Difference between revisions of "Team:Oxford/New Home"

Line 202: Line 202:
  
 
<h2> Our Project </h2><br/>
 
<h2> Our Project </h2><br/>
 +
 +
<script>
 +
 +
var myGamePiece;
 +
var cells_size = 250;
 +
var cells = [cells_size];
 +
var tCruzi;
 +
var delay = 0;
 +
var magnification = 2;
 +
var rbc_w = 60/2;
 +
var rbc_h = 53/2;
 +
var t_cruzi_w = 50;
 +
var t_cruzi_h = 81; //t cruzi image height
 +
var magnify_w = 2874;
 +
var magnify_h = 3475;
 +
var peek_size = 100;
 +
var time;
 +
var checked = false;
 +
var found = false;
 +
 +
function startStartScreen(){
 +
    document.getElementById('main').style.cursor = "block";
 +
    //document.getElementById('header').style.cursor = "block";
 +
    //document.getElementById('title').style.cursor = "block";
 +
    myStartScreen.start();
 +
    //console.log('startScreen');
 +
}
 +
 +
function startGame() {
 +
    document.getElementById('main').style.cursor = "none";
 +
    //document.getElementById('header').style.cursor = "none";
 +
    //document.getElementById('title').style.cursor = "none";
 +
    myGamePiece = new createMouse(10, 120);
 +
    myGameArea.start();
 +
    initialize();
 +
    //console.log('startGame');
 +
}
 +
 +
function initialize(){
 +
    for (var i = 0; i < cells_size; i++ ) {
 +
    var dirr = (Math.random() * 2 * Math.PI);
 +
    var posx = (Math.random() * (main.width - 60));
 +
    var posy = (Math.random() * (main.height - 53));
 +
    cells[i] = new createComponent(posx,posy,dirr,"cell");
 +
 +
    }
 +
    var dirr = (Math.random() * 2 * Math.PI);
 +
    var posx = (Math.random() * (main.width - 50));
 +
    var posy = (Math.random() * (main.height - 81));
 +
    tCruzi = new createComponent(posx,posy,dirr,"parasite");
 +
    time = new createComponent(30, 30, 0, "time");
 +
 +
}
 +
 +
 +
var myStartScreen = {
 +
    start : function(){
 +
        this.frameNo = 0;
 +
        this.interval = setInterval(updateStartScreen, 20);
 +
        window.addEventListener('mousemove', function(e){
 +
            myStartScreen.x = e.pageX;
 +
            myStartScreen.y = e.pageY-200;
 +
        })
 +
        myStartScreen.mouseClick = false
 +
        window.addEventListener('mousedown', function(e){
 +
            xleft = $("#main").offset().left; //getting the coordinates of the canvas
 +
            ytop = $("#main").offset().top;
 +
            xright = $("#main").offset().left + $("#main").outerWidth();
 +
            ybottom = $("#main").offset().top + $("#main").outerHeight();
 +
            //console.log(e.pageX);
 +
            //console.log(e.pageY);
 +
            if(e.pageX < xright){
 +
                if(e.pageX > xleft){
 +
                    if(e.pageY < ybottom){
 +
                        if(e.pageY > ytop){
 +
                            myStartScreen.mouseClick = true;
 +
                        }
 +
                    }
 +
                    //console.log("mouth inside detected");
 +
                }
 +
            }
 +
           
 +
        })
 +
        /*window.addEventListener('resize',function(e){
 +
            $("#main").outerHeight(($(window).height()-$("#main").offset().top- Math.abs($("#main").outerHeight(true) - $("#main").outerHeight()))*0.8);
 +
        })*/
 +
    },
 +
    clear : function() {
 +
        main.getContext("2d").clearRect(0, 0, main.width, main.height);
 +
    },
 +
    stop : function(){
 +
        clearInterval(this.interval);
 +
    }
 +
 +
}
 +
 +
var myGameArea = {
 +
    start : function() {
 +
        this.frameNo = 0;
 +
        this.interval = setInterval(updateGameArea, 20);
 +
        window.addEventListener('mousemove', function(e){
 +
            myGameArea.x = e.pageX;
 +
            myGameArea.y = e.pageY-200;
 +
        })
 +
        myGameArea.mouseSensor = false;
 +
        window.addEventListener('mousedown', function(e){
 +
            xleft = $("#main").offset().left; //getting the coordinates of the canvas
 +
            ytop = $("#main").offset().top;
 +
            xright = $("#main").offset().left + $("#main").outerWidth();
 +
            ybottom = $("#main").offset().top + $("#main").outerHeight();
 +
            console.log(xleft);
 +
            console.log(xright);
 +
            console.log(e.pageX);
 +
            console.log(ytop);
 +
            console.log(ybottom);
 +
            console.log(e.pageY);
 +
            if(e.pageX < xright){
 +
                if(e.pageX > xleft){
 +
                    if(e.pageY < ybottom){
 +
                        if(e.pageY > ytop){
 +
                            myGameArea.mouseSensor = true;
 +
                        }
 +
                    }
 +
                }
 +
            }
 +
           
 +
        })
 +
    },
 +
    clear : function() {
 +
        main.getContext("2d").clearRect(0, 0, main.width, main.height);
 +
    },
 +
    stop : function() {
 +
        clearInterval(this.interval);
 +
 +
    }
 +
}
 +
 +
function createMouse(x, y) {
 +
    this.x = x;
 +
    this.y = y; 
 +
 +
    this.update = function(){
 +
        main.style.display = "block";
 +
        ctx = main.getContext("2d");
 +
        var img = document.getElementById("magnify-glass");
 +
        ctx.drawImage(img, this.x-magnify_w/22-13, this.y-magnify_w/22+13, magnify_w/11, magnify_h/11);
 +
        ctx.save();
 +
        ctx.beginPath();
 +
        ctx.arc(this.x, this.y, peek_size, 0, 2 * Math.PI);
 +
        ctx.fillStyle = 'rgb(255, 237, 237)';
 +
        ctx.fill();
 +
        //ctx.lineWidth = 3;
 +
        ctx.strokeStyle = '#003300';
 +
        //ctx.stroke();
 +
        ctx.clip();
 +
        ctx.restore()
 +
    }
 +
 +
    this.updateFound = function(){
 +
        main.style.display = "block";
 +
        ctx = main.getContext("2d");
 +
        var img = document.getElementById("magnify-glass");
 +
        ctx.drawImage(img, this.x-magnify_w/22-13, this.y-magnify_w/22+13, magnify_w/11, magnify_h/11);
 +
        ctx.save();
 +
        ctx.beginPath();
 +
        ctx.arc(this.x, this.y, peek_size, 0, 2 * Math.PI);
 +
        ctx.fillStyle = "rgba(0,33,71,.5)";
 +
        ctx.fill();
 +
        //ctx.lineWidth = 3;
 +
        ctx.strokeStyle = '#003300';
 +
        ctx.font = "20px Calibri";
 +
        ctx.fillStyle = "#FFFFFF";
 +
        this.text1 = "              Yay!"
 +
        this.text2 = "      You've found"
 +
        this.text3 = " it in " + Math.round(myGameArea.frameNo*20/1000) + " seconds. In"
 +
        this.text4 = " practice, it takes 5-10"
 +
        this.text5 = "  minutes for a sample"
 +
        this.text6 = "  of blood under the"
 +
        this.text7 = "        microscope."
 +
        ctx.fillText(this.text1, this.x-80, this.y-80);
 +
        ctx.fillText(this.text2, this.x-80, this.y-60);
 +
        ctx.fillText(this.text3, this.x-80, this.y-40);
 +
        ctx.fillText(this.text4, this.x-90, this.y-20);
 +
        ctx.fillText(this.text5, this.x-100, this.y);
 +
        ctx.fillText(this.text6, this.x-90, this.y+20);
 +
        ctx.fillText(this.text7, this.x-80, this.y+40);
 +
        ctx.font = "15px Calibri";
 +
        ctx.fillStyle = "#FFFFFF";
 +
        this.text9 = "click for"
 +
        ctx.fillText(this.text9, this.x-20, this.y+60);
 +
 +
 +
        ctx.font = "35px Calibri";
 +
        ctx.fillStyle = "#1569d6";
 +
        this.text8 = "RESTART"
 +
        ctx.fillText(this.text8, this.x-58, this.y+90);
 +
 +
        //ctx.stroke();
 +
        //ctx.clip();
 +
        ctx.restore();
 +
        if (myGameArea.mouseSensor) {
 +
        checked = false;
 +
        found=false;
 +
        myGameArea.stop();
 +
        startStartScreen();
 +
        //console.log("mouse detected after found");
 +
    }
 +
 +
    }
 +
 +
    this.found = function(){
 +
        var distance_x = Math.abs(this.x - tCruzi.x - t_cruzi_w/8);
 +
        var distance_y = Math.abs(this.y - tCruzi.y - t_cruzi_h/8);
 +
        if ((distance_x*distance_x + distance_y*distance_y) < 100){
 +
            return true;
 +
        }
 +
        else {return false;}
 +
    }
 +
}
 +
 +
function createComponent(x, y, dir, type){
 +
    this.type = type;
 +
    this.x = x;
 +
    this.y = y;
 +
    this.dir = dir;
 +
    this.is_peeking = false;
 +
    this.dx = 0;
 +
    this.dy = 0;
 +
    this.distance = 0;
 +
    this.peek_calc = function(on_canvas){
 +
        if (on_canvas)
 +
        {
 +
            this.dx = myGameArea.x - this.x;
 +
            this.dy = myGameArea.y - this.y;
 +
            this.distance = Math.sqrt(this.dx*this.dx + this.dy*this.dy);
 +
            this.is_peeking = (this.distance < peek_size * 1.5)? true:false;
 +
        }
 +
        else
 +
        {
 +
            this.is_peeking = false;
 +
        }
 +
    }
 +
    this.draw_main = function(){
 +
            ctx = main.getContext("2d");
 +
            if(this.type == "cell"){
 +
               
 +
                var img = document.getElementById("red-blood-cell");
 +
                ctx.drawImage(img, this.x, this.y, rbc_w, rbc_h);
 +
        }
 +
            if(this.type == "parasite"){
 +
               
 +
                var img = document.getElementById("t-cruzi");
 +
                ctx.drawImage(img, this.x, this.y, t_cruzi_w/4, t_cruzi_h/4);
 +
            }
 +
            //if(this.type)
 +
    }
 +
 +
    this.draw_peek = function(){
 +
        if (this.is_peeking)
 +
        {
 +
            ctx = main.getContext("2d");
 +
            ctx.save();
 +
            ctx.beginPath();
 +
            ctx.arc(myGameArea.x, myGameArea.y, peek_size, 0, 2 * Math.PI);
 +
            ctx.clip();
 +
            if(this.type == "cell"){
 +
           
 +
                var img = document.getElementById("red-blood-cell");
 +
                ctx.drawImage(img, (this.x - this.dx * magnification), (this.y - this.dy * magnification), rbc_w * magnification * 1.5, rbc_h * magnification * 1.5);
 +
        }
 +
            if(this.type == "parasite"){
 +
             
 +
                var img = document.getElementById("t-cruzi");
 +
                ctx.drawImage(img, (this.x - this.dx * magnification), (this.y - this.dy * magnification), t_cruzi_w/4 * magnification * 1.5, t_cruzi_h/4 * magnification * 1.5);
 +
            }
 +
 +
            ctx.restore();
 +
        }
 +
    }
 +
 +
    this.move = function(){
 +
 +
        var newXDirection = 0.1*Math.cos(this.dir);
 +
        var newYDirection = 0.1*Math.sin(this.dir);
 +
        this.x += newXDirection;
 +
        this.y += newYDirection;
 +
 +
        var bottomline = main.height - rbc_h;
 +
        var rightline = main.width - rbc_w;
 +
        if(this.y > bottomline || this.x > rightline || this.y < 0 || this.x < 0){
 +
         
 +
            this.x -= newXDirection*2;
 +
            this.y -= newYDirection*2;
 +
 +
        }
 +
       
 +
    }
 +
 +
    this.updateTime = function(){
 +
        ctx.font = "30px Arial";
 +
        ctx.fillStyle = "#000000";
 +
        ctx.fillText(this.text, this.x, this.y);
 +
    }
 +
 +
}
 +
 +
function centerText(ctx, text, y) {
 +
    var measurement = ctx.measureText(text);
 +
    var x = (ctx.canvas.width - measurement.width) / 2;
 +
    ctx.fillText(text, x-50, y);
 +
}
 +
 +
var title = 'Finding      T. Cruzi';
 +
var hue = 0;
 +
var direction = 1;
 +
var ctx = main.getContext('2d');
 +
var wasButtonDown = false;
 +
 +
function updateStartScreen(){
 +
    hue += 1 * direction;
 +
    if (hue > 255) direction = -1;
 +
    if (hue < 78) direction = 1;
 +
 +
    var y = ctx.canvas.height / 2;
 +
    var color = 'rgb(7,38,' + hue + ')';
 +
 +
    myStartScreen.clear();
 +
 +
    var img = document.getElementById("start_screen_img");
 +
    ctx.drawImage(img, 0, 0, 800, 452);
 +
    //ctx.drawImage(img, 0, 0, main.height*start_screen_img.width/start_screen_img.height, main.height);
 +
    //console.log(main.width);
 +
    //console.log(main.height);
 +
    /*var screen_height = $("#main").outerHeight();
 +
    var screen_width = $("#main").outerWidth();
 +
    var screen_width_height_ratio = screen_width/screen_height;
 +
    var ssi_width_height_ratio = start_screen_img.width/start_screen_img.height;//ssi = start screen img
 +
    //console.log(ssi_width_height_ratio);//working correctly
 +
    //console.log(screen_width_height_ratio);//working correctly
 +
    //console.log(ssi_width_height_ratio);
 +
    if(screen_width_height_ratio>ssi_width_height_ratio){
 +
        var start_screen_x = (main.width - main.height*ssi_width_height_ratio)/2;
 +
        //console.log('start screen x is' + start_screen_x);
 +
        ctx.drawImage(img, start_screen_x, 0, main.height*1.78, main.height);
 +
        console.log(screen_height*ssi_width_height_ratio);
 +
        console.log(screen_height);
 +
    } else{
 +
    //if(screen_width_height_ratio<ssi_width_height_ratio){
 +
        //console.log("smaller");
 +
        /*var start_screen_y = (screen_height - screen_width/ssi_width_height_ratio)/2;
 +
        ctx.drawImage(img, 0, start_screen_y, screen_width, screen_width/ssi_width_height_ratio);
 +
        console.log(screen_width);
 +
        console.log(screen_width/ssi_width_height_ratio);
 +
       
 +
        ctx.drawImage(img, 0, 0, screen_width, screen_width/ssi_width_height_ratio);
 +
    }*/
 +
 +
    ctx.fillStyle = 'white';
 +
    ctx.font = '48px monospace';
 +
    //centerText(ctx, title, main.height*0.4);
 +
 +
    ctx.fillStyle = color;
 +
    ctx.font = '40px Helvetica';
 +
    //centerText(ctx, 'click to begin', main.height*0.9);
 +
 +
 +
    if (myStartScreen.mouseClick) {
 +
      // do something here to transition to the actual game
 +
      myStartScreen.stop();
 +
      startGame();
 +
      //console.log('startgamefromclick');
 +
     
 +
    }
 +
}
 +
 +
 +
function updateGameArea() {
 +
    var on_screen = false;
 +
    if (myGameArea.x){
 +
        if(myGameArea.y){
 +
        myGamePiece.x = myGameArea.x;
 +
        myGamePiece.y = myGameArea.y; 
 +
        on_screen = true;
 +
        }   
 +
    }
 +
 +
   
 +
    myGameArea.clear();
 +
    if(checked == false){
 +
        found = myGamePiece.found();
 +
        if(found) {
 +
            checked = true;
 +
            //console.log("checked = true")
 +
            //myGameArea.stop();
 +
        }
 +
    }
 +
 +
    if(!found){myGameArea.frameNo += 1;} //stop the timing when t cruzi is found
 +
 +
   
 +
 +
    myGamePiece.update();
 +
   
 +
    delay += 1;
 +
    if (delay >= 2) {
 +
        for (var i = 0; i < cells.length; i++) {
 +
            cells[i].dir += (Math.random() * Math.PI/5) - (Math.PI/10);
 +
            cells[i].move();
 +
            cells[i].peek_calc(on_screen);
 +
        }
 +
        tCruzi.dir += (Math.random() * Math.PI/5) - (Math.PI/10);
 +
        tCruzi.move();
 +
        tCruzi.peek_calc(on_screen);
 +
    }
 +
   
 +
    for (var i = 0; i < cells.length; i++ ) {
 +
        //console.log("cell" + i + "is updated");
 +
        cells[i].draw_main();
 +
       
 +
    }
 +
    //tCruzi.draw_main();
 +
   
 +
 +
 +
    myGamePiece.update();
 +
    //console.log(tCruzi.type);
 +
    for (var i = 0; i < cells.length; i++ ) {
 +
        //console.log("cell" + i + "is updated");
 +
        cells[i].draw_peek();
 +
       
 +
    }
 +
    tCruzi.draw_peek();
 +
 +
    time.text="time elapsed: " + Math.round(myGameArea.frameNo*20/1000) + " seconds";
 +
    time.updateTime();
 +
 +
 +
if (found)
 +
    {myGamePiece.updateFound();
 +
        //console.log("third update");
 +
    }
 +
}
 +
 +
</script>
 +
 
<p>The aim of our project was to develop a cell-free detection system for congenital Chagas disease in the acute phase by detecting the cruzipain in the blood.  
 
<p>The aim of our project was to develop a cell-free detection system for congenital Chagas disease in the acute phase by detecting the cruzipain in the blood.  
 
Congenital Chagas disease is a growing global concern and at present, the acute phase of Chagas disease is difficult to diagnose as it is asymptomatic and current diagnostics are both expensive and inaccessible to the majority of those affected. Our final diagnostic kit would allow Chagas disease to be detected by preventing the clotting of a blood sample. </p>
 
Congenital Chagas disease is a growing global concern and at present, the acute phase of Chagas disease is difficult to diagnose as it is asymptomatic and current diagnostics are both expensive and inaccessible to the majority of those affected. Our final diagnostic kit would allow Chagas disease to be detected by preventing the clotting of a blood sample. </p>

Revision as of 17:37, 15 December 2017

OXFORD iGEM 2017
See cruzi

Our Project


The aim of our project was to develop a cell-free detection system for congenital Chagas disease in the acute phase by detecting the cruzipain in the blood. Congenital Chagas disease is a growing global concern and at present, the acute phase of Chagas disease is difficult to diagnose as it is asymptomatic and current diagnostics are both expensive and inaccessible to the majority of those affected. Our final diagnostic kit would allow Chagas disease to be detected by preventing the clotting of a blood sample.

We imagine that this system would be adaptable for other parasites and pathogens which have similar difficulties in detection, both in the input for the system and the options for output.