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index.html 8.61 KiB
<!DOCTYPE html>
<html lang="en">
<head>
<meta charset="utf-8" />
<meta name="viewport" content="width=device-width, user-scalable=no, minimum-scale=1.0, maximum-scale=1.0">
<title>Mol* Proteopedia Wrapper</title>
<style>
* {
margin: 0;
padding: 0;
box-sizing: border-box;
}
#app {
position: absolute;
left: 160px;
top: 100px;
width: 600px;
height: 600px;
border: 1px solid #ccc;
}
#controls {
position: absolute;
width: 130px;
top: 10px;
left: 10px;
}
#controls > button {
display: block;
width: 100%;
text-align: left;
}
#controls > hr {
margin: 5px 0;
}
#controls > input, #controls > select {
width: 100%;
display: block;
}
#volume-streaming-wrapper {
position: absolute;
top: 100px;
left: 780px;
width: 300px;
}
</style>
<link rel="stylesheet" type="text/css" href="app.css" />
<script type="text/javascript" src="./index.js"></script>
</head>
<body>
<div id='controls'>
<h3>Source</h3>
<input type='text' id='url' placeholder='url' style='width: 400px' />
<input type='text' id='assemblyId' placeholder='assembly id' />
<select id='format'>
<option value='cif' selected>CIF</option>
<option value='pdb'>PDB</option>
</select>
</div>
<div id="app"></div>
<div id="volume-streaming-wrapper"></div>
<script>
// it might be a good idea to define these colors in a separate script file
var CustomColors = [0x00ff00, 0x0000ff];
// create an instance of the plugin var PluginWrapper = new MolStarProteopediaWrapper();
console.log('Wrapper version', MolStarProteopediaWrapper.VERSION_MAJOR, MolStarProteopediaWrapper.VERSION_MINOR);
function $(id) { return document.getElementById(id); }
var pdbId = '1cbs', assemblyId= 'preferred';
var url = 'https://www.ebi.ac.uk/pdbe/static/entry/' + pdbId + '_updated.cif';
var format = 'cif';
$('url').value = url;
$('url').onchange = function (e) { url = e.target.value; }
$('assemblyId').value = assemblyId;
$('assemblyId').onchange = function (e) { assemblyId = e.target.value; }
$('format').value = format;
$('format').onchange = function (e) { format = e.target.value; }
// var url = 'https://www.ebi.ac.uk/pdbe/entry-files/pdb' + pdbId + '.ent';
// var format = 'pdb';
// var assemblyId = 'deposited';
var representationStyle = {
sequence: { coloring: 'proteopedia-custom' }, // or just { }
hetGroups: { kind: 'ball-and-stick' }, // or 'spacefill
water: { hide: true },
snfg3d: { hide: false }
};
PluginWrapper.init('app' /** or document.getElementById('app') */, {
customColorList: CustomColors
});
PluginWrapper.setBackground(0xffffff);
PluginWrapper.load({ url: url, format: format, assemblyId: assemblyId, representationStyle: representationStyle });
PluginWrapper.toggleSpin();
PluginWrapper.events.modelInfo.subscribe(function (info) {
console.log('Model Info', info);
listHetGroups(info);
});
addControl('Load Asym Unit', () => PluginWrapper.load({ url: url, format: format }));
addControl('Load Assembly', () => PluginWrapper.load({ url: url, format: format, assemblyId: assemblyId }));
addSeparator();
addHeader('Representation');
addControl('Custom Chain Colors', () => PluginWrapper.updateStyle({ sequence: { coloring: 'proteopedia-custom' } }, true));
addControl('Default Chain Colors', () => PluginWrapper.updateStyle({ sequence: { } }, true));
addControl('HET Spacefill', () => PluginWrapper.updateStyle({ hetGroups: { kind: 'spacefill' } }, true));
addControl('HET Ball-and-stick', () => PluginWrapper.updateStyle({ hetGroups: { kind: 'ball-and-stick' } }, true));
addControl('Hide 3DSNFG', () => PluginWrapper.updateStyle({ snfg3d: { hide: true } }, true));
addControl('Show 3DSNFG', () => PluginWrapper.updateStyle({ snfg3d: { hide: false } }, true));
addControl('Hide Water', () => PluginWrapper.updateStyle({ water: { hide: true } }, true));
addControl('Show Water', () => PluginWrapper.updateStyle({ water: { hide: false } }, true));
addSeparator();
addHeader('Camera');
addControl('Toggle Spin', () => PluginWrapper.toggleSpin());
addSeparator();
addHeader('Animation');
// adjust this number to make the animation faster or slower
// requires to "restart" the animation if changed PluginWrapper.animate.modelIndex.maxFPS = 30;
addControl('Play To End', () => PluginWrapper.animate.modelIndex.onceForward());
addControl('Play To Start', () => PluginWrapper.animate.modelIndex.onceBackward());
addControl('Play Palindrome', () => PluginWrapper.animate.modelIndex.palindrome());
addControl('Play Loop', () => PluginWrapper.animate.modelIndex.loop());
addControl('Stop', () => PluginWrapper.animate.modelIndex.stop());
addSeparator();
addHeader('Misc');
addControl('Apply Evo Cons Style', () => PluginWrapper.coloring.evolutionaryConservation());
addControl('Apply Evo Cons Colors', () => PluginWrapper.coloring.evolutionaryConservation({ sequence: true, het: false, keepStyle: true }));
addControl('Default Visuals', () => PluginWrapper.updateStyle());
addSeparator();
addHeader('HET Groups');
addControl('Reset', () => PluginWrapper.hetGroups.reset());
addHetGroupsContainer();
addSeparator();
addHeader('Exp. Data');
addControl('Init', () => PluginWrapper.experimentalData.init($('volume-streaming-wrapper')));
addControl('Remove', () => PluginWrapper.experimentalData.remove());
addSeparator();
addHeader('State');
var snapshot;
addControl('Create Snapshot', () => {
snapshot = PluginWrapper.snapshot.get();
// could use JSON.stringify(snapshot) and upload the data
});
addControl('Apply Snapshot', () => {
if (!snapshot) return;
PluginWrapper.snapshot.set(snapshot);
// or download snapshot using fetch or ajax or whatever
// or PluginWrapper.snapshot.download(url);
});
////////////////////////////////////////////////////////
function addHetGroupsContainer() {
var div = document.createElement('div');
div.id = 'het-groups';
$('controls').appendChild(div);
}
function addControl(label, action) {
var btn = document.createElement('button');
btn.onclick = action;
btn.innerText = label;
$('controls').appendChild(btn);
}
function addSeparator() {
var hr = document.createElement('hr');
$('controls').appendChild(hr);
}
function addHeader(header) {
var h = document.createElement('h3');
h.innerText = header;
$('controls').appendChild(h);
}
function listHetGroups(info) {
var div = $('het-groups'); div.innerHTML = '';
info.hetResidues.forEach(function (r) {
var l = document.createElement('button');
l.innerText = r.name;
l.onclick = function () {
PluginWrapper.hetGroups.focusFirst(r.name);
};
div.appendChild(l);
});
}
</script>
</body>
</html>