54-1.8,54-1.8c4.2-0.1,7.5-3.6,7.4-7.8c-0.1-4.2-3.6-7.5-7.8-7.4c-0.5,0-1,0.1-1.5,0.2c0,0-28.1,3.5-50.9,1.6 c-30.1-2.4-46.5-7.9-46.5-7.9C41.7,278.2,40.4,278.1,39.2,278.3z M-13.6,238.5c-39.6,0.3-54.3,12.5-54.3,12.5v295.7 c0,0,14.4-12.4,60.8-10.5s55.9,18.2,112.9,19.3s71.3-8.8,71.3-8.8l0.8-301.4c0,0-25.6,7.3-75.6,7.7c-49.9,0.4-61.9-12.7-107.7-14.2 C-8.2,238.6-10.9,238.5-13.6,238.5z M19.5,257.8c0,0,24,7.9,68.3,10.1c37.5,1.9,75-3.7,75-3.7v267.9c0,0-19,10-66.5,6.6 C59.5,536.1,19,522.1,19,522.1L19.5,257.8z M-3.6,264.8c4.2,0,7.7,3.4,7.7,7.7c0,4.2-3.4,7.7-7.7,7.7c0,0-12.4,0.1-20,0.8 c-12.7,1.3-21.4,5.9-21.4,5.9c-3.7,2-8.4,0.5-10.3-3.2c-2-3.7-0.5-8.4,3.2-10.3c0,0,0,0,0,0c0,0,11.3-6,27-7.5 C-16,264.9-3.6,264.8-3.6,264.8z M-11,302.6c4.2-0.1,7.4,0,7.4,0c4.2,0.5,7.2,4.3,6.7,8.5c-0.4,3.5-3.2,6.3-6.7,6.7 c0,0-12.4,0.1-20,0.8c-12.7,1.3-21.4,5.9-21.4,5.9c-3.7,2-8.4,0.5-10.3-3.2c-2-3.7-0.5-8.4,3.2-10.3c0,0,11.3-6,27-7.5 C-20.5,302.9-15.2,302.7-11,302.6z M-3.6,340.2c4.2,0,7.7,3.4,7.7,7.7s-3.4,7.7-7.7,7.7c0,0-12.4-0.1-20,0.7 c-12.7,1.3-21.4,5.9-21.4,5.9c-3.7,2-8.4,0.5-10.3-3.2c-2-3.7-0.5-8.4,3.2-10.3c0,0,11.3-6,27-7.5C-16,340.1-3.6,340.2-3.6,340.2z" />
</svg>
</a>
{%- endif -%}
{#- Show GitHub repository home -#}
{%- if READTHEDOCS and display_github and github_user != "None" and github_repo != "None" -%}
<a class="muted-link" href="https://github.com/{{ github_user }}/{{ github_repo }}" aria-label="On GitHub">
<svg stroke="currentColor" fill="currentColor" stroke-width="0" viewBox="0 0 16 16">
<path fill-rule="evenodd" d="M8 0C3.58 0 0 3.58 0 8c0 3.54 2.29 6.53 5.47 7.59.4.07.55-.17.55-.38 0-.19-.01-.82-.01-1.49-2.01.37-2.53-.49-2.69-.94-.09-.23-.48-.94-.82-1.13-.28-.15-.68-.52-.01-.53.63-.01 1.08.58 1.23.82.72 1.21 1.87.87 2.33.66.07-.52.28-.87.51-1.07-1.78-.2-3.64-.89-3.64-3.95 0-.87.31-1.59.82-2.15-.08-.2-.36-1.02.08-2.12 0 0 .67-.21 2.2.82.64-.18 1.32-.27 2-.27.68 0 1.36.09 2 .27 1.53-1.04 2.2-.82 2.2-.82.44 1.1.16 1.92.08 2.12.51.56.82 1.27.82 2.15 0 3.07-1.87 3.75-3.65 3.95.29.25.54.73.54 1.48 0 1.07-.01 1.93-.01 2.2 0 .21.15.46.55.38A8.013 8.013 0 0 0 16 8c0-4.42-3.58-8-8-8z"></path>
</svg>
</a>
{%- endif -%}
{%- endif %}
</div>
{%- endif %}
</div>
</div>
<div class="footer-container" style="text-align: center;">
<div class="footer-small-text">
<br> All <a href="https://github.com/VectorInstitute/cycquery">source code for cycquery</a> is freely available under the terms of an <a href="https://opensource.org/licenses/Apache-2.0">Apache-2.0</a> license.
</div>

<div class="footer-small-text">
This work is made possible due to the data obtained from the <a href="https://www.geminimedicine.ca/">GEMINI study</a>.
</div>

<div class="logo">
<a class="logo" href="https://vectorinstitute.ai/">
<span class="logo"></span>
<img alt="Logo of the Vector Institute" style="width:90px; max-width:90px;" src="{{ pathto('_static/logos/vector_logo.png', 1) }}" />
</a>
<a class="logo" href="https://www.geminimedicine.ca/">
<span class="logo"></span>
<img alt="Logo of GEMINI" style="width:90px; max-width:90px;" src="{{ pathto('_static/logos/gemini_logo.png', 1) }}" />
</a>
</div>
</div>
{% endblock footer %}
</footer>
</div>
<aside class="toc-drawer{% if furo_hide_toc %} no-toc{% endif %}">
{% block right_sidebar %}
{% if not furo_hide_toc %}
<div class="toc-sticky toc-scroll">
<div class="toc-title-container">
<span class="toc-title">
{{ _("On this page") }}
</span>
</div>
<div class="toc-tree-container">
<div class="toc-tree">
{{ toc }}
</div>
</div>
</div>
{% endif %}
{% endblock right_sidebar %}
</aside>
</div>
</div>
{%- endblock %}

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