Alert handling in Selenium WebDriver (selenium 2) with Java

This is what worked for me using Explicit Wait from here WebDriver: Advanced Usage

public void checkAlert() {
    try {
        WebDriverWait wait = new WebDriverWait(driver, 2);
        wait.until(ExpectedConditions.alertIsPresent());
        Alert alert = driver.switchTo().alert();
        alert.accept();
    } catch (Exception e) {
        //exception handling
    }
}