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autoload.js
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autoload.js
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//auto-initialization
//Create embedded viewer from HTML attributes if true
//viewer and callback are used by the testing harness
$3Dmol.autoload=function(viewer,callback){
var i, dataname, type;
if ($(".viewer_3Dmoljs")[0] !== undefined)
$3Dmol.autoinit = true;
if ($3Dmol.autoinit) {
$3Dmol.processing_autoinit = true;
viewer =(viewer!= undefined) ? viewer :null;
$3Dmol.viewers = {};
var nviewers = 0;
$(".viewer_3Dmoljs").each( function() {
var viewerdiv = $(this);
var datauri = [];
var datatypes = [];
var uri = '';
var showUI = false;
if(viewerdiv.css('position') == 'static') {
//slight hack - canvas needs this element to be positioned
viewerdiv.css('position','relative');
}
if(viewerdiv.data('ui'))
showUI = true;
type = null;
if (viewerdiv.data("pdb")) {
datauri.push("https://files.rcsb.org/view/" + viewerdiv.data("pdb") + ".pdb");
datatypes.push("pdb");
} else if(viewerdiv.data("cid")) {
//this doesn't actually work since pubchem does have CORS enabled
datatypes.push("sdf");
datauri.push("https://pubchem.ncbi.nlm.nih.gov/rest/pug/compound/cid/" + viewerdiv.data("cid") +
"/SDF?record_type=3d");
}
else if (viewerdiv.data("href") || viewerdiv.data("url")){
uri = viewerdiv.data("href");
datauri.push(uri);
type = uri.substr(uri.lastIndexOf('.')+1);
datatypes.push(type);
var molName = uri.substring(uri.lastIndexOf('/') + 1, uri.lastIndexOf('.'));
if(molName == '/')
molName = uri.substring(uri.lastIndexOf('/') + 1);
viewerdiv.data(datatypes[datatypes.length -1 ], molName);
}
var divdata=viewerdiv.data();
for(i in divdata){
if((i.substring(0,3) ==="pdb" && (i !== "pdb"))){
datauri.push("https://files.rcsb.org/view/" +divdata[i]+".pdb");
datatypes.push('pdb');
}else if(i.substring(0,4) ==="href" && (i!=="href")){
uri = divdata[i];
datauri.push(uri);
datatypes.push(uri.substr(uri.lastIndexOf('.')+1));
}else if(i.substring(0,3)==="cid" && (i!=="cid")){
datauri.push("https://pubchem.ncbi.nlm.nih.gov/rest/pug/compound/cid/" + divdata[i] + "/SDF?record_type=3d");
datatypes.push('sdf');
}
}
var options = {};
if(viewerdiv.data("options"))
options = $3Dmol.specStringToObject(viewerdiv.data("options"));
//note that data tags must be lowercase
var bgcolor = $3Dmol.CC.color(viewerdiv.data("backgroundcolor"));
var bgalpha = viewerdiv.data("backgroundalpha");
bgalpha = bgalpha == undefined ? 1.0 : parseFloat(bgalpha);
var style = {line:{}};
if(viewerdiv.data("style")) style = $3Dmol.specStringToObject(viewerdiv.data("style"));
var select = {};
if(viewerdiv.data("select")) select = $3Dmol.specStringToObject(viewerdiv.data("select"));
var selectstylelist = [];
var surfaces = [];
var labels = [];
var zoomto = {};
var spin = null;
var d = viewerdiv.data();
//let users specify individual but matching select/style/surface tags, eg.
//data-select1 data-style1
var stylere = /style(.+)/;
var surfre = /surface(.*)/;
var reslabre = /labelres(.*)/;
var keys = [];
for(dataname in d) {
if(Object.prototype.hasOwnProperty.call(d,dataname)) {
keys.push(dataname);
}
}
keys.sort();
for(i = 0; i < keys.length; i++) {
dataname = keys[i];
var m = stylere.exec(dataname);
var selname, newsel, styleobj;
if(m) {
selname = "select"+m[1];
newsel = $3Dmol.specStringToObject(d[selname]);
styleobj = $3Dmol.specStringToObject(d[dataname]);
selectstylelist.push([newsel,styleobj]);
}
m = surfre.exec(dataname);
if(m) {
selname = "select"+m[1];
newsel = $3Dmol.specStringToObject(d[selname]);
styleobj = $3Dmol.specStringToObject(d[dataname]);
surfaces.push([newsel,styleobj]);
}
m = reslabre.exec(dataname);
if(m) {
selname = "select"+m[1];
newsel = $3Dmol.specStringToObject(d[selname]);
styleobj = $3Dmol.specStringToObject(d[dataname]);
labels.push([newsel,styleobj]);
}
if(dataname == "zoomto") {
zoomto = $3Dmol.specStringToObject(d[dataname]);
}
if(dataname == "spin") {
spin = $3Dmol.specStringToObject(d[dataname]);
}
}
//apply all the selections/styles parsed out above to the passed viewer
var applyStyles = function(glviewer) {
glviewer.setStyle(select,style);
if(showUI){
glviewer.ui.loadSelectionStyle(select, style);
}
for(i = 0; i < selectstylelist.length; i++) {
let sel = selectstylelist[i][0] || {};
let sty = selectstylelist[i][1] || {"line":{}};
glviewer.setStyle(sel, sty);
if(showUI){
glviewer.ui.loadSelectionStyle(sel, sty);
}
}
for(i = 0; i < surfaces.length; i++) {
let sel = surfaces[i][0] || {};
let sty = surfaces[i][1] || {};
let viewer = glviewer;
if(showUI){
//seemingly unnecessary capturing of values due to jshint
//not understanding let?
let doload = function($3D, viewer, sel, sty) {
viewer.addSurface($3D.SurfaceType.VDW, sty, sel, sel).then((surfid)=>{
viewer.ui.loadSurface("VDW", sel, sty, surfid);
});
};
doload($3Dmol, viewer, sel, sty);
}
else {
glviewer.addSurface($3Dmol.SurfaceType.VDW, sty, sel, sel);
}
}
for(i = 0; i < labels.length; i++) {
let sel = labels[i][0] || {};
let sty = labels[i][1] || {};
glviewer.addResLabels(sel, sty);
}
glviewer.render();
glviewer.zoomTo(zoomto);
if(spin) {
glviewer.spin(spin.axis,spin.speed);
}
};
var glviewer = viewer;
try {
var config = viewerdiv.data('config') || {};
config.defaultcolors = config.defaultcolors || $3Dmol.rasmolElementColors;
if(config.backgroundColor === undefined) config.backgroundColor = bgcolor;
if(config.backgroundAlpha === undefined) config.backgroundAlpha = bgalpha;
config.ui = showUI;
if(glviewer==null) {
glviewer = $3Dmol.viewers[this.id || nviewers++] = $3Dmol.createViewer(viewerdiv, config);
} else {
glviewer.setBackgroundColor(bgcolor, bgalpha);
glviewer.setConfig(config);
if(showUI) glviewer.ui.initiateUI();
}
} catch ( error ) {
console.log(error);
//for autoload, provide a useful error message
viewerdiv.text("WebGL appears to be disabled.");
}
if (datauri.length!=0) {
//load multiple data elements in serial
i = 0;
var process = function(moldata) {
//add moldata to viewer and load next model
uri = datauri[i]; //this is where the moldata came from
var type = viewerdiv.data("type") || viewerdiv.data("datatype") || datatypes[i];
glviewer.addModel(moldata, type, options);
if(showUI){
var modelName = viewerdiv.data(datatypes[i]);
glviewer.ui.setModelTitle(modelName);
}
i += 1;
if(i < datauri.length) {
$.get(datauri[i], process, 'text');
}
else {
// or finalize if this is the last model
applyStyles(glviewer);
if(viewerdiv.data("callback")) {
//evaluate javascript in the string, if it resolves to a function,
//call it with the viewer
/*jshint -W061 */ var runres = eval(viewerdiv.data("callback"));
if(typeof(runres) == 'function') {
runres(glviewer);
}
}
$3Dmol.processing_autoinit = false;
if(callback) callback(glviewer);
}
};
$.get(datauri[0], process, 'text');
}
else {
if (viewerdiv.data("element")) {
var moldata = $("#" + viewerdiv.data("element")).val() || "";
type = viewerdiv.data("type") || viewerdiv.data("datatype");
if (!type){
console.log("Warning: No type specified for embedded viewer with moldata from " + viewerdiv.data("element") +
"\n assuming type 'pdb'");
type = 'pdb';
}
glviewer.addModel(moldata, type, options);
}
applyStyles(glviewer);
if(viewerdiv.data("callback")) {
//evaluate javascript in the string, if it resolves to a function,
//call it with the viewer
/*jshint -W061 */ var runres = eval(viewerdiv.data("callback"));
if(typeof(runres) == 'function') {
runres(glviewer);
}
}
$3Dmol.processing_autoinit = false;
if (callback)
callback(glviewer);
}
});
}};
//if domcontent has already load
if (document.readyState === "interactive") {
$(document).ready(function() {
$3Dmol.autoload();
});
} else {
document.addEventListener('DOMContentLoaded', function() {
$3Dmol.autoload();
});
}