How to create categories within a Wordpress custom post type
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I've created a custom post type, called Store, and using the taxonomies $args have enabled the ability to create categories within that custom post type (Products, Teleseminars, Remedies & Kits). Here is the code I used in my functions.php:

    function store_custom_init() {
     
        $labels = array(
            'name' => _x('Store', 'post type general name'),
            'singular_name' => _x('Store', 'post type singular name'),
            'add_new' => _x('Add New', 'store'),
            'add_new_item' => __('Add New Store Item'),
            'edit_item' => __('Edit Item'),
            'new_item' => __('New Store Item'),
            'view_item' => __('View Store Item'),
            'search_items' => __('Search Store'),
            'not_found' =>  __('Nothing found'),
            'not_found_in_trash' => __('Nothing found in Trash'),
            'parent_item_colon' => ''
        );
     
        $args = array(
            'labels' => $labels,
            'public' => true,
            'publicly_queryable' => true,
            'show_ui' => true,
    		'show_in_menu' => true,
            'query_var' => true,
            'rewrite' => array('slug','pages'),
            'capability_type' => 'post',
            'hierarchical' => true,
    		'taxonomies' => array('category'),
            'menu_position' => 5,
            'supports' => array('title','editor','thumbnail','excerpt',)
          );
     
        register_post_type( 'store' , $args );
    }
    add_action( 'init', 'store_custom_init' );

It all works fine from the back end. I created the store categories and created test items in each one. When I add the Store categories to my menu, the links end up looking like this:

http://s13.mynewsitereview.com/category/products/

but the url to the actual test product I created is:

http://s13.mynewsitereview.com/store/cell-salts-the-easy-homeopathy

When I go to the Products tab link (/category/products/) nothing shows up.

Now if I go to http://s13.mynewsitereview.com/store/ all 3 of my test store items show up fine.

My questions are these:

a. Why are the links to my CPT categories showing as /category/category-name instead of /store/category-name; and

b. Why aren't the items showing on the CTP category pages?

Many thanks,

Cynthia