completing lesson

Gemfile

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+source 'http://rubygems.org'
+gem 'github-pages'

Gemfile.lock

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+GEM
+  remote: http://rubygems.org/
+  specs:
+    RedCloth (4.2.9)
+    activesupport (4.2.5)
+      i18n (~> 0.7)
+      json (~> 1.7, >= 1.7.7)
+      minitest (~> 5.1)
+      thread_safe (~> 0.3, >= 0.3.4)
+      tzinfo (~> 1.1)
+    addressable (2.3.8)
+    blankslate (2.1.2.4)
+    classifier-reborn (2.0.4)
+      fast-stemmer (~> 1.0)
+    coffee-script (2.4.1)
+      coffee-script-source
+      execjs
+    coffee-script-source (1.10.0)
+    colorator (0.1)
+    ethon (0.8.1)
+      ffi (>= 1.3.0)
+    execjs (2.6.0)
+    faraday (0.9.2)
+      multipart-post (>= 1.2, < 3)
+    fast-stemmer (1.0.2)
+    ffi (1.9.10)
+    gemoji (2.1.0)
+    github-pages (43)
+      RedCloth (= 4.2.9)
+      github-pages-health-check (= 0.6.0)
+      jekyll (= 2.4.0)
+      jekyll-coffeescript (= 1.0.1)
+      jekyll-feed (= 0.3.1)
+      jekyll-gist (= 1.4.0)
+      jekyll-mentions (= 0.2.1)
+      jekyll-paginate (= 1.1.0)
+      jekyll-redirect-from (= 0.9.1)
+      jekyll-sass-converter (= 1.3.0)
+      jekyll-seo-tag (= 0.1.4)
+      jekyll-sitemap (= 0.9.0)
+      jemoji (= 0.5.0)
+      kramdown (= 1.9.0)
+      liquid (= 2.6.2)
+      maruku (= 0.7.0)
+      mercenary (~> 0.3)
+      pygments.rb (= 0.6.3)
+      rdiscount (= 2.1.8)
+      redcarpet (= 3.3.3)
+      terminal-table (~> 1.4)
+    github-pages-health-check (0.6.0)
+      addressable (~> 2.3)
+      net-dns (~> 0.8)
+      public_suffix (~> 1.4)
+      typhoeus (~> 0.7)
+    html-pipeline (1.9.0)
+      activesupport (>= 2)
+      nokogiri (~> 1.4)
+    i18n (0.7.0)
+    jekyll (2.4.0)
+      classifier-reborn (~> 2.0)
+      colorator (~> 0.1)
+      jekyll-coffeescript (~> 1.0)
+      jekyll-gist (~> 1.0)
+      jekyll-paginate (~> 1.0)
+      jekyll-sass-converter (~> 1.0)
+      jekyll-watch (~> 1.1)
+      kramdown (~> 1.3)
+      liquid (~> 2.6.1)
+      mercenary (~> 0.3.3)
+      pygments.rb (~> 0.6.0)
+      redcarpet (~> 3.1)
+      safe_yaml (~> 1.0)
+      toml (~> 0.1.0)
+    jekyll-coffeescript (1.0.1)
+      coffee-script (~> 2.2)
+    jekyll-feed (0.3.1)
+    jekyll-gist (1.4.0)
+      octokit (~> 4.2)
+    jekyll-mentions (0.2.1)
+      html-pipeline (~> 1.9.0)
+      jekyll (~> 2.0)
+    jekyll-paginate (1.1.0)
+    jekyll-redirect-from (0.9.1)
+      jekyll (>= 2.0)
+    jekyll-sass-converter (1.3.0)
+      sass (~> 3.2)
+    jekyll-seo-tag (0.1.4)
+      jekyll (>= 2.0)
+    jekyll-sitemap (0.9.0)
+    jekyll-watch (1.3.1)
+      listen (~> 3.0)
+    jemoji (0.5.0)
+      gemoji (~> 2.0)
+      html-pipeline (~> 1.9)
+      jekyll (>= 2.0)
+    json (1.8.3)
+    kramdown (1.9.0)
+    liquid (2.6.2)
+    listen (3.0.5)
+      rb-fsevent (>= 0.9.3)
+      rb-inotify (>= 0.9)
+    maruku (0.7.0)
+    mercenary (0.3.5)
+    mini_portile2 (2.0.0)
+    minitest (5.8.3)
+    multipart-post (2.0.0)
+    net-dns (0.8.0)
+    nokogiri (1.6.7.2)
+      mini_portile2 (~> 2.0.0.rc2)
+    octokit (4.2.0)
+      sawyer (~> 0.6.0, >= 0.5.3)
+    parslet (1.5.0)
+      blankslate (~> 2.0)
+    posix-spawn (0.3.11)
+    public_suffix (1.5.3)
+    pygments.rb (0.6.3)
+      posix-spawn (~> 0.3.6)
+      yajl-ruby (~> 1.2.0)
+    rb-fsevent (0.9.7)
+    rb-inotify (0.9.5)
+      ffi (>= 0.5.0)
+    rdiscount (2.1.8)
+    redcarpet (3.3.3)
+    safe_yaml (1.0.4)
+    sass (3.4.21)
+    sawyer (0.6.0)
+      addressable (~> 2.3.5)
+      faraday (~> 0.8, < 0.10)
+    terminal-table (1.5.2)
+    thread_safe (0.3.5)
+    toml (0.1.2)
+      parslet (~> 1.5.0)
+    typhoeus (0.8.0)
+      ethon (>= 0.8.0)
+    tzinfo (1.2.2)
+      thread_safe (~> 0.1)
+    yajl-ruby (1.2.1)
+
+PLATFORMS
+  ruby
+
+DEPENDENCIES
+  github-pages
+
+BUNDLED WITH
+   1.11.2

Makefile

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+
+all: pages handout-script.R
+
+skeleton-%.R: %.Rmd
+	Rscript -e "knitr::purl('$<', output='$@', documentation=0L)"
+
+%.html: %.Rmd
+	Rscript -e "rmarkdown::render('$<', output_format=rmarkdown::html_document(toc=TRUE, highlight='tango'))"
+
+index.html: index.md
+	pandoc -o $@ $^
+
+motivation.html: motivation.md
+	pandoc -o $@ $^
+
+handout-script.R: skeleton-00-before-we-start.R skeleton-01-intro-to-R.R skeleton-02-starting-with-data.R skeleton-03-data-frames.R skeleton-04-dplyr.R
+	for f in $^; do cat $$f; echo "\n"; done > $@
+	make clean-skeleton
+
+pages: index.html motivation.html 00-before-we-start.html 01-intro-to-R.html 02-starting-with-data.html 03-data-frames.html 04-dplyr.html 05-visualisation-ggplot2.html 06-r-and-sql.html
+	make clean-md
+
+clean-skeleton:
+	-rm skeleton-*-*.R
+
+clean-md:
+	-rm *-*.md
+
+clean-html:
+	-rm *.html
+
+clean: clean-skeleton clean-html clean-md

_config.yml

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+markdown: redcarpet
+redcarpet:
+  extensions: ["tables"]

_data/info.yml

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+- lastupdated: April 16, 2015
+  contributors: ["First Last", "First Last", "Pls Add Others"]
+  maintainers: ["First Last", "First Last"]
+  domain: Domain Name
+  topic: Topic
+  dataurl:
+  status: Under Development

_data/lessons.yml

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+- url: 00-lesson-00-name.html
+  name: Lesson 00 Name
+
+- url: 01-lesson-01-name.html
+  name: Lesson 01 Name

_includes/anySetup.html

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+
+<div id="any">
+
+  <h3>Setting Up</h3>
+
+    <p>
+      This workshop may require some software installation, and details will be included here.
+
+    </p>
+
+
+    <div class="col-md-4">
+      <h4 id="windows">Windows</h4>
+      <ol>
+	<li>
+          Download and install 
+	</li>
+	<li>
+
+	</li>
+      </ol>
+    </div>
+
+
+    <div class="col-md-4">
+      <h4 id="macosx">Mac OS X</h4>
+      <ol>
+	<li>
+          Download and install
+	</li>
+	<li>
+
+	</li>
+      </ol>
+    </div>
+
+
+
+    <div class="col-md-4">
+      <h4 id="linux">Linux</h4>
+      <ol>
+	<li>
+	  Download and install
+	</li>
+	<li>
+
+	</li>
+      </ol>
+    </div>
+
+
+</div> 

_includes/anySetup.html~

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+
+<div id="python"> <!-- Start of 'Python' section. Remove the third paragraph if
+           the workshop will teach Python using something other than
+           the IPython notebook.
+           Details at http://ipython.org/ipython-doc/2/install/install.html#browser-compatibility -->
+  <h3>Setting Up Python</h3>
+
+  <p>
+    <a href="http://python.org">Python</a> is a popular language for
+    scientific computing, and great for general-purpose programming as
+    well.  Installing all of its scientific packages individually can be
+    a bit difficult, so we recommend an all-in-one installer.
+  </p>
+
+    <p>
+      Regardless of how you choose to install it,
+      <strong>please make sure you install Python version 2.x and not version 3.x</strong>
+      (e.g., 2.7 is fine but not 3.4).
+      Python 3 introduced changes that will break some of the code we teach during the workshop.
+    </p>
+
+    <p>
+      We will teach Python using the IPython notebook, a programming environment
+      that runs in a web browser. For this to work you will need a reasonably
+      up-to-date browser. The current versions of the Chrome, Safari and
+      Firefox browsers are all <a
+      href='http://ipython.org/ipython-doc/2/install/install.html#browser-compatibility'>supported</a>
+      (some older browsers, including Internet Explorer version 9
+      and below, are not).
+    </p>
+
+
+    <div class="col-md-4">
+      <h4 id="python-windows">Windows</h4>
+      <ul>
+	<li>
+          Download and
+          install <a href="https://store.continuum.io/cshop/anaconda/">Anaconda</a>.
+	</li>
+	<li>
+          Download the default Python 2 installer (do not follow the link to version 3).
+	  Use all of the defaults for installation
+          <em>except</em> make sure to check
+	  <b>Make Anaconda the default Python</b>.
+	</li>
+      </ul>
+    </div>
+
+
+
+    <div class="col-md-4">
+      <h4 id="python-macosx">Mac OS X</h4>
+      <ul>
+	<li>
+          Download and
+          install <a href="https://store.continuum.io/cshop/anaconda/">Anaconda</a>.
+	</li>
+	<li>
+          Download the default Python 2 installer (do not follow the link to version 3).
+	  Use all of the defaults for installation.
+	</li>
+      </ul>
+    </div>
+
+
+
+    <div class="col-md-4">
+      <h4 id="python-linux">Linux</h4>
+      <p>
+	We recommend the all-in-one scientific Python installer
+	<a href="http://continuum.io/downloads.html">Anaconda</a>.
+	(Installation requires using the shell and if you aren't
+	comfortable doing the installation yourself just
+	download the installer and we'll help you at the boot
+	camp.)
+      </p>
+      <ol>
+	<li>
+          Download the installer that matches your operating
+          system and save it in your home folder.
+	  Download the default Python 2 installer (do not follow the link to version 3).
+	</li>
+	<li>
+          Open a terminal window.
+	</li>
+	<li>
+          Type <pre>bash Anaconda-</pre> and then press
+          tab. The name of the file you just downloaded should
+          appear.
+	</li>
+	<li>
+          Press enter. You will follow the text-only prompts.  When
+          there is a colon at the bottom of the screen press the down
+          arrow to move down through the text. Type <code>yes</code> and
+          press enter to approve the license. Press enter to approve the
+          default location for the files. Type <code>yes</code> and
+          press enter to prepend Anaconda to your <code>PATH</code>
+          (this makes the Anaconda distribution the default Python).
+	</li>
+      </ol>
+    </div>
+
+
+</div> 

_includes/banner.html

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+<div class="banner">
+  <a href="http://datacarpentry.org" title="Data Carpentry">
+    <img alt="Data Carpentry banner" src="{{page.root}}/img/DC1_logo_small.png" height="50px" />
+  </a>
+</div>

_includes/footer.html

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+<div class="footer">
+  <a class="label swc-blue-bg" href="{{site.facebook_url}}">Facebook</a>
+  <a class="label swc-blue-bg" href="{{site.google_plus_url}}">Google+</a>
+  <a class="label swc-blue-bg" href="{{site.twitter_url}}">Twitter</a>
+  <a class="label swc-blue-bg" href="{{site.github_url}}">GitHub</a>
+  <a class="label swc-blue-bg" href="{{page.root}}/LICENSE.html">License</a>
+  <a class="bugreport label swc-blue-bg" href="mailto:{{site.contact}}?subject=bug%20in%20{{page.path}}">Bug Report</a>
+</div>

_includes/header.html

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+<link rel="shortcut icon" type="image/x-icon" href="{{page.root}}/favicon.ico" />
+<link href="{{page.root}}/css/bootstrap/bootstrap.css" rel="stylesheet" />
+<meta name="viewport" content="width=device-width, initial-scale=1.0" />
+<link href="{{page.root}}/css/bootstrap/bootstrap-responsive.css" rel="stylesheet" />
+<link rel="stylesheet" type="text/css" href="{{page.root}}/css/swc.css" />
+<link rel="stylesheet" type="text/css" href="{{page.root}}/css/swc-bootstrap.css" />
+<meta charset="UTF-8" />
+<meta http-equiv="last-modified" content="{{site.timestamp}}" />
+<!-- HTML5 shim, for IE6-8 support of HTML5 elements -->
+<!--[if lt IE 9]>
+  <script src="http://html5shim.googlecode.com/svn/trunk/html5.js"></script>
+<![endif]-->

_includes/javascript.html

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+<!-- Le javascript
+================================================== -->
+<!-- Placed at the end of the document so the pages load faster -->
+<script src="{{page.root}}/js/jquery-1.9.1.min.js"></script>
+<script src="{{page.root}}/js/bootstrap/bootstrap.min.js"></script>

_includes/lesson-index.html

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+* [Lesson 00 Name](./00-lesson-00-name.html)
+* [Lesson 01 Name](./01-lesson-01-name.html)
+* [Lesson 02 Name](./02-lesson-02-name.html)
+* [Lesson 03 Name](./03-lesson-03-name.html)