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index.html
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index.html
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<!doctype html>
<html lang="en">
<head>
<meta charset="utf-8"/>
<meta name="viewport" content="width=1024"/>
<meta name="apple-mobile-web-app-capable" content="yes">
<title>MoSDeF Slideshow | Interactive slides demonstrating the capabilities of the MoSDeF framework</title>
<meta name="author" content="Cal Cavern, Umesh Timalsina"/>
<link href="css/impress-demo.css" rel="stylesheet"/>
<link href="css/impress-common.css" rel="stylesheet"/>
<link href="https://fonts.googleapis.com/css?family=Open+Sans:regular,semibold,italic,italicsemibold|PT+Sans:400,700,400italic,700italic|PT+Serif:400,700,400italic,700italic"
rel="stylesheet"/>
<link rel="shortcut icon" href="favicon.ico"/>
<style>
#mol-container > canvas {
width: 300px;
height: 300px;
border: 5px solid black;
}
.mosdef-container {
height: 100%;
background: #F0F0F0;
border-bottom-right-radius: 50px;
border-top-left-radius: 50px;
border: 5px solid #E1AD01;
}
table,
td {
border: 1px solid #333;
font-size: 18px;
}
tbody > tr {
line-height: 20px;
}
thead > tr {
line-height: 50px;
}
thead,
tfoot {
background-color: #333;
color: #fff;
font-size: 30px;
}
</style>
</head>
<body class="impress-not-supported">
<div class="fallback-message">
<p>Your browser <b>doesn't support the features required</b> by impress.js, so you are presented with a simplified
version of this presentation.</p>
<p>For the best experience please use the latest <b>Chrome</b>, <b>Safari</b> or <b>Firefox</b> browser.</p>
</div>
<div id="impress"
data-transition-duration="1000"
data-width="1024"
data-height="768"
data-max-scale="3"
data-min-scale="0"
data-perspective="1000">
<!-- Slide 1 -->
<div id="welcome" class="step" data-x="-1000" data-y="-1000" data-z="2000" data-autoplay="10" data-scale="2">
<h1>Welcome to <a href="https://mosdef.org" target="_blank">MoSDeF</a> <b>Slideshow</b></h1>
</div>
<div id="here" class="step" data-x="-1000" data-y="-1000" data-z="1000" data-autoplay="10" data-scale="2">
<q>Here we present an overview of <a href="https://mosdef.org" target="_blank">MoSDeF</a> Framework capabilities</q>
</div>
<div id="mbuild" class="step slide" style="z-index: 100;" data-x="0" data-y="0" data-scale="2">
<div class="mosdef-container">
<div class="mosdef-title" style="text-align: center; padding: 50px;">
<h1><u>mBuild</u></h1>
</div>
<div class="mosdef-float-left" style="padding: 50px;">
<div class="mosdef-float-right">
<div id="mol-container" style="width: 300px; height: 300px; float: right; margin-left: -30px;">
</div>
</div>
<ul>
<li style="margin-top: 50px"><h3>Build Molecules</h3></li>
<li style="margin-top: 50px"><h3>Add Connectivity</h3></li>
<li style="margin-top: 50px"><h3>Fill a simulation Box</h3></li>
</ul>
</div>
</div>
<img id="workflow-image" src="images/mosdef-workflow.png" width="600" alt="workflow" style="position:absolute; display: none; margin-top: -260px; margin-left: 575px"/>
</div>
<div id="foyer" class="step slide" data-x="1800" data-y="0" data-scale="2">
<div class="mosdef-container" style="text-align: center">
<div style="padding: 50px;">
<h1><u>Foyer</u></h1>
</div>
<div class="mosdef-float-right">
<img src="images/foyer-molecule.png" height="265"/>
<img src="images/foyer-smarts.png" width="424" height="265"/>
</div>
<ul>
<li><h3><code>XML</code> based Forcefields</cod></h3></li>
<li style="margin-top: 50px"><h3>Robust Overrides Mechanism</h3></li>
</ul>
</div>
</div>
<div id="gmso" class="step slide" data-x="1800" data-y="1400" data-scale="2">
<div class="mosdef-container">
<div style="padding: 50px; text-align: center">
<h1><u>GMSO</u></h1>
<h2>View, Edit, and Save your Parameterized System</h2>
</div>
<div class="mosdef-float-right" style="float:left; margin-left: 30px">
<img src="images/gmso-graphics.png" width="312" height="255"/>
</div>
<ul style="padding-left: 320px;">
<li style="margin-top: 50px; margin-left: 50px"><h3>Supports Arbitrary Potential forms</h3></li>
<li style="margin-top: 50px; margin-left: 50px;"><h3>Parameters stored with Units</h3></li>
</ul>
<div class="gmso-table1" style="width: 100%;">
<table style="margin-left: 30px; margin-top: 60px;">
<thead>
<tr>
<th colspan="2" style="background: #E1AD01"><u><b>AtomTypes</b></u></th>
<th colspan="2" style="background: maroon;"><u><b>BondTypes</b></u></th>
</tr>
</thead>
<tbody>
<tr>
<td>Index</td>
<td>O(0)</td>
<td>Index</td>
<td>0</td>
</tr>
<tr>
<td>Type</td>
<td><code>opls 268</code></td>
<td>Atom1</td>
<td>O(0)</td>
</tr>
<tr>
<td>Sigma</td>
<td>3.0 <span>Å</span></td>
<td>Atom2</td>
<td>C(1)</td>
</tr>
<tr>
<td>Charge</td>
<td>0.53 q</td>
<td>r_eq</td>
<td>1.364 <span>Å</span></td>
</tr>
</tbody>
</table>
</div>
</div>
</div>
<div id="simulationEngines" class="step slide" data-x="0" data-y="1400" data-scale="2">
<div class="mosdef-container">
<div style="padding: 50px; text-align: center">
<h1><u>Simulation Engines</u></h1>
<h2>Support For Common MD and MC Simulation Engines</h2>
</div>
<div class="mosdef-float-right" style="float:left; margin-left: 30px">
<img src="images/hoomdblue-logo-horizontal.svg" style="margin-left: 50px;" width="200" height="150" alt="hoomd.svg"/>
<img src="images/cassandra.png" style="margin-left: 50px;" width="115" height="134"
alt="cassandra.png"/>
<img src="images/gomc.png" width="150" style="margin-left: 50px;" height="150" alt="gomc.png"/>
<br/>
<img src="images/lammps.png" style="margin-top: 50px; margin-left: 50px" width="237" height="58"
alt="lammps.png"/>
<img src="images/gromacs.jpg" style="margin-left: 50px" alt="gromacs.jpg"/>
</div>
</div>
</div>
<div id="overview" class="step" data-x="1000" data-y="700" data-scale="4"></div>
</div>
<script src="js/impress.min.js"></script>
<script src="js/3Dmol-min.js"></script>
<script>impress().init();</script>
<script>
const rootElement = document.getElementById("impress");
let viewer;
const drawMolecule = () => {
const molContainer = document.getElementById('mol-container', {
id: 'molViewerCanvas',
});
if (viewer) {
return;
}
const config = {backgroundColor: '#F0F0F0'};
viewer = $3Dmol.createViewer(molContainer, config);
fetch('benzoic_acid.mol2')
.then(response => response.text())
.then(data => {
const canvas = document.getElementById('undefined');
canvas.style.position = 'relative'; // FIXME: the canvas id is always undefined
canvas.style.width = '300px';
canvas.style.height = '300px';
viewer.addModel(data, 'mol2');
viewer.setStyle({}, {
stick: {"radius": 0.2, "color": "grey"},
sphere: {"scale": 0.3},
});
viewer.zoomTo();
viewer.render();
viewer.zoom(0.8, 2000);
}).catch((e) => {
console.log(e)
});
};
rootElement.addEventListener("impress:stepenter", event => {
if (event.target.id === "mbuild") {
drawMolecule();
}
});
rootElement.addEventListener('impress:stepleave', event => {
const deck = document.querySelectorAll(".impress-enabled .step");
const summaryImage = document.getElementById('workflow-image');
const nextStep = event.detail.next;
deck.forEach(slide => {
if(nextStep.id === "overview"){
slide.style.opacity = 1;
summaryImage.style.display = 'block';
} else {
slide.style.opacity = 0;
summaryImage.style.display = 'none';
}
});
nextStep.style.opacity = 1;
});
document.addEventListener('DOMContentLoaded', event => {
const summaryImage = document.getElementById('workflow-image');
const body = document.getElementsByTagName('body')[0];
if(body.className.includes('impress-on-overview')) {
const deck = document.querySelectorAll(".impress-enabled .step");
deck.forEach(slide => {
slide.style.opacity = 1;
});
drawMolecule();
summaryImage.style.display = 'block';
}
});
</script>
</body>
</html>