You need to use the generateEmbededToken function. It calls the application Back End and returns the Embed Token.
The function would look something like this:
function embedReportAndSetTokenListener(setAccessToken = false, 
    reportId, 
    groupId, 
    datasetId, 
    accessLevel, 
    baseUri, 
    embedUrl) {
    // Generate embed token
    generateEmbedToken(reportId, groupId)
    .then(function( Token ) {
        var embedToken = Token.token;
        
        // set config for embedding report
        var config = createConfig(embedToken,embedUrl,reportId);
        
        // Get a reference to the embedded report HTML element
        var embedContainer = $('#embedContainer')[0];
        
        // Embed the report and display it within the div container.
        var report = powerbi.embed(embedContainer, config);
        
        // Report.off removes a given event handler if it exists.        
        report.off("loaded");
        // Report.on will add an event handler which prints to Log window.
        report.on("loaded", function() {
        // Set token expiration listener
        setTokenExpirationListener(Token.expiration,
        2 /*minutes before expiration*/, 
        reportId, 
        groupId);
        });
    });
}
function setTokenExpirationListener(tokenExpiration, 
    minutesToRefresh = 2, 
    reportId, 
    groupId){
    // get current time
    var currentTime = Date.now();
    var expiration = Date.parse(tokenExpiration);
    var safetyInterval = minutesToRefresh* 60 * 1000;
    // time until token refresh in milliseconds
    var timeout = expiration - currentTime - safetyInterval;
    // if token already expired, generate new token and set the access token
    if (timeout<=0)
    {
        console.log("Updating Report Embed Token");
        updateToken(reportId, groupId);
    }
    // set timeout so minutesToRefresh minutes before token expires, token will be updated
    else 
    {
        console.log("Report Embed Token will be updated in " + timeout + " milliseconds.");
        setTimeout(function() {
        updateToken(reportId, groupId);
        }, timeout);
    }
}
function updateToken(reportId, groupId) {
    // Generate new EmbedToken
    generateEmbedToken(reportId, groupId)
    .then(function( Token ) {
        // Get a reference to the embedded report HTML element
        var embedContainer = $('#embedContainer')[0];
        // Get a reference to the embedded report.
        var report = powerbi.get(embedContainer);
        // Set AccessToken
        report.setAccessToken(Token.token)
        .then(function() {
        // Set token expiration listener
        // result.expiration is in ISO format
        setTokenExpirationListener(Token.expiration,2 /*minutes before expiration*/);
        });
    });
}