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motivation.html
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<!DOCTYPE html>
<html>
<head>
<meta charset="utf-8">
<meta http-equiv="X-UA-Compatible" content="IE=edge,chrome=1">
<meta name="viewport" content="width=device-width, user-scalable=no, initial-scale=1.0, minimum-scale=1.0, maximum-scale=1.0">
<title>The Unix Shell</title>
<script src="js/deckjs-custom.js"></script>
<script>
// TODO: finer filter on what is needed (vs profile-5)
includedeck("css/swc-slides.css", {
BEFOREINIT: function() {
$(".slide.auto li:not(li li):not(.notslide)").addClass("slide");
}
});
</script>
</head>
<body>
<div class="deck-container">
<div class="slide title-slide" data-container-class="no-status">
<h1 class="var-title"></h1>
<img class="logo" src="img/software-carpentry-banner.png" alt="Software Carpentry"/>
</div>
<!-- Begin slides. Just make elements with a class of slide. -->
<section id="why-do-we-learn-to-use-the-shell" class="slide level2">
<h1>Why do we learn to use the shell?</h1>
<p>The shell allows users to automate repetitive tasks and capture small data manipulation steps that are normally not recorded to make research reproducible</p>
</section>
<section id="the-problem" class="slide level2">
<h1>The Problem</h1>
<ul>
<li>Running the same workflow on several samples can be unnecessarily labour intensive</li>
<li>Manual manipulation of data files:</li>
<li>is often not captured in documentation</li>
<li>is hard to reproduce</li>
<li>is hard to troubleshoot, review, or improve</li>
</ul>
</section>
<section id="the-shell" class="slide level2">
<h1>The Shell</h1>
<ul>
<li>Workflows can be automated through the use of shell scripts</li>
<li>Built-in commands allow for easy data manipulation (e.g. sort, grep, etc.)</li>
<li>Every step can be captured in the shell script and allow reproducibility and easy troubleshooting</li>
</ul>
</section>
<section id="lets-begin" class="slide level2">
<h1>Let’s begin…</h1>
<p><a href="00-intro.html">Starting with the Unix shell</a></p>
</section>
<!-- End slides. -->
<!-- Begin extension snippets. Add or remove as needed. -->
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<div aria-role="navigation">
<a href="#" class="deck-prev-link" title="Previous">←</a>
<a href="#" class="deck-next-link" title="Next">→</a>
</div>
<!-- footer -->
<p class="deck-status deck-progress-10"> <span class="deck-status-current"></span> / <span class="deck-status-total"></span> − <span class="var-title">will be replaced by the title</span></p>
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<div class="progress-bar" data-progress-size=":spe.bottom(0, 1) ; left: slide.left+'px' ; height: designRatio+'px'" data-progress="width: detail.p * slide.width" style="position: absolute;"> </div>
<!-- End extension snippets. -->
</div>
</body>
</html>