I know this is not a Drupal forum but this forum is quick at responding so I thought I should give it a shot.
Here's my problem. I'm trying to insert reference to the javascript file in the header by using drupal_add_js function. I placed this line inside template preprocess function of template.php. The result....is not working at all. There is no script link in output as it should be. Can anyone tell me what am I doing wrong?
Drupal Version - 6x

function phptemplate_preprocess_page(&$vars) {
    $url = drupal_get_path("theme","mysite");  
    drupal_add_js($url."/jquery.js");  
    drupal_add_js($url."/drupal.js");  

.....