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index.html
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<!DOCTYPE html>
<meta charset="utf-8">
<title>Varroa samples</title>
<style>
.country:hover{
stroke: #fff;
stroke-width: 1.5px;
}
#container {
margin:10px 10%;
border:2px solid #000;
border-radius: 5px;
height:100%;
overflow:hidden;
background: #F0F8FF;
}
.hidden {
display: none;
}
div.tooltip {
color: #222;
font: 20px sans-serif;
background: #fff;
padding: .5em;
text-shadow: #f5f5f5 0 1px 0;
border-radius: 2px;
box-shadow: 0px 0px 2px 0px #a6a6a6;
opacity: 0.9;
position: absolute;
}
.graticule {
fill: none;
stroke: #bbb;
stroke-width: .5px;
stroke-opacity: .5;
}
.equator {
stroke: #ccc;
stroke-width: 1px;
}
body {
color: black;
font: 20px sans-serif;
}
button {
position: absolute;
right: 30px;
top: 30px;
}
<button>Reset</button>
</style>
</head>
<body>
<h1><i>Varroa destructor</i> world collection</h1>
<p>The world map shows the sampling locations in which honey bee mites specimens were already collected or will be soon. The ongoing collection aims to cover as many regions as possible to study the biogeography of Varroa destructor and reconstruct its roads of invasion, using whole genome sequencing.</p>
<p>Black point: potential contact, red point: sampling in progress, green: samples received at the lab.</p>
<div id="container"></div>
<script src="https://d3js.org/topojson.v1.min.js"></script>
<script src="https://d3js.org/d3.v3.min.js"></script>
<script>
d3.select(window).on("resize", throttle);
var zoom = d3.behavior.zoom()
.scaleExtent([1, 9])
.on("zoom", move);
var width = document.getElementById('container').offsetWidth;
var height = width / 2;
var topo,projection,path,svg,g;
var graticule = d3.geo.graticule();
var tooltip = d3.select("#container").append("div").attr("class", "tooltip hidden");
setup(width,height);
function setup(width,height){
projection = d3.geo.mercator()
.translate([(width/2), (height/2)])
.center([5,0])
.scale( width / 2 / Math.PI);
path = d3.geo.path().projection(projection);
svg = d3.select("#container").append("svg")
.attr("width", width)
.attr("height", height)
.call(zoom)
.on("click", click)
.append("g");
g = svg.append("g");
}
d3.json("json/world-topo-min.json", function(error, world) {
var countries = topojson.feature(world, world.objects.countries).features;
topo = countries;
draw(topo);
});
function draw(topo) {
svg.append("path")
.datum(graticule)
.attr("class", "graticule")
.attr("d", path);
g.append("path")
.datum({type: "LineString", coordinates: [[-180, 0], [-90, 0], [0, 0], [90, 0], [180, 0]]})
.attr("class", "equator")
.attr("d", path);
var country = g.selectAll(".country").data(topo);
country.enter().insert("path")
.attr("class", "country")
.attr("d", path)
.attr("id", function(d,i) { return d.id; })
.attr("title", function(d,i) { return d.properties.name; })
.style("fill", function(d, i) { return d.properties.color; });
//Add data on samples
d3.json("json/samples.json", function(err, samples) {
samples.forEach(function(i){
addpoint(i.longitude,i.latitude, i.name , i.status);
});
});
//offsets for tooltips
var offsetL = document.getElementById('container').offsetLeft+20;
var offsetT = document.getElementById('container').offsetTop+10;
country
.on("mousemove", function(d,i) {
var mouse = d3.mouse(svg.node()).map( function(d) { return parseInt(d); } );
tooltip.classed("hidden", false)
.attr("style", "left:"+(mouse[0]+offsetL)+"px;top:"+(mouse[1]+offsetT)+"px")
.html(d.properties.name);
})
.on("mouseout", function(d,i) {
tooltip.classed("hidden", true);
});
//function to add points and text to the map (used in plotting capitals)
function addpoint(lat,lon,text,status) {
var gpoint = g.append("g")
.attr("class", "gpoint")
.attr("title", text)
.style("fill", status);
var x = projection([lat,lon])[0];
var y = projection([lat,lon])[1];
gpoint.append("svg:circle")
.attr("cx", x)
.attr("cy", y)
.attr("class","point")
.attr("r", 5);
gpoint.on("mouseover", onMouseOver)
.on("mouseout", onMouseOut);
function onMouseOver () {
var mouse = d3.mouse(svg.node()).map( function(d) { return parseInt(d); } );
var display = "<center>" + this.getAttribute("title") ;
tooltip.classed("hidden", false)
.attr("style", "left:"+(mouse[0]+offsetL)+"px;top:"+(mouse[1]+offsetT)+"px")
.html(display);
d3.select(this).style("fill", "red");
};
function onMouseOut () {
tooltip.classed("hidden", true);
d3.select(this).style("fill", status);
}
}
}
function redraw() {
width = document.getElementById('container').offsetWidth;
height = width / 2;
d3.select('svg').remove();
setup(width,height);
draw(topo);
}
function move() {
var t = d3.event.translate;
var s = d3.event.scale;
zscale = s;
var h = height/4;
t[0] = Math.min(
(width/height) * (s - 1),
Math.max( width * (1 - s), t[0] )
);
t[1] = Math.min(
h * (s - 1) + h * s,
Math.max(height * (1 - s) - h * s, t[1])
);
zoom.translate(t);
g.attr("transform", "translate(" + t + ")scale(" + s + ")");
//adjust the country hover stroke width based on zoom level
d3.selectAll(".country").style("stroke-width", 1.5 / s);
d3.selectAll(".point").attr("r", 5 / s);
}
var throttleTimer;
function throttle() {
window.clearTimeout(throttleTimer);
throttleTimer = window.setTimeout(function() {
redraw();
}, 200);
}
//geo translation on mouse click in map
function click() {
var latlon = projection.invert(d3.mouse(this));
console.log(latlon);
}
</script>
</body>
</html>