GUIDE
- Left-click and drag the background to move the graph
- Left-click and drag the nodes to reorganize
- Left-click a node to view first level connections
- Double left-click a node to navigate to its page
- Double left-click the background to zoom in
- Right-click the background to zoom out
// graph team
sigma.utils.pkg('sigma.canvas.nodes');
sigma.canvas.nodes.image = (function() {
var _cache = {},
_loading = {},
_callbacks = {};
// Return the renderer itself:
var renderer = function(node, context, settings) {
var args = arguments,
prefix = settings('prefix') || '',
size = node[prefix + 'size'],
color = node.color || settings('defaultNodeColor'),
url = node.url;
if (_cache[url]) {
context.save();
// Draw the clipping disc:
context.beginPath();
context.arc(
node[prefix + 'x'],
node[prefix + 'y'],
node[prefix + 'size'],
0,
Math.PI * 2,
true
);
context.closePath();
context.clip();
// Draw the image
context.drawImage(
_cache[url],
node[prefix + 'x'] - size,
node[prefix + 'y'] - size,
2 * size,
2 * size
);
// Quit the "clipping mode":
context.restore();
// Draw the border:
context.beginPath();
context.arc(
node[prefix + 'x'],
node[prefix + 'y'],
node[prefix + 'size'],
0,
Math.PI * 2,
true
);
context.lineWidth = 1;
context.strokeStyle = node.color || settings('defaultNodeColor');
context.stroke();
} else {
sigma.canvas.nodes.image.cache(url);
sigma.canvas.nodes.def.apply(
sigma.canvas.nodes,
args
);
}
};
// Let's add a public method to cache images, to make it possible to
// preload images before the initial rendering:
renderer.cache = function(url, callback) {
if (callback)
_callbacks[url] = callback;
if (_loading[url])
return;
var img = new Image();
img.onload = function() {
_loading[url] = false;
_cache[url] = img;
if (_callbacks[url]) {
_callbacks[url].call(this, img);
delete _callbacks[url];
}
};
_loading[url] = true;
img.src = url;
};
return renderer;
})();
var i,
s,
o,
offset_left = 0.5,
N = 1,
E = 40,
C = 5,
d = 0.5,
cs = [],
g = {
nodes: [],
edges: []
};
if (!sigma.classes.graph.hasMethod('neighbors')){
sigma.classes.graph.addMethod('neighbors', function(nodeId) {
var k,
neighbors = {},
index = this.allNeighborsIndex[nodeId] || {};
for (k in index)
neighbors[k] = this.nodesIndex[k];
return neighbors;
});
}
//adding the central node
g.nodes.push({
id: 6179,
label: 'Archived: Cytokines and Inflammation',
type: 'image',
url: 'https://research.pasteur.fr/wp-content/uploads/2015/07/research.pasteur.fr_institutpasteur_i01271-150x150.jpg',
x: 0,
y: 0,
size: 30,
color: '#DDDDDD'
});
N=2
var x_node = Math.cos(2 * 0 * Math.PI / N) * 2;
var y_node = Math.sin(2 * 0 * Math.PI / N) * 2;
var biggest_node_size = 0;
//check if content already exist
x_site = Math.cos(2 * 0 * Math.PI / N) * 2;
y_site = Math.sin(2 * 0 * Math.PI / N) * 2;
// adding site
g.nodes.push({
id: ,
label: 'Ajax Graph',
type: 'image',
url: '',
page_url: 'https://research.pasteur.fr/en/ajax-graph/',
x: x_site,
y: y_site,
size: 16,
color: '#DDDDDD'
});
//link to content
g.edges.push({
id: 6179,
size: 0.5,
source: 6179,
target: });
//check if content already exist
x_site = Math.cos(2 * 1 * Math.PI / N) * 2;
y_site = Math.sin(2 * 1 * Math.PI / N) * 2;
// adding site
g.nodes.push({
id: 4032,
label: 'Jean-Marc Cavaillon',
type: 'image',
url: 'https://research.pasteur.fr/wp-content/uploads/2015/07/research.pasteur.fr_cavaillon-150x150.jpg',
page_url: 'https://research.pasteur.fr/en/member/jean-marc-cavaillon/',
x: x_site,
y: y_site,
size: 16,
color: '#DDDDDD'
});
//link to content
g.edges.push({
id: 61794032,
size: 0.5,
source: 6179,
target: 4032 });
// update positions
x_node = Math.cos(2 * 0 * Math.PI / N) * 10;
y_node = Math.sin(2 * 0 * Math.PI / N) * 10;
N=12
// adding node
var x_node = Math.cos(2 * 0 * Math.PI / N) * 10;
var y_node = Math.sin(2 * 0 * Math.PI / N) * 10;
g.nodes.push({
id: 88095,
label: 'EVENT: Bruno LEMAITRE – Infection & Epidemiology Department Seminar',
x: x_node,
y: y_node,
type: 'image',
url: '',
page_url: 'https://research.pasteur.fr/en/event/bruno-lemaitre-infection-epidemiology-department-seminar/',
size: 24,
color: '#DDDDDD'
});
//link content to central post
g.edges.push({
id: 617988095,
size: 0.5,
source: 6179,
target: 88095 });
//check if content already exist
// update node size depending on the amount of edges
g.nodes.forEach(function(n) {
if (n.id == 4032) {
n.size = n.size + 10;
if ( n.size > biggest_node_size ){
biggest_node_size = n.size;
}
}
});
g.nodes.forEach(function(n) {
if (n.id == 6179) {
if ( n.size < biggest_node_size ){
n.size = biggest_node_size;
}
}
});
//link to content
g.edges.push({
id: 880954032,
size: 0.5,
source: 88095,
target: 4032 });
//check if content already exist
if (x_node<0){
x_site = x_node + ((Math.random() * 2)-1) - offset_left;
}else{
x_site = x_node + ((Math.random() * 2)-1) + offset_left;
}
if (y_node<0){
y_site = y_node + ((Math.random() * 2)-1) - offset_left;
}else{
y_site = y_node + ((Math.random() * 2)-1) + offset_left;
}
// adding site
g.nodes.push({
id: 4365,
label: 'Marie-Lise Gougeon',
type: 'image',
url: 'https://research.pasteur.fr/wp-content/uploads/2015/06/research.pasteur.fr_marie-lise-gougeon-150x150.jpg',
page_url: 'https://research.pasteur.fr/en/member/marie-lise-gougeon/',
x: x_site,
y: y_site,
size: 10,
color: '#DDDDDD'
});
//link to content
g.edges.push({
id: 880954365,
size: 0.5,
source: 88095,
target: 4365 });
// adding node
var x_node = Math.cos(2 * 1 * Math.PI / N) * 10;
var y_node = Math.sin(2 * 1 * Math.PI / N) * 10;
g.nodes.push({
id: 78431,
label: 'NEWS: SEMINAR OF THE INFECTION & EPIDEMIOLOGY DEPARTMENT',
x: x_node,
y: y_node,
type: 'image',
url: '',
page_url: 'https://research.pasteur.fr/en/news/seminar-of-the-infection-epidemiology-department-2/',
size: 24,
color: '#DDDDDD'
});
//link content to central post
g.edges.push({
id: 617978431,
size: 0.5,
source: 6179,
target: 78431 });
//check if content already exist
// update node size depending on the amount of edges
g.nodes.forEach(function(n) {
if (n.id == 4365) {
n.size = n.size + 10;
if ( n.size > biggest_node_size ){
biggest_node_size = n.size;
}
}
});
g.nodes.forEach(function(n) {
if (n.id == 6179) {
if ( n.size < biggest_node_size ){
n.size = biggest_node_size;
}
}
});
//link to content
g.edges.push({
id: 784314365,
size: 0.5,
source: 78431,
target: 4365 });
//check if content already exist
// update node size depending on the amount of edges
g.nodes.forEach(function(n) {
if (n.id == 4032) {
n.size = n.size + 10;
if ( n.size > biggest_node_size ){
biggest_node_size = n.size;
}
}
});
g.nodes.forEach(function(n) {
if (n.id == 6179) {
if ( n.size < biggest_node_size ){
n.size = biggest_node_size;
}
}
});
//link to content
g.edges.push({
id: 784314032,
size: 0.5,
source: 78431,
target: 4032 });
//check if content already exist
if (x_node<0){
x_site = x_node + ((Math.random() * 2)-1) - offset_left;
}else{
x_site = x_node + ((Math.random() * 2)-1) + offset_left;
}
if (y_node<0){
y_site = y_node + ((Math.random() * 2)-1) - offset_left;
}else{
y_site = y_node + ((Math.random() * 2)-1) + offset_left;
}
// adding site
g.nodes.push({
id: 4037,
label: '',
type: 'image',
url: '',
page_url: '',
x: x_site,
y: y_site,
size: 10,
color: '#DDDDDD'
});
//link to content
g.edges.push({
id: 784314037,
size: 0.5,
source: 78431,
target: 4037 });
// adding node
var x_node = Math.cos(2 * 2 * Math.PI / N) * 10;
var y_node = Math.sin(2 * 2 * Math.PI / N) * 10;
g.nodes.push({
id: 33841,
label: 'PROJECT: The role of neutrophils in the host defense against A. fumigatus',
x: x_node,
y: y_node,
type: 'image',
url: 'https://research.pasteur.fr/wp-content/uploads/2015/08/research.pasteur.fr_rameau-mod-150x150.jpg',
page_url: 'https://research.pasteur.fr/en/project/the-role-of-the-neutrophils-in-the-host-defense-against-a-fumigatus/',
size: 24,
color: '#DDDDDD'
});
//link content to central post
g.edges.push({
id: 617933841,
size: 0.5,
source: 6179,
target: 33841 });
//check if content already exist
if (x_node<0){
x_site = x_node + ((Math.random() * 2)-1) - offset_left;
}else{
x_site = x_node + ((Math.random() * 2)-1) + offset_left;
}
if (y_node<0){
y_site = y_node + ((Math.random() * 2)-1) - offset_left;
}else{
y_site = y_node + ((Math.random() * 2)-1) + offset_left;
}
// adding site
g.nodes.push({
id: 4034,
label: 'Oumaima Granet',
type: 'image',
url: 'https://research.pasteur.fr/wp-content/uploads/2015/08/research.pasteur.fr_me1-150x150.jpg',
page_url: 'https://research.pasteur.fr/en/member/oumaima-granet/',
x: x_site,
y: y_site,
size: 10,
color: '#DDDDDD'
});
//link to content
g.edges.push({
id: 338414034,
size: 0.5,
source: 33841,
target: 4034 });
// adding node
var x_node = Math.cos(2 * 3 * Math.PI / N) * 10;
var y_node = Math.sin(2 * 3 * Math.PI / N) * 10;
g.nodes.push({
id: 33265,
label: 'PROJECT: Zinc chelation as new antifungal strategy against Aspergillus fumigatus',
x: x_node,
y: y_node,
type: 'image',
url: 'https://research.pasteur.fr/wp-content/uploads/2015/08/research.pasteur.fr_af-150x150.jpg',
page_url: 'https://research.pasteur.fr/en/project/zinc-chelation-new-antifungal-strategy/',
size: 24,
color: '#DDDDDD'
});
//link content to central post
g.edges.push({
id: 617933265,
size: 0.5,
source: 6179,
target: 33265 });
//check if content already exist
// update node size depending on the amount of edges
g.nodes.forEach(function(n) {
if (n.id == 4034) {
n.size = n.size + 10;
if ( n.size > biggest_node_size ){
biggest_node_size = n.size;
}
}
});
g.nodes.forEach(function(n) {
if (n.id == 6179) {
if ( n.size < biggest_node_size ){
n.size = biggest_node_size;
}
}
});
//link to content
g.edges.push({
id: 332654034,
size: 0.5,
source: 33265,
target: 4034 });
// adding node
var x_node = Math.cos(2 * 4 * Math.PI / N) * 10;
var y_node = Math.sin(2 * 4 * Math.PI / N) * 10;
g.nodes.push({
id: 19763,
label: 'PROJECT: Status of circulating and airways-derived neutrophils in cystic fibrosis',
x: x_node,
y: y_node,
type: 'image',
url: '',
page_url: 'https://research.pasteur.fr/en/project/%ef%bb%bfstatus-of-circulating-and-airways-derived-neutrophils-in-cystic-fibrosis/',
size: 24,
color: '#DDDDDD'
});
//link content to central post
g.edges.push({
id: 617919763,
size: 0.5,
source: 6179,
target: 19763 });
//check if content already exist
// update node size depending on the amount of edges
g.nodes.forEach(function(n) {
if (n.id == 4032) {
n.size = n.size + 10;
if ( n.size > biggest_node_size ){
biggest_node_size = n.size;
}
}
});
g.nodes.forEach(function(n) {
if (n.id == 6179) {
if ( n.size < biggest_node_size ){
n.size = biggest_node_size;
}
}
});
//link to content
g.edges.push({
id: 197634032,
size: 0.5,
source: 19763,
target: 4032 });
// adding node
var x_node = Math.cos(2 * 5 * Math.PI / N) * 10;
var y_node = Math.sin(2 * 5 * Math.PI / N) * 10;
g.nodes.push({
id: 19761,
label: 'PROJECT: Molecular basis of leukocyte reprogramming during systemic inflammation',
x: x_node,
y: y_node,
type: 'image',
url: '',
page_url: 'https://research.pasteur.fr/en/project/molecular-basis-of-leukocyte-reprogramming-during-systemic-inflammation/',
size: 24,
color: '#DDDDDD'
});
//link content to central post
g.edges.push({
id: 617919761,
size: 0.5,
source: 6179,
target: 19761 });
//check if content already exist
// update node size depending on the amount of edges
g.nodes.forEach(function(n) {
if (n.id == 4032) {
n.size = n.size + 10;
if ( n.size > biggest_node_size ){
biggest_node_size = n.size;
}
}
});
g.nodes.forEach(function(n) {
if (n.id == 6179) {
if ( n.size < biggest_node_size ){
n.size = biggest_node_size;
}
}
});
//link to content
g.edges.push({
id: 197614032,
size: 0.5,
source: 19761,
target: 4032 });
// adding node
var x_node = Math.cos(2 * 6 * Math.PI / N) * 10;
var y_node = Math.sin(2 * 6 * Math.PI / N) * 10;
g.nodes.push({
id: 19757,
label: 'PROJECT: Modulation of pro-inflammatory cytokine production',
x: x_node,
y: y_node,
type: 'image',
url: '',
page_url: 'https://research.pasteur.fr/en/project/modulation-of-pro-inflammatory-cytokine-production/',
size: 24,
color: '#DDDDDD'
});
//link content to central post
g.edges.push({
id: 617919757,
size: 0.5,
source: 6179,
target: 19757 });
//check if content already exist
// update node size depending on the amount of edges
g.nodes.forEach(function(n) {
if (n.id == 4032) {
n.size = n.size + 10;
if ( n.size > biggest_node_size ){
biggest_node_size = n.size;
}
}
});
g.nodes.forEach(function(n) {
if (n.id == 6179) {
if ( n.size < biggest_node_size ){
n.size = biggest_node_size;
}
}
});
//link to content
g.edges.push({
id: 197574032,
size: 0.5,
source: 19757,
target: 4032 });
// adding node
var x_node = Math.cos(2 * 7 * Math.PI / N) * 10;
var y_node = Math.sin(2 * 7 * Math.PI / N) * 10;
g.nodes.push({
id: 19755,
label: 'PROJECT: Innate immunity against Leishmania major',
x: x_node,
y: y_node,
type: 'image',
url: '',
page_url: 'https://research.pasteur.fr/en/project/innate-immunity-against-leishmania-major/',
size: 24,
color: '#DDDDDD'
});
//link content to central post
g.edges.push({
id: 617919755,
size: 0.5,
source: 6179,
target: 19755 });
//check if content already exist
// update node size depending on the amount of edges
g.nodes.forEach(function(n) {
if (n.id == 4032) {
n.size = n.size + 10;
if ( n.size > biggest_node_size ){
biggest_node_size = n.size;
}
}
});
g.nodes.forEach(function(n) {
if (n.id == 6179) {
if ( n.size < biggest_node_size ){
n.size = biggest_node_size;
}
}
});
//link to content
g.edges.push({
id: 197554032,
size: 0.5,
source: 19755,
target: 4032 });
// adding node
var x_node = Math.cos(2 * 8 * Math.PI / N) * 10;
var y_node = Math.sin(2 * 8 * Math.PI / N) * 10;
g.nodes.push({
id: 19753,
label: 'PROJECT: Innate immunity against Aspergillus fumigatus',
x: x_node,
y: y_node,
type: 'image',
url: '',
page_url: 'https://research.pasteur.fr/en/project/innate-immunity-against-aspergillus-fumigatus/',
size: 24,
color: '#DDDDDD'
});
//link content to central post
g.edges.push({
id: 617919753,
size: 0.5,
source: 6179,
target: 19753 });
//check if content already exist
// update node size depending on the amount of edges
g.nodes.forEach(function(n) {
if (n.id == 4032) {
n.size = n.size + 10;
if ( n.size > biggest_node_size ){
biggest_node_size = n.size;
}
}
});
g.nodes.forEach(function(n) {
if (n.id == 6179) {
if ( n.size < biggest_node_size ){
n.size = biggest_node_size;
}
}
});
//link to content
g.edges.push({
id: 197534032,
size: 0.5,
source: 19753,
target: 4032 });
// adding node
var x_node = Math.cos(2 * 9 * Math.PI / N) * 10;
var y_node = Math.sin(2 * 9 * Math.PI / N) * 10;
g.nodes.push({
id: 19751,
label: 'PROJECT: Endotoxin tolerance',
x: x_node,
y: y_node,
type: 'image',
url: '',
page_url: 'https://research.pasteur.fr/en/project/endotoxin-tolerance/',
size: 24,
color: '#DDDDDD'
});
//link content to central post
g.edges.push({
id: 617919751,
size: 0.5,
source: 6179,
target: 19751 });
//check if content already exist
// update node size depending on the amount of edges
g.nodes.forEach(function(n) {
if (n.id == 4032) {
n.size = n.size + 10;
if ( n.size > biggest_node_size ){
biggest_node_size = n.size;
}
}
});
g.nodes.forEach(function(n) {
if (n.id == 6179) {
if ( n.size < biggest_node_size ){
n.size = biggest_node_size;
}
}
});
//link to content
g.edges.push({
id: 197514032,
size: 0.5,
source: 19751,
target: 4032 });
// adding node
var x_node = Math.cos(2 * 10 * Math.PI / N) * 10;
var y_node = Math.sin(2 * 10 * Math.PI / N) * 10;
g.nodes.push({
id: 19745,
label: 'PROJECT: Cell signaling via toll-like receptors and Nod molecule',
x: x_node,
y: y_node,
type: 'image',
url: '',
page_url: 'https://research.pasteur.fr/en/project/cell-signaling-via-toll-like-receptors-and-nod-molecule/',
size: 24,
color: '#DDDDDD'
});
//link content to central post
g.edges.push({
id: 617919745,
size: 0.5,
source: 6179,
target: 19745 });
//check if content already exist
// update node size depending on the amount of edges
g.nodes.forEach(function(n) {
if (n.id == 4032) {
n.size = n.size + 10;
if ( n.size > biggest_node_size ){
biggest_node_size = n.size;
}
}
});
g.nodes.forEach(function(n) {
if (n.id == 6179) {
if ( n.size < biggest_node_size ){
n.size = biggest_node_size;
}
}
});
//link to content
g.edges.push({
id: 197454032,
size: 0.5,
source: 19745,
target: 4032 });
// adding node
var x_node = Math.cos(2 * 11 * Math.PI / N) * 10;
var y_node = Math.sin(2 * 11 * Math.PI / N) * 10;
g.nodes.push({
id: 19741,
label: 'PROJECT: Assessment of the inflammatory status of intensive care unit patients',
x: x_node,
y: y_node,
type: 'image',
url: '',
page_url: 'https://research.pasteur.fr/en/project/assessment-of-the-inflammatory-status-of-intensive-care-unit-patients/',
size: 24,
color: '#DDDDDD'
});
//link content to central post
g.edges.push({
id: 617919741,
size: 0.5,
source: 6179,
target: 19741 });
//check if content already exist
// update node size depending on the amount of edges
g.nodes.forEach(function(n) {
if (n.id == 4032) {
n.size = n.size + 10;
if ( n.size > biggest_node_size ){
biggest_node_size = n.size;
}
}
});
g.nodes.forEach(function(n) {
if (n.id == 6179) {
if ( n.size < biggest_node_size ){
n.size = biggest_node_size;
}
}
});
//link to content
g.edges.push({
id: 197414032,
size: 0.5,
source: 19741,
target: 4032 });
var s = new sigma({
//container: document.getElementById('graph-main'),
graph: g,
renderer: {
// IMPORTANT:
// This works only with the canvas renderer, so the
// renderer type set as "canvas" is necessary here.
container: document.getElementById('graph-main'),
type: 'canvas'
},
settings: {
minNodeSize: 12,
maxNodeSize: 30,
mouseWheelEnabled: false,
font: 'Montserrat',
labelThreshold:25,
borderSize:1,
defaultNodeBorderColor: '#333',
sideMargin:25,
}
});
// We first need to save the original colors of our
// nodes and edges, like this:
s.graph.nodes().forEach(function(n) {
n.originalColor = n.color;
//console.log(n.id);
//console.log(s.graph.nodes(n.id));
});
s.graph.edges().forEach(function(e) {
e.originalColor = e.color;
});
// When a node is clicked, we check for each node
// if it is a neighbor of the clicked one. If not,
// we set its color as grey, and else, it takes its
// original color.
// We do the same for the edges, and we only keep
// edges that have both extremities colored.
s.bind('clickNode', function(e) {
var nodeId = e.data.node.id,
toKeep = s.graph.neighbors(nodeId);
toKeep[nodeId] = e.data.node;
s.graph.nodes().forEach(function(n) {
if (toKeep[n.id])
n.color = '#35a9f5';
else
n.color = '#dddddd';
});
s.graph.edges().forEach(function(e) {
if (toKeep[e.source] && toKeep[e.target])
e.color = '#35a9f5';
else
e.color = '#dddddd';
});
// Since the data has been modified, we need to
// call the refresh method to make the colors
// update effective.
s.refresh();
});
// When the stage is clicked, we just color each
// node and edge with its original color.
s.bind('clickStage', function(e) {
s.graph.nodes().forEach(function(n) {
n.color = n.originalColor;
});
s.graph.edges().forEach(function(e) {
e.color = e.originalColor;
});
// Same as in the previous event:
s.refresh();
});
s.bind("doubleClickNode", function (e) {
$("#canvas-wrap, .sigma-scene, .sigma-mouse").val();
ajax_load_page( e.data.node.page_url );
});
var c = s.camera;
s.bind("rightClickStage", function (e) {
sigma.misc.animation.camera(c, {
ratio: c.ratio * c.settings('zoomingRatio')
}, {
duration: 200
});
});
// Configure the noverlap layout:
var noverlapListener = s.configNoverlap({
nodeMargin: 10,
scaleNodes: 0.3,
gridSize: 1,
easing: 'quadraticInOut', // animation transition function
duration: 4000 // animation duration. Long here for the purposes of this example only
});
// Bind the events:
noverlapListener.bind('start stop interpolate', function(e) {
//console.log(e.type);
if(e.type === 'start') {
//console.time('noverlap');
}
if(e.type === 'interpolate') {
//console.timeEnd('noverlap');
}
});
// Start the layout:
s.startNoverlap();
//s.refresh();
// Initialize the dragNodes plugin:
var dragListener = sigma.plugins.dragNodes(s, s.renderers[0]);
dragListener.bind('startdrag', function(event) {
});
dragListener.bind('drag', function(event) {
});
dragListener.bind('drop', function(event) {
});
dragListener.bind('dragend', function(event) {
});