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/*
Draws the map using Leaflet and OpenStreetmap
drawMap() is the main function.
*/
var map = L.map( 'mapid', {
center: [51.505, -0.09], // Default to U.S.A
minZoom: 2,
zoom: 0
});
L.tileLayer( 'http://{s}.tile.openstreetmap.org/{z}/{x}/{y}.png', {
attribution: '© <a href="https://www.openstreetmap.org/copyright">OpenStreetMap</a> | <a href="http://covid19.genenetwork.org/">COVID-19 PubSeq</a>',
subdomains: ['a','b','c']
}).addTo(map);
/*
* When a page gets rendered this function draws the map
*/
function drawMap(){
var mymap = map;
// ---- fetch all counts
fetch(scriptRoot + "api/getCountByGPS")
.then(response => {
console.log(response)
return response.json();
})
.then(data => {
buildMapMarkers(data);
});
document.getElementById("map_view").classList.remove("invisible");
map.invalidateSize();
}
/*
* Register a marker with special attribute track # sequences
*/
seqMarker = L.Marker.extend({
options: {
seqMarkerLocation: "Loc",
contributors: "countContrib",
sequences: "countSeq"
}
});
/*
* Builds markers on the map. We use cluster groups to allow
* counts at different zoom levels. This function is called
* once on page loading. markerClusterGroup just handles it.
* Note the display is handled in CSS (main.css) as .my-custom-icon*
*/
function buildMapMarkers(data) {
let markers = L.markerClusterGroup({
singleMarkerMode: true,
iconCreateFunction: function (cluster) {
// ---- add marker
// array of each marker in the cluster:
var theseMarkers = cluster.getAllChildMarkers();
// --- compute zoom level and set style
sumCount = 0;
for (var i = 0; i < theseMarkers.length; i++) {
sumCount += theseMarkers[i].options.sequences;
}
if (theseMarkers.length < 2) {
return L.divIcon({
html: sumCount,
className: 'my-custom-icon my-custom-icon-0',
})
} else {
var digits = (sumCount + '').length;
return L.divIcon({
html: sumCount,
className: 'my-custom-icon my-custom-icon-'+digits,
});
}}});
// ---- Build the marker list
for (let i = 0; i < data.length; i++) {
let {"count": fastaCount, GPS, LocationLabel: label } = data[i];
let countSeq = Number(fastaCount);
let coordinates = GPS.split(" ");
if (!(coordinates == null)) {
let lat, lon;
[lon, lat] = coordinates.map(parseFloat);
let point = L.point()
marker = new seqMarker([lat, lon],markerOptions={title: fastaCount+" sequences",sequences: countSeq});
marker.bindPopup("<b>" + label + "</b><br/>" + "SARS-CoV-2<br/>sequences: " +fastaCount);
markers.addLayer(marker);
}
}
map.addLayer(markers);
}
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