initial commit

Author: combemale

Diff for: Gemfile

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+source "https://rubygems.org"
+ruby RUBY_VERSION
+
+# Hello! This is where you manage which Jekyll version is used to run.
+# When you want to use a different version, change it below, save the
+# file and run `bundle install`. Run Jekyll with `bundle exec`, like so:
+#
+#     bundle exec jekyll serve
+#
+# This will help ensure the proper Jekyll version is running.
+# Happy Jekylling!
+gem "jekyll", "3.4.0"
+
+# This is the default theme for new Jekyll sites. You may change this to anything you like.
+gem "minima", "~> 2.0"
+
+# If you want to use GitHub Pages, remove the "gem "jekyll"" above and
+# uncomment the line below. To upgrade, run `bundle update github-pages`.
+# gem "github-pages", group: :jekyll_plugins
+
+# If you have any plugins, put them here!
+group :jekyll_plugins do
+   gem "jekyll-feed", "~> 0.6"
+end
+
+# Windows does not include zoneinfo files, so bundle the tzinfo-data gem
+gem 'tzinfo-data', platforms: [:mingw, :mswin, :x64_mingw, :jruby]

Diff for: Gemfile.lock

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+GEM
+  remote: https://rubygems.org/
+  specs:
+    addressable (2.5.2)
+      public_suffix (>= 2.0.2, < 4.0)
+    colorator (1.1.0)
+    ffi (1.9.25)
+    forwardable-extended (2.6.0)
+    jekyll (3.6.3)
+      addressable (~> 2.4)
+      colorator (~> 1.0)
+      jekyll-sass-converter (~> 1.0)
+      jekyll-watch (~> 1.1)
+      kramdown (~> 1.3)
+      liquid (~> 3.0)
+      mercenary (~> 0.3.3)
+      pathutil (~> 0.9)
+      rouge (~> 1.7)
+      safe_yaml (~> 1.0)
+    jekyll-feed (0.11.0)
+      jekyll (~> 3.3)
+    jekyll-sass-converter (1.5.2)
+      sass (~> 3.4)
+    jekyll-watch (1.5.1)
+      listen (~> 3.0)
+    kramdown (1.17.0)
+    liquid (3.0.6)
+    listen (3.1.5)
+      rb-fsevent (~> 0.9, >= 0.9.4)
+      rb-inotify (~> 0.9, >= 0.9.7)
+      ruby_dep (~> 1.2)
+    mercenary (0.3.6)
+    minima (2.1.1)
+      jekyll (~> 3.3)
+    pathutil (0.16.2)
+      forwardable-extended (~> 2.6)
+    public_suffix (3.0.3)
+    rb-fsevent (0.10.3)
+    rb-inotify (0.9.10)
+      ffi (>= 0.5.0, < 2)
+    rouge (1.11.1)
+    ruby_dep (1.5.0)
+    safe_yaml (1.0.4)
+    sass (3.6.0)
+      sass-listen (~> 4.0.0)
+    sass-listen (4.0.0)
+      rb-fsevent (~> 0.9, >= 0.9.4)
+      rb-inotify (~> 0.9, >= 0.9.7)
+
+PLATFORMS
+  ruby
+
+DEPENDENCIES
+  jekyll (= >= 3.6.3)
+  jekyll-feed (~> 0.6)
+  minima (~> 2.0)
+  tzinfo-data
+
+RUBY VERSION
+   ruby 2.6.0p0
+
+BUNDLED WITH
+   1.17.3

Diff for: README.md

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+# Debug4Science
+Source code of the Jekyll-based website of the CEA/Inria collaboration **Debug4Science**.
+The website is deployed at https://gemoc.github.io/debug4science (https://gemoc.org/debug4science)

Diff for: _config.yml

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+# 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.
+
+# 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: Debug4Science (CEA/Inria)
+email: [email protected]
+description: Debug4Science is a research collaboration between Inria/DiverSE and CEA/DAM
+baseurl: "/debug4science" # the subpath of your site, e.g. /blog
+url: "https://gemoc.github.io/debug4science" # the base hostname & protocol for your site, e.g. http://example.com
+twitter_username: gemocinitiative
+github_username:  gemoc
+
+# Build settings
+markdown: kramdown
+theme: minima
+kramdown:
+  parse_block_html: true
+
+gems:
+  - jekyll-feed
+exclude:
+  - Gemfile
+  - Gemfile.lock
+  - README.md
+  - node_modules
+  - vendor/bundle/
+  - vendor/cache/
+  - vendor/gems/
+  - vendor/ruby/

Diff for: _includes/.DS_Store

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+<header class="site-header" role="banner">
+
+  <div class="wrapper">
+    {% assign default_paths = site.pages | map: "path" %}
+    {% assign page_paths = site.header_pages | default: default_paths %}
+    <a class="site-title" href="{{ "/" | relative_url }}">{{ site.title | escape }}</a>
+
+    {% if page_paths %}
+      <nav class="site-nav">
+        <!--<input type="checkbox" id="nav-trigger" class="nav-trigger" />-->
+        <label for="nav-trigger">
+          <span class="menu-icon">
+            <svg viewBox="0 0 18 15" width="18px" height="15px">
+              <path fill="#424242" d="M18,1.484c0,0.82-0.665,1.484-1.484,1.484H1.484C0.665,2.969,0,2.304,0,1.484l0,0C0,0.665,0.665,0,1.484,0 h15.031C17.335,0,18,0.665,18,1.484L18,1.484z"/>
+              <path fill="#424242" d="M18,7.516C18,8.335,17.335,9,16.516,9H1.484C0.665,9,0,8.335,0,7.516l0,0c0-0.82,0.665-1.484,1.484-1.484 h15.031C17.335,6.031,18,6.696,18,7.516L18,7.516z"/>
+              <path fill="#424242" d="M18,13.516C18,14.335,17.335,15,16.516,15H1.484C0.665,15,0,14.335,0,13.516l0,0 c0-0.82,0.665-1.484,1.484-1.484h15.031C17.335,12.031,18,12.696,18,13.516L18,13.516z"/>
+            </svg>
+          </span>
+        </label>
+
+        <div class="trigger">
+          <a class="page-link" href="{{ site.baseurl }}/activities.html">Activities</a>
+          <a class="page-link" href="{{ site.baseurl }}/objectives.html">Objectives</a>
+          <a class="page-link" href="{{ site.baseurl }}/publications.html">Publications</a>
+          <a class="page-link" href="{{ site.baseurl }}/software.html">Software</a>
+          <a class="page-link" href="{{ site.baseurl }}/team.html">Team</a>
+        </div>
+      </nav>
+    {% endif %}
+  </div>
+</header>

Diff for: _includes/header.html

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+{% comment %}
+
+Depends on:
+* include.pxPerMonth
+* event
+
+For each event, we display name and description
+I use `from` and `to` properties to calculate top position and height
+I also use this to calculate pretty date range display phrases 
+
+{% endcomment %}
+
+
+{% comment %} ------------------------------------------ Constants -- {% endcomment %}
+{% assign minEventHeight = 24.0 %}
+{% assign secondsPerMonth = 2628288.0 %}
+{% comment %} 60 * 60 * 24 * 30.42. It must be be a float (end with .0) so divided_by doesn't floor the result {% endcomment %}
+
+
+
+{% assign now = 1576000000 %}
+
+
+{% comment %} ---------------------------------------- Offset from top because we always draw a full year --- {% endcomment %}
+{% assign curMonth = 12 %}
+{% assign monthOffset = 12 | minus: curMonth %}
+
+
+
+{% comment %} ---------------------------------------- Default values for to and from --- {% endcomment %}
+{% if event.to == "now" %}
+{% assign to = now %}
+{% else %}
+{% assign to = event.to | date: '%s' %}
+{% endif %}
+
+{% if event.from %}
+{% assign from = event.from | date: '%s' %}
+{% else %}
+{% assign secondsPerQuarter = secondsPerMonth | times: 4 %}
+{% assign from = to | minus: secondsPerQuarter %}
+{% endif %}
+
+
+{% comment %} ---------------------------------------- Set top position and height --- {% endcomment %}
+{% comment %}
+top: now - to ( / sPerMonth * pxPerMonth)
+height: to - from ( / sPerMonth * pxPerMonth)
+{% endcomment %}
+{% assign eventAge = now | minus: to | divided_by: secondsPerMonth %}
+{% assign top = eventAge | plus: monthOffset | times: include.pxPerMonth %}
+{% assign eventLength = to | minus: from | divided_by: secondsPerMonth | plus: 1 %}
+{% comment %} plus: 1 to be inclusive. If I worked from 2016-01 to 2016-02, I should cover both months {% endcomment %}
+{% assign h = eventLength | times: include.pxPerMonth %}
+{% if h < minEventHeight %}
+  {% assign height = minEventHeight %}
+{% else %}
+  {% assign height = h %}
+{% endif %}
+
+
+
+{% comment %} ---------------------------------------- Set display strings --- {% endcomment %}
+{% assign toDateDisplay = event.to | date: '%b %Y' %}
+{% if event.from %}
+{% assign dateDisplay = event.from  | date: '%b %Y' | append: ' to ' | append: toDateDisplay %}
+{% assign yrs = eventLength | divided_by: 12 | floor %}
+{% assign mo = eventLength | modulo: 12 | floor %}
+{% if yrs == 0 %}
+{% assign duration = mo | append: 'mo' %}
+{% else %}
+{% assign duration = yrs | append: 'yr' %}
+{% if mo != 0 %}
+{% assign duration = duration | append: ' ' | append: mo | append: 'mo' %}
+{% endif %}
+{% endif %}
+
+{% else %}
+{% assign dateDisplay = toDateDisplay %}
+{% assign secondsPerQuarter = secondsPerMonth | times: 4 %}
+{% assign duration = 'event' %}
+{% endif %}
+
+
+
+<li class="event" tabindex="0"
+    style="top: {{top}}px; height: {{height}}px; min-height: {{height}}px;" title="{{event.name}}: {{dateDisplay}} ({{duration}})">
+  <div class="title">{{ event.name | markdownify }}</div>
+  <div class="description">{{ event.description | markdownify }}</div>
+</li>

Diff for: _includes/jekyll-timeline-li-event.html

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+{% comment %} ------------------------------------------ Dependencies
+  This template depends on:
+  include.startYear        // Int. Four digit year
+  include.timelineHeight   // Int. Pixel count
+  include.col1Title
+  include.col1Events: [    // Array of objects with the following fields. Can use _data/foo.yml or front matter to specify
+    {
+      name: String
+      to: Date
+      from: Date
+      description: String?
+    }
+  ]
+{% endcomment %}
+
+
+
+{% comment %} ------------------------------------------ Calculate an array of years for display -- {% endcomment %}
+{% assign endYear = 2019 %}
+{% assign yearString = "" %}
+{% for y in (include.startYear..endYear) %}
+{% assign yearString = yearString | append: y | append: ',' %}
+{% endfor %}
+{% assign years = yearString | split: ',' | reverse %}
+
+
+
+{% comment %} ------------------------------------------ Calculate pixel sizes for quantities of time
+use a float to get non-rounded output from `divided_by`: https://shopify.github.io/liquid/filters/divided_by/
+{% endcomment %}
+{% assign yearCountAsFloat = years.size | times: 1.0 %} {% comment %}  {% endcomment %}
+{% assign yearHeight = include.timelineHeight | divided_by: yearCountAsFloat %}
+{% assign monthHeight = yearHeight | divided_by: 12.0 %}
+
+
+
+<div class="jekyllTimeline">
+<div class="inner" style="height: {{include.timelineHeight}}px;"
+     data-comment="These data properties are for transparency; not actually used to build the timeline."
+     data-site-time="{{ site.time | date: '%Y-%-m' }}"
+     data-years-size="{{include.startYear}}-{{endYear}}: {{years.size}}"
+     data-year-height="{{yearHeight}}"
+     data-month-height="{{monthHeight}}">
+
+
+
+  {% comment %} --- Print out lines that represent each year -- {% endcomment %}
+
+  {% for year in years %}
+  <b class="y{{ year }}" style="height: {{yearHeight}}px; top: {{ yearHeight | times: forloop.index0 }}px;">
+    <label>{{ year }}</label>
+    {% for i in (0..11) %}
+    {% assign mo = 12 | minus: i %}
+    {% case mo %}
+    {% when 1 %}{% assign month = "January" %}
+    {% when 2 %}{% assign month = "February" %}
+    {% when 3 %}{% assign month = "March" %}
+    {% when 4 %}{% assign month = "April" %}
+    {% when 5 %}{% assign month = "May" %}
+    {% when 6 %}{% assign month = "June" %}
+    {% when 7 %}{% assign month = "July" %}
+    {% when 8 %}{% assign month = "August" %}
+    {% when 9 %}{% assign month = "September" %}
+    {% when 10 %}{% assign month = "October" %}
+    {% when 11 %}{% assign month = "November" %}
+    {% when 12 %}{% assign month = "December" %}
+    {% endcase %}
+    <i style="height: {{monthHeight}}px" title="{{month}} {{year}}"></i>
+    {% endfor %}
+  </b>
+  {% endfor %}
+
+
+
+  {% comment %} --- Print timeline event columns --- {% endcomment %}
+  {% if include.col1Events %}
+    <ol class="col col1" {% if include.col1Width %} style="flex-basis:{{include.col1Width}}" {% endif %} >
+      <li class="colTitle"><span>{{ include.col1Title }}</span></li>
+      {% for event in include.col1Events %}
+        {% include jekyll-timeline-li-event.html pxPerMonth=monthHeight %}
+      {% endfor %}
+    </ol>
+  {% endif %}
+
+  {% if include.col2Events %}
+    <ol class="col col2" {% if include.col2Width %} style="flex-basis:{{include.col2Width}}" {% endif %} >
+      <li class="colTitle"><span>{{ include.col2Title }}</span></li>
+      {% for event in include.col2Events %}
+        {% include jekyll-timeline-li-event.html pxPerMonth=monthHeight %}
+      {% endfor %}
+    </ol>
+  {% endif %}
+
+  {% if include.col3Events %}
+    <ol class="col col3" {% if include.col3Width %} style="flex-basis:{{include.col3Width}}" {% endif %} >
+      <li class="colTitle"><span>{{ include.col3Title }}</span></li>
+      {% for event in include.col3Events %}
+        {% include jekyll-timeline-li-event.html pxPerMonth=monthHeight %}
+      {% endfor %}
+    </ol>
+  {% endif %}
+
+  {% if include.col4Events %}
+    <ol class="col col4" {% if include.col4Width %} style="flex-basis:{{include.col4Width}}" {% endif %} >
+      <li class="colTitle"><span>{{ include.col4Title }}</span></li>
+      {% for event in include.col4Events %}
+        {% include jekyll-timeline-li-event.html pxPerMonth=monthHeight %}
+      {% endfor %}
+    </ol>
+  {% endif %}
+
+  {% if include.col5Events %}
+    <ol class="col col5" {% if include.col5Width %} style="flex-basis:{{include.col5Width}}" {% endif %} >
+      <li class="colTitle"><span>{{ include.col5Title }}</span></li>
+      {% for event in include.col5Events %}
+        {% include jekyll-timeline-li-event.html pxPerMonth=monthHeight %}
+      {% endfor %}
+    </ol>
+  {% endif %}
+
+</div>
+</div>