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<!doctype html>
<html lang="en">
<head>
<meta charset="utf-8">
<title>LORIS - A Database System</title>
<!-- The important Javascript libraries -->
<link rel="stylesheet" href="css/reveal.css">
<link rel="stylesheet" href="css/theme/black.css" id="theme">
<!-- Code syntax highlighting -->
<link rel="stylesheet" href="lib/css/zenburn.css">
<!-- Printing and PDF exports -->
<script>
var link = document.createElement( 'link' );
link.rel = 'stylesheet';
link.type = 'text/css';
link.href = window.location.search.match( /print-pdf/gi ) ? 'css/print/pdf.css' : 'css/print/paper.css';
document.getElementsByTagName( 'head' )[0].appendChild( link );
</script>
<!--[if lt IE 9]>
<script src="lib/js/html5shiv.js"></script>
<![endif]-->
</head>
<body>
<div class="reveal">
<!-- Any section element inside of this container is displayed as a slide -->
<div class="slides">
<!-- INTRO -->
<!-- SECTION 1: What is LORIS? (1 slide) -->
<section>
<!-- WHAT IS LORIS? -->
<section>
<a href="http://loris.ca/" target="_blank"><h2>WHAT IS LORIS?</h2></a>
<table class="reveal">
<tr>
<td width="50%" style="vertical-align: middle">
<a href="http://loris.ca/" target="_blank"><img src="images/loris-new-white.png"></a>
<p><small> “LORIS is a modular and <font color="f27c30">extensible</font> web-based data management system that integrates all aspects of a <font color="f27c30">multi-center</font> study: from <font color="f27c30">heterogeneous data acquisition</font> (imaging, clinical, behavior, genetics) to storage, <font color="f27c30">processing</font> and ultimately <font color="f27c30">dissemination</font>.”</small></p>
</td>
<td>
<a href="https://www.frontiersin.org/articles/10.3389/fninf.2011.00037/full" target="_blank"><img src="images/LORIS_paper.png"></a>
</td></tr></table>
</section>
<section id="fragments">
<h2><font color="12a3d8">What’s involved?</font></h2>
<p>
<span class="fragment">Longitudinal Acquisition, Storage and Curation, </span>
<span class="fragment"><font color="f27c30">Multi-site </span>
<span class="fragment">Data storage, Project management </span>
<span class="fragment">Web-based, open-source </span>
<span class="fragment">Validation, Quality Control, Protocol Checking, </span>
<span class="fragment">Upgrades, Maintenance, Bug Fixes, </span>
<span class="fragment">User Interface, Javascript, Bootstrap,</span>
<span class="fragment"><font color="f27c30">Behavioural, Clinical, Imaging, Genetic Data</font></span>
<span class="fragment">Multi-Modal Linking, <font color="f27c30">Querying</font></span>
<span class="fragment"><font color="f27c30">...No big deal!</font></span>
</p>
</section>
<section>
<h2>LORIS - Github <font color="yellow"> - Open Source</font></h2>
<a href="https://github.com/aces/Loris" target="_blank"><p style="color: SteelBlue; line-height: 5px;"><small>https://github.com/aces/Loris</small></p></a>
<a href="https://github.com/aces/Loris" target="_blank"><img src="images/LORIS_Github.png" width="80%"></a>
</section>
<section data-background="images/LORIS_dashboard.png">
<h2><font color="222222">Data storing and sharing</font></h2>
<p><font color="f27c30">
<ul>
<span class="fragment"><li>Behavioural</li></span>
<span class="fragment"><li>Clinical</li></span>
<span class="fragment"><li>Imaging</li></span>
<span class="fragment"><li>Genetic Data</li></span>
</ul>
</font></p>
</section>
<!-- PERFERRED SLIDE WHAT DOES LORIS DO -->
<section>
<h2>What does LORIS do?</h2>
<img src="images/loris_purpose.jpg" style="border:0" width="80%">
</section>
<!-- LORIS Key features -->
<section data-background="images/loris_features.jpg">
</section>
</section>
<!-- SECTION 2: What you need to install (1 slide) -->
<section>
<section>
<h2>What do you need?</h2>
<ul>
<li>LINUX, Terminal</li>
<li>mySQl, PHP, Javascript</li>
<li>CouchDB</li>
<li>Everyday browser</li>
</ul>
<a href="https://github.com/aces/Loris/wiki/Installing-Loris-in-Brief" target="_blank"><h4>Click for prerequisites!</h4></a>
</section>`
<section>
<h2>LORIS - <font color="yellow">Requirements</font></h2>
<p class="fragment grow">Dedicated developer! (software is free of charge)</p>
<p class="fragment roll-in">LINUX based server</p>
<p class="fragment roll-in">LAMP stack</p>
<p class="fragment roll-in">Perl and other peripheral libraries (i.e DCMTK)</p>
<p class="fragment roll-in">Beer for Samir</p>
</section>
<section>
<h2>LORIS - <font color="blue"> Links</font></h2>
<p>Website: <a href="http:www.loris.ca" target="_blank"> www.loris.ca</a></p>
<p>Demo: <a href="https://demo.loris.ca" target="_blank"> https://demo.loris.ca</a></p>
<p>LORIS developers mailing list: <a href="mailto:loris-dev@bic.mni.mcgill.ca"> loris-dev@bic.mni.mcgill.ca</a></p>
<p>Source code: <a href="https://github.com/aces/Loris" target="_blank"> https://github.com/aces/Loris</a></p>
</section>
</section>
<!-- SECTION 3: Move towards client side (1 slide) -->
<section data-background = "images/server-browser-relationship.png">
<p><span class="fragment">Advantages: </span><span class="fragment">Live validation,</span><span class="fragment"> offline work</span></p>
</section>
<!-- SECTION 4: Database - SQL (1/2 slides) -->
<section>
<section>
<h2>Database - mySQL</h2>
</section
<section>
</section
</section>
<!-- SECTION 5: PHP (1/2 slides) -->
<section>
<section>
<h2>PHP</h2>
<ul>
<li>Module structure</li>
<li>php libraries</li>
</ul>
</section
<section>
<h2>Move towards DAO</h2>
<ul>
<li>Isolating data framework from controller code</li>
</ul>
<img src="images/DAO-RIDA.png">
<img src="images/DAO-FUNCTIONS.png">
</section
</section>
<!-- SECTION 6: JAVASCRIPT / REACTS (1/2 SLIDES) -->
<section>
<section>
<h2>Javascript - React</h2>
<p>TPL, Bootstrap</p>
</section
<section>
<h2> TPL to React</h2>
</section
</section>
<!-- SECTION 7: DQT (1 SLIDE) -->
<section>
<section>
<h2>DQT</h2>
<ul>
<li>Main query tool</li>
<li>Front-end alternative to using SQL</li>
<li>Dependent on permissions</li>
<li>Filterable data to accommodate specific project</li>
<li>CouchDB: document bases for faster querying</li>
</ul>
</section>
<!-- DQT & Sharing -->
<section data-background="images/Statistics_imaging_new.png">
<span class="fragment"><h2 style="margin:-220px 0px 200px 0px;"><font color="0d4983">Data Querying</font></h2></span>
<span class="fragment"><div align="left" style="margin:0px 200px 0px -50px; padding:0;"></span>
<ul><font color="f27c30">
<p align="center" style="margin:0; padding: 20px 0px 0px 0px;"><li>Imaging Statistiscs</li></p>
<span class="fragment"><p align="center" style="margin-bottom:-40px; padding: 0px 0px 20px 0px;"><li>Data Querying Tool <font color="12a3d8">(DQT)</font></li></p>
</font></ul></div>
</section>
<section data-background="images/DQT_Define_new.png" data-background-size="100%">
</section>
<section data-background="images/DQT_Results_new.png" data-background-size="100%">
</section>
<section data-background="images/DQT_Stats_new.png" data-background-size="100%">
</section>
<!-- Data Querying Tool -->
<section>
<h2>Data Querying Tool</h2>
<img src="images/DQT_Define.png">
</section>
<section>
<h2>Data Querying Tool - <font color="yellow"> Results</font></h2>
<img src="images/DQT_Results.png">
</section>
<section>
<h2>Data Querying Tool - <font color="yellow">Statistics</font></h2>
<img src="images/DQT_Stats.png">
</section>
</section
<!-- SECTION 8: API (1 SLIDE) -->
<section>
<h2>LORIS API</h2>
<ul>
<li>Meets demands of user workflows without compromising LORIS requirements</li>
<li>Relies on LORIS php libraries to maintain workflow consistency</li>
<li>Establish secure connection to DB via command line</li>
<li>Allows for batch data import, querying
</ul>
</section>
<!--Cyberinfrastructure & Cybersecurity -->
<section>
<h2>Cyberinfrastructure</h2>
<img src="images/Cyberinfrastructure.png">
</section>
<section>
<section id="fragments">
<h2>Fragments</h2>
<p>Hit the next arrow...</p>
<p class="fragment">... to step through ...</p>
<p><span class="fragment">... a</span> <span class="fragment">fragmented</span> <span class="fragment">slide.</span></p>
<aside class="notes">
This slide has fragments which are also stepped through in the notes window.
</aside>
</section>
<section>
<h2>Fragment Styles</h2>
<p>There's different types of fragments, like:</p>
<p class="fragment grow">grow</p>
<p class="fragment shrink">shrink</p>
<p class="fragment roll-in">roll-in</p>
<p class="fragment fade-out">fade-out</p>
<p class="fragment current-visible">current-visible</p>
<p class="fragment highlight-red">highlight-red</p>
<p class="fragment highlight-blue">highlight-blue</p>
</section>
</section>
<section id="transitions">
<h2>Transition Styles</h2>
<p>
You can select from different transitions, like: <br>
<a href="?transition=none#/transitions">None</a> -
<a href="?transition=fade#/transitions">Fade</a> -
<a href="?transition=slide#/transitions">Slide</a> -
<a href="?transition=convex#/transitions">Convex</a> -
<a href="?transition=concave#/transitions">Concave</a> -
<a href="?transition=zoom#/transitions">Zoom</a>
</p>
</section>
-->
</div>
</div>
<script src="lib/js/head.min.js"></script>
<script src="js/reveal.js"></script>
<script>
// Full list of configuration options available at:
// https://github.com/hakimel/reveal.js#configuration
Reveal.initialize({
controls: true,
progress: true,
history: true,
center: true,
transition: 'slide', // none/fade/slide/convex/concave/zoom
// Optional reveal.js plugins
dependencies: [
{ src: 'lib/js/classList.js', condition: function() { return !document.body.classList; } },
{ src: 'plugin/markdown/marked.js', condition: function() { return !!document.querySelector( '[data-markdown]' ); } },
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