tutorial_hands_on.html

---
layout: base
---

{% comment %}
TODO(hexylena) someday resolve the duplication of topic_material, own_material, and new_material.

We should ONLY be using new_material (if at all possible.)
{% endcomment %}

{% assign topic = site.data[page.topic_name] %}
{% assign contributors = site.data['contributors'] %}
{% assign topic_material = site | topic_filter:page.topic_name %}
{% assign language = site.other_languages  %}

{% assign intro_link = false %}
{% assign intro_target = "" %}
{% assign associated_slides = false %}
{% assign own_material = null %}
{% for material in topic_material %}
    {% if material.draft != "true" or jekyll.environment != "production"  %}
        {% if material.tutorial_name == page.tutorial_name %}
            {% assign own_material = material %}
            {% if material.slides  %}
                {% assign associated_slides = true %}
            {% endif %}
        {% endif %}
    {% endif %}
{% endfor %}

{% assign new_material = site | fetch_tutorial_material:page.topic_name, page.tutorial_name %}

<!-- Gitter -->
{% if page.gitter %}
  {% assign gitter = page.gitter %}
{% elsif topic.gitter %}
  {% assign gitter = topic.gitter %}
{% else %}
  {% assign gitter = site.gitter_url %}
{% endif %}

{% assign locale = site.data.lang[page.lang] %}

{% if topic.custom_css %}
<style>
{{ topic.custom_css }}
</style>
{% endif %}

<article class="tutorial topic-{{ page.topic_name }}">
    <h1 data-toc-skip>{{ page.title }}</h1>
    {% if page.draft %}
    <div class="alert alert-warning" role="alert">
        <h4 class="alert-heading">Under Development!</h4>
        <p>This tutorial is not in its final state. The content may change a lot in the next months.
        Because of this status, it is also not listed in the topic pages.</p>
    </div>
    {% endif %}

    <section aria-labelledby="overview-box" id="tutorial-metadata">
    {% include _includes/contributors-line.html page=page %}

    <blockquote class="overview">
        <div id="overview-box" class="box-title">{{ locale['overview'] | default: "Overview"}}</div>
        {% unless page.license %}
        <img alt="Creative Commons License: CC-BY" class="float-right" style="border-width:0; display: inline-block; margin:0" src="{% link assets/images/cc-by.png %}" width="88" height="31"/>
        {% endunless %}
        <strong>{% icon question aria=false %} {{ locale['questions'] | default: "Questions" }}:</strong>
        <ul>
        {% for question in page.questions %}
        <li>{{ question | markdownify }}</li>
        {% endfor %}
        </ul>

        <strong>{% icon objectives aria=false %} {{ locale['objectives'] | default: "Objectives" }}: </strong>
        <ul>
        {% for objective in page.objectives %}
        <li>{{ objective | markdownify }}</li>
        {% endfor %}
        </ul>

        {% if topic.requirements or page.requirements %}
        <strong>{% icon requirements aria=false %} {{ locale['requirements'] | default: "Requirements"}}:</strong>
        <ul>
        {% include _includes/display_extra_training.md extra_trainings=topic.requirements %}
        {% include _includes/display_extra_training.md extra_trainings=page.requirements %}
        </ul>
        {% endif %}

        {% if page.time_estimation %}
        <div><strong>{% icon time aria=false %} {{ locale['time-estimation'] | default: "Time estimation"}}:</strong> {{ page.time_estimation | duration_to_human }}</div>
        {% endif %}

        {% if page.level %}
        <div><strong>{% icon level aria=false %} {{ locale['level'] | default: "Level"}}: </strong>
        {% include _includes/difficulty-indicator.html level=page.level textlabel=true %}</div>
        {% endif %}

        {% if own_material.supported_servers or topic.docker_image %}
            {% assign tuto_has_docker = true %}
        {% endif %}

        {% if own_material.zenodo_link and own_material.zenodo_link != "" %}
            {% assign tuto_has_zenodo = true %}
        {% endif %}

        <div id="supporting-materials"><strong><i class="fa fa-external-link" aria-hidden="true"></i> {{ locale['supporting-materials'] | default: "Supporting Materials" }}:</strong></div>
        <ul class="supporting_material">
            {% if associated_slides %}
                <li class="btn btn-default"><a href="{{ site.baseurl }}/topics/{{ topic.name }}/tutorials/{{ page.tutorial_name }}/slides.html" title="Slides for this tutorial">
                    {% icon slides aria=false %} {{ locale['slides'] | default: "Slides"}}
                </a></li>
            {% elsif intro_link %}
                <li class="btn btn-default supporting_material"><a href="{{ site.baseurl }}/topics/{{ topic.name }}/slides/{{ intro_target }}" title="Topic Overview slides">
                    {% icon slides aria=false %} Topic Overview slides
                </a></li>
            {% endif %}

            {% if tuto_has_zenodo %}
                <li class="btn btn-default supporting_material">{% include _includes/resource-zenodo.html material=own_material topic=topic.name label=true %}</li>
            {% endif %}

            {% if own_material.workflows %}
                <li class="btn btn-default supporting_material">{% include _includes/resource-workflows.html material=own_material topic=topic.name label=true %}</li>
            {% endif %}

            {% if own_material.tours %}
                <li class="btn btn-default supporting_material">{% include _includes/resource-tours.html material=own_material topic=topic.name label=true %}</li>
            {% endif %}

            {% if own_material.input_histories %}
                <li class="btn btn-default supporting_material">{% include _includes/resource-input-histories.html material=own_material topic=topic.name label=true %}</li>
            {% endif %}

            {% if own_material.answer_histories %}
                <li class="btn btn-default supporting_material">{% include _includes/resource-answer-histories.html material=own_material topic=topic.name label=true %}</li>
            {% endif %}

            {% if own_material.notebook %}
                <li class="btn btn-default supporting_material">{% include _includes/resource-notebooks.html material=own_material topic=topic.name label=true %}</li>
            {% endif %}

            {% assign faqpage = page.dir | append: 'faqs/index.md' | remove_first: '/' %}
            {% capture hasfaq %}{% file_exists {{faqpage}} %}{% endcapture %}
            {% if hasfaq == "true" %}
                <li class="btn btn-default supporting_material">{% include _includes/resource-faqs.html material=own_material topic=topic.name %}</li>
            {% endif %}

            <!-- Check the GTN Video Library for recordings of this tutorial or associated slides -->
            {% include _includes/resource-recordings.html label=true wrapper=true %}


            {% if tuto_has_docker %}
                {% if topic.type == 'use' or topic.type == 'basics' %}
                <li class="btn btn-default supporting_material">{% include _includes/instance-dropdown.html material=own_material docker=topic.docker_image label=true %}</li>
                {% endif %}
            {% endif %}
        </ul>

        <div><strong>{% icon last_modification aria=false %} {{ locale['published'] | default: "Published" }}:</strong> {{ page | gtn_pub_date | date: "%b %-d, %Y"}} </div>
        <div><strong>{% icon last_modification aria=false %} {{ locale['last-modification'] | default: "Last modification" }}:</strong> {{ page | last_modified_at | date: "%b %-d, %Y"}} </div>
        <div><strong>{% icon license aria=false %} {{ locale['license'] | default: "License" }}:</strong>
		{% if page.copyright %}
		{{ page.copyright }}.
		{% endif %}
            {{ locale['license-framework'] | default: "Tutorial Content is licensed under" }}
            {% if page.license %}
              <a rel="license" href="https://spdx.org/licenses/{{ page.license }}">{{ page.license }}</a>.
            {% else %}
              <a rel="license" href="http://creativecommons.org/licenses/by/4.0/">Creative Commons Attribution 4.0 International License</a>.
            {% endif %}
            The GTN Framework is licensed under <a rel="license" href="{{ site.github_repository }}/blob/main/LICENSE.md">MIT</a>
        </div>
        {% if page.short_id %}
        <div><strong>{% icon purl %} <abbr title="Persistent URL">PURL</abbr>:</strong> <a href="https://gxy.io/GTN:{{ page.short_id }}">https://gxy.io/GTN:{{ page.short_id }}</a> </div>
        {% endif %}

	{% assign own_material_id = own_material.id %}
	{% if page.lang %}
		{% capture own_material_id %}{{ own_material.id }}:{{ page.lang }}{% endcapture %}
	{% endif %}

	{% assign feedback_count = site | get_feedback_count: own_material_id %}
	{% if feedback_count > 0 %}
	<div><strong>{% icon rating %} Rating:</strong> <a href="#feedback-responses">{{ site | get_rating_recent:own_material_id }}</a> ({{ site | get_feedback_count_recent: own_material_id }} recent ratings, {{ feedback_count }} all time)</div>
	{% endif %}
	<div><strong>{% icon version %} Revision:</strong> {{ page | get_version_number }} </div>

    </blockquote>
    </section>

    <div class="container">
        <div class="row">
            <!-- sidebar, which will move to the top on a small screen -->
            <div class="col-sm-2 hide-when-printing">
                <nav id="toc" data-toggle="toc" class="sticky-top" aria-label="Table of Contents"></nav>
            </div>
            <div class="col-sm-10">
                 {% if own_material.notebook %}
                <section aria-label="Tutorial Notebook access information" id="tutorial-notebook">
                     {% capture ipynbpath %}{{ site.url }}{{ site.baseurl }}/{{ page.path | replace: "tutorial.md", "" }}{{ page.topic_name }}-{{ own_material.tutorial_name }}.ipynb{% endcapture %}
                     {% capture ipynbpathnosoln %}{{ site.url }}{{ site.baseurl }}/{{ page.path | replace: "tutorial.md", "" }}{{ page.topic_name }}-{{ own_material.tutorial_name }}-course.ipynb{% endcapture %}
                     {% capture ipynbpathsimple %}{{ page.topic_name }}-{{ own_material.tutorial_name }}.ipynb{% endcapture %}
                     {% capture ipynbpathsimplenosoln %}{{ page.topic_name }}-{{ own_material.tutorial_name }}-course.ipynb{% endcapture %}
                    {% if own_material.notebook.snippet %}
                        {% assign pagesnippet = own_material.notebook.snippet %}
                        {% snippet {{own_material.notebook.snippet}} %}
                    {% elsif own_material.notebook.language ==  "r" %}
                        <blockquote class="comment">
                            <div class="box-title">{{locale['best-in-rstudio'] | default: "Best viewed in RStudio" }}</div>
                            <p>
                                This tutorial is available as an RMarkdown file and best viewed in RStudio! You can load this notebook in RStudio on one of the UseGalaxy.* servers<!--, or you can click to run it in MyBinder-->
                            </p>
                            <p><b>Launching the notebook in RStudio in Galaxy</b></p>
                            <ol>
                                <li><a href="{% link faqs/galaxy/interactive_tools_rstudio_launch.md %}">Instructions to Launch RStudio</a></li>
                                <li>Access the R console in RStudio (bottom left quarter of the screen)</li>
                                <li>Run the following code:
{% capture howtodownload %}
```R
download.file("{{ site.url }}{{ site.baseurl }}/{{ page.path | replace: "tutorial.md", ""}}{{ page.topic_name }}-{{ own_material.tutorial_name }}.Rmd", "{{ page.topic_name }}-{{ own_material.tutorial_name }}.Rmd")
download.file("{{ site.url }}{{ site.baseurl }}/assets/css/r-notebook.css", "gtn.css"){% if page.cited %}
download.file("{{ site.url }}{{ site.baseurl }}/{{ page.path | replace: ".md", ".bib"}}", "{{ page.topic_name }}-{{ own_material.tutorial_name }}.bib"){% endif %}
```
{% endcapture %}
                                {{ howtodownload | markdownify }}
                                </li>
                                <li>Double click the RMarkdown document that appears in the list of files on the right.</li>
                            </ol>
                            <p><b>Downloading the notebook</b></p>
                            <ol>
                                <li>Right click this link: <a href="{{ site.url }}{{ site.baseurl }}/{{ page.path | replace: "tutorial.md", ""}}{{ page.topic_name }}-{{ own_material.tutorial_name }}.Rmd">tutorial.Rmd</a></li>
                                <li>Save Link As...</li>
                            </ol>
                            <p><b>Alternative Formats</b></p>
                            <ol>
                                <li>This tutorial is also available as a <a href="{{ ipynbpath }}">Jupyter Notebook (With Solutions)</a>, <a href="{{ ipynbpathnosoln }}">Jupyter Notebook (Without Solutions)</a></li>
                            </ol>
                        </blockquote>

                        {% snippet faqs/galaxy/interactive_tools_rstudio_rmarkdown.md %}
                    {% else %}
                        <blockquote class="comment">
                            <div class="box-title">{{locale['best-in-jupyter'] | default: "Best viewed in a Jupyter Notebook" }}</div>
                            <p>
                                This tutorial is best viewed in a Jupyter notebook! You can load this notebook one of the following ways<!--, or you can click to run it in MyBinder-->
                            </p>
                            <!--
                            <p><b>Launching on MyBinder</b>
                                Click here and the notebook will launch on MyBinder.org
                                <a href="https://mybinder.org/v2/gh/galaxyproject/training-material/main?filepath={{ site.baseurl | replace: '/','' }}%2F{{ page.path | replace: '/','%2F' }}.ipynb" title="Launch notebook on MyBinder"><img src="https://mybinder.org/badge_logo.svg" alt="My Binder Logo"/></a>
                            </p>
                            -->
                            {% if page.notebook.pyolite %}
                            <p><b>Run on the GTN with JupyterLite (in-browser computations)</b>
                                <ol>
                                    <li><a href="{{ site.baseurl }}/jupyter/lab/index.html?path={{ ipynbpathsimple }}">Click to Launch JupyterLite</a></li>
                                </ol>
                            </p>
                            {% endif %}
                            <p><b>Launching the notebook in Jupyter in Galaxy</b>
                                <ol>
                                    <li><a href="{% link faqs/galaxy/interactive_tools_jupyter_launch.md %}">Instructions to Launch JupyterLab</a></li>
                                    <li>Open a Terminal in JupyterLab with <b>File -> New -> Terminal</b></li>
                                    <li>Run <code>wget {{ ipynbpath }}</code></li>
                                    <li>Select the notebook that appears in the list of files on the left.</li>
                                </ol>
                            </p>
                            <p><b>Downloading the notebook</b>
                                <ol>
                                    <li>Right click one of these links: <a href="{{ ipynbpath }}">Jupyter Notebook (With Solutions)</a>, <a href="{{ ipynbpathnosoln }}">Jupyter Notebook (Without Solutions)</a></li>
                                    <li>Save Link As..</li>
                                </ol>
                            </p>
                        </blockquote>
                    {% endif %}
                </section>
                {% endif %}

                <section aria-label="Tutorial Content" id="tutorial-content">
                {{ content
                    | replace: '<blockquote class="hands_on">', '<blockquote class="notranslate hands_on">'
                    }}
                </section>

                <section aria-label="Tutorial Footer, Feedback, Citation" id="tutorial-footer">
                        <h3>You've Finished the Tutorial</h3>
                        <button id="tutorial-finish-button" class="btn btn-primary" onclick="tutorial_finish()">I finished this tutorial 👍</button>
                        <p style="display: none" id="tutorial-finish-text">Please also consider filling out the <a href="#gtn-feedback">Feedback Form</a> as well!</p>
                        <script>
                        function tutorial_finish() {
                          if(typeof plausible !== 'undefined'){
                            // Plausible may be undefined (script blocked)
                            // or it may be defined, but opted-out (select box/DNT),
                            // which means `plausible()` will work but not send data, *nor* execute the callback.
                            plausible('TutorialComplete', {props: {path: document.location.pathname}})
                          }
                          // since the callback is completely cosmetic, we'll just issue it optimistically.
                          tutorial_finish_finish();
                        }
                        function tutorial_finish_finish() {
                          document.getElementById("tutorial-finish-button").innerText = 'Congrats! Thanks for letting us know! 🎉'
                          document.getElementById("tutorial-finish-button").disabled = true
                          document.getElementById("tutorial-finish-button").disabled = true
                          document.getElementById("tutorial-finish-text").style.display = 'block'
                        }
                        </script>

                {% if page.key_points %}
                <blockquote class="key_points">
                    <div class="box-title">{% icon keypoints aria=false %} {{locale['key-points'] | default: "Key points" }}</div>
                    <ul>
                        {% for key_point in page.key_points %}
                        <li>{{ key_point | markdownify }}</li>
                        {% endfor %}
                    </ul>
                </blockquote>
                {% endif %}

                <h1>{{ locale['faqs'] | default: "Frequently Asked Questions" }}</h1>
                Have questions about this tutorial? Check out the {% if hasfaq == "true" %}<a href="faqs/">tutorial FAQ page</a> or the {% endif %} <a href="{{site.baseurl}}/topics/{{topic.name}}/faqs/">FAQ page for the {{topic.title}} topic</a> to see if your question is listed there.
                If not, please ask your question on the <a href="{{site.gitter_url}}">GTN Gitter Channel</a> or the
                <a href="https://help.galaxyproject.org">Galaxy Help Forum</a>

		<!--
                {% if own_material.quiz %}
                <h1 data-toc-skip>Quizzes</h1>
                <p>Check your understanding with these quizzes</p>
                    {% for q in own_material.quiz %}
                    <h2>{{ q.title }}</h2>
                    <div class="contributors-line">{% include _includes/contributor-list.html contributors=q.contributors badge=true %}</div>
                    <ul>
                        <li>
                            <a href="{% link quiz/quiz.html %}?mode=self&quiz={{ site.baseurl }}/{{ q.path }}">Self Study Mode</a> - do the quiz at your own pace, to check your understanding.
                        </li>
                        <li>
                            <a href="{% link quiz/quiz.html %}?mode=teacher&quiz={{ site.baseurl }}/{{ q.path }}">Classroom Mode</a> - do the quiz synchronously with a classroom of students.
                        </li>
                    </ul>
                    {% endfor %}
                {% endif %}
		-->

                {% if topic.references %}
                <h1 data-toc-skip>Useful literature</h1>
                <p>Further information, including links to documentation and original publications, regarding the tools, analysis techniques and the interpretation of results described in this tutorial can be found <a href="{{ site.baseurl }}/topics/{{ topic.name }}#references">here</a>.</p>
                {% endif %}


                {% if page.cited %}
                <h1 id="bibliography">{{locale['references']| default: "References" }}</h1>
                {% bibliography --cited %}
                {% endif %}

                {% if page.abbreviations %}
                <h1 data-toc-skip>{{ locale['glossary'] | default: "Glossary"}}</h1>
                <dl>
                    {% assign sorted_abbrs = page.abbreviations | sort %}
                    {% for abbr in sorted_abbrs %}
                    <dt>{{ abbr[0] }}</dt>
                    <dd>{{ abbr[1] }}</dd>
                    {% endfor %}
                </dl>
                {% endif %}

                <h1 id="gtn-feedback">{{locale['feedback'] | default: "Feedback" }}</h1>
                <p class="text-muted">{{ locale['feedback-text'] | default: "Did you use this material as an instructor? Feel free to give us feedback on"}} <a href="https://github.com/galaxyproject/training-material/issues/1452">{{ locale['feedback-link-text'] | default: "how it went"}}</a>.
                <br>{{ locale['feedback-text-learner'] | default: "Did you use this material as a learner or student? Click the form below to leave feedback." }}<i class="fas fa-hand-point-down"></i>
                </p>

                <iframe id="feedback-google" class="google-form" src="https://docs.google.com/forms/d/e/1FAIpQLSd4VZptFTQ03kHkMz0JyW9b6_S8geU5KjNE_tLM0dixT3ZQmA/viewform?embedded=true&entry.1235803833={{ own_material_id }}"><a href="https://docs.google.com/forms/d/e/1FAIpQLSd4VZptFTQ03kHkMz0JyW9b6_S8geU5KjNE_tLM0dixT3ZQmA/viewform?embedded=true&entry.1235803833={{ own_material_id }}">Feedback Form</a></iframe>

                <h1>{{locale['citing-tutorial'] | default: "Citing this Tutorial"}}</h1>
                <p>
                    <ol>
                        <li id="citation-text">
                            {% assign c = page.contributions.authorship | default: page.contributors %}
                            {%- include _includes/contributor-list.html contributors=c sep=", " -%}, {{ page.last_modified_at | date: "%Y" }} <b>{{ page.title }} (Galaxy Training Materials)</b>. <a href="{{ site.url }}{{ site.baseurl }}{{page.url}}">{{ site.url }}{{ site.baseurl }}{{page.url}}</a> Online; accessed TODAY
                        </li>
                        <li>
                        Hiltemann, Saskia, Rasche, Helena et al., 2023 <b>Galaxy Training: A Powerful Framework for Teaching!</b> PLOS Computational Biology <a href="https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1010752">10.1371/journal.pcbi.1010752</a>
                        </li>
                        <li>
                        Batut et al., 2018 <b>Community-Driven Data Analysis Training for Biology</b> Cell Systems <a href="https://doi.org/10.1016%2Fj.cels.2018.05.012">10.1016/j.cels.2018.05.012</a>
                        </li>
                    </ol>
                </p>

                <!-- collapsible boxcontaining the BibTeX-formatted citation -->
                <blockquote class="details">

                  <div id="citation-bibtex" class="box-title">
                    <button type="button" aria-controls="citation-bibtex" aria-expanded="false">
                      <i class="fas fa-info-circle" aria-hidden="true"></i>
                      <span class="visually-hidden"></span> BibTeX<span role="button" class="fold-unfold fa fa-minus-square" aria-hidden="true"></span>
                    </button>
                   </div>
                   <p style="display: none;">

                   <div class="highlighter-rouge"><div class="highlight"><pre class="highlight">


<code id="citation-code">@misc{% raw %}{{% endraw %}{{topic.name}}-{{page.tutorial_name}},
{% assign authors = page | filter_authors -%}
	author = "{%- include _includes/contributor-list.html contributors=authors sep=" and " -%}",
	title = "{{ page.title }} (Galaxy Training Materials)",
	year = "{{ page.last_modified_at | date: "%Y"}}",
	month = "{{ page.last_modified_at | date: "%m"}}",
	day = "{{ page.last_modified_at | date: "%d" }}",
	url = "{% raw %}\url{{% endraw %}{{ site.url }}{{ site.baseurl }}{{page.url}}{% raw %}}{% endraw %}",
	note = "[Online; accessed TODAY]"
}
@article{Hiltemann_2023,
	doi = {10.1371/journal.pcbi.1010752},
	url = {https://doi.org/10.1371%2Fjournal.pcbi.1010752},
	year = 2023,
	month = {jan},
	publisher = {Public Library of Science ({PLoS})},
	volume = {19},
	number = {1},
	pages = {e1010752},
	author = {Saskia Hiltemann and Helena Rasche and Simon Gladman and Hans-Rudolf Hotz and Delphine Larivi{\`{e}}re and Daniel Blankenberg and Pratik D. Jagtap and Thomas Wollmann and Anthony Bretaudeau and Nadia Gou{\'{e}} and Timothy J. Griffin and Coline Royaux and Yvan Le Bras and Subina Mehta and Anna Syme and Frederik Coppens and Bert Droesbeke and Nicola Soranzo and Wendi Bacon and Fotis Psomopoulos and Crist{\'{o}}bal Gallardo-Alba and John Davis and Melanie Christine Föll and Matthias Fahrner and Maria A. Doyle and Beatriz Serrano-Solano and Anne Claire Fouilloux and Peter van Heusden and Wolfgang Maier and Dave Clements and Florian Heyl and Björn Grüning and B{\'{e}}r{\'{e}}nice Batut and},
	editor = {Francis Ouellette},
	title = {Galaxy Training: A powerful framework for teaching!},
	journal = {PLoS Comput Biol}
}
</code>
                   </pre></div></div>
                   </p>
                </blockquote>

        {% if page.contributions and page.contributions.funding %}
		<h2 id="funding">{{locale['references']| default: "Funding" }}</h2>
		<p>These individuals or organisations provided funding support for the development of this resource</p>

                {% include _includes/funding-statement.md funders=page.contributions.funding %}
        {% endif %}


<script>
// update the date on load, or leave fallback of 'today'
const citationTodaysDate = new Date();
document.getElementById("citation-code").innerHTML = document.getElementById("citation-code").innerHTML.replace("TODAY", citationTodaysDate.toDateString());
document.getElementById("citation-text").innerHTML = document.getElementById("citation-text").innerHTML.replace("TODAY", citationTodaysDate.toDateString());
</script>

                {% icon congratulations aria=false %} {{locale['congrats'] | default: "Congratulations on successfully completing this tutorial!"}}

                {% if topic.name == "contributing" %}
                <blockquote class="agenda">
                    <div class="box-title">Developing GTN training material</div>
                    This tutorial is part of a series to develop GTN training material, feel free to also look at:
                    {% assign topic = site.data[page.topic_name] %}
                    <ol>
                    {% for material in topic_material %}
                        {% if material.draft != true or jekyll.environment != "production" %}
                                {% if material.hands_on %}
                    <li><a href="{{ site.baseurl }}/topics/{{ topic.name  }}/tutorials/{{ material.tutorial_name }}/tutorial.html">{{ material.title }}</a></li>
                                {% elsif material.slides %}
                    <li><a href="{{ site.baseurl }}/topics/{{ topic.name }}/tutorials/{{ material.tutorial_name }}/slides.html">{{ material.title }}</a></li>
                                {% endif %}
                        {% endif %}
                    {% endfor %}
                    </ol>
                </blockquote>
                {% endif %}

                {% if page.follow_up_training %}
                <blockquote class="agenda follow-up">
                    <div class="box-title">Go Further</div>
                    <strong class="follow-up">{% icon curriculum aria=false %} Do you want to extend your knowledge? Follow one of our recommended follow-up trainings:</strong>
                    <ul>
                        {% include _includes/display_extra_training.md extra_trainings=page.follow_up_training %}
                    </ul>
                </blockquote>
                {% endif %}

		{% if own_material.tools %}
                <blockquote class="details follow-up" id="admins-install-missing-tools">
                  <div id="admin-missing-tools" class="box-title">
                    <button type="button" aria-controls="admin-missing-tools" aria-expanded="false">
                      <i class="fas fa-info-circle" aria-hidden="true"></i>
                      <span class="visually-hidden"></span> Galaxy Administrators: Install the missing tools<span role="button" class="fold-unfold fa fa-minus-square" aria-hidden="true"></span>
                    </button>
                   </div>


			<p>You can use Ephemeris's <code>shed-tools install</code> command to install the tools used in this tutorial.</p>
<div class="highlight"><pre class="highlight"><code>shed-tools install [-g GALAXY] [-a API_KEY] -t &lt;(curl {{ own_material.api }} | jq .admin_install_yaml -r)</code></pre></div>
<p>Alternatively you can copy and paste the following YAML</p>
<div class="highlight"><pre class="highlight"><code>{{ own_material.admin_install_yaml }}</code></pre></div>
                </blockquote>
		{% endif %}

		<blockquote class="details hide-when-printing" id="feedback-responses">
                  <div id="feedback-response-c" class="box-title">
                    <button type="button" aria-controls="feedback-response-c" aria-expanded="false">
                      <i class="fas fa-info-circle" aria-hidden="true"></i>
                      <span class="visually-hidden"></span> Feedback<span role="button" class="fold-unfold fa fa-minus-square" aria-hidden="true"></span>
                    </button>
                   </div>

		   <p>
		   {% assign feedback_histo = site | get_rating_histogram_chart:own_material_id %}
		   <table class="charts-css bar show-labels" style="--labels-size: 8rem; overflow-y: hidden">
		   {% for hist in feedback_histo %}
			<tr>
				<th scope="row">{{ hist[0] | to_stars }}</th>
				<td style="--size: {{ hist[1][1] }}">{{ hist[1][0] }}</td>
			</tr>
		   {% endfor %}
		   </table>
		   </p>
		{% assign feedbacks = site | get_recent_feedbacks:own_material_id %}
        {% comment %} Uncomment to debug feedback size: <p>Feedbacks Count: {{ feedbacks.size }}</p> {% endcomment %}
        {% if feedbacks.size > 0 %}
		    {% for feedback in feedbacks %}
		    <b>{{ feedback[0] }}</b>
		    <ul>
				{% for feed in feedback[1] %}
				<li>
					{{ feed.rating | to_stars }}:
					{% if feed.pro %}<b>Liked</b>: {{ feed.pro }}{% endif %}
					{% if feed.con %}<b>Disliked</b>: {{ feed.con }}{% endif %}
				</li>
				{% endfor %}
		    </ul>
		    {% endfor %}
        {% else %}
            <p>No feedback has been recieved yet for this training. Be the first one by filling in the feedback form from <a href="#gtn-feedback">above</a>. </p>
        {% endif %}
		</blockquote>




		{% assign upcoming_events = site | get_upcoming_events_for_this: new_material %}
		{% assign upcoming_event_count = upcoming_events | size %}
		{% if upcoming_event_count > 0 %}
		<blockquote class="details hide-when-printing" id="upcoming-events">
                  <div id="upcoming-events-c" class="box-title">
                    <button type="button" aria-controls="upcoming-events-c" aria-expanded="false">
                      <i class="fas fa-calendar" aria-hidden="true"></i>
                      Upcoming events which cover this topic<span role="button" class="fold-unfold fa fa-minus-square" aria-hidden="true"></span>
                    </button>
                   </div>

		   <p>Want to learn more with a live instructor? Check out these upcoming events:</p>
		   {% include _includes/event-table.html events=upcoming_events campaign="via-tutorial" %}
		</blockquote>
		{% endif %}

                </section>

            </div>
        </div>
    </div>
</article>
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