Custom design for register_post_type and theyr

Good day,

I have registered custom post type (“register_post_type”) and in it i have “register_taxonomy” like category.

When user click in the menu on (“register_taxonomy”) category, he view only main loop, how can I make loop for this category?

My code:

<?php
add_action('init', 'custom_post_type_onody');

function custom_post_type_onody() {
	$custom_slug = get_option('slug') != '' ? get_option('slug') : 'work';

	$args = array(
		'labels'			=> array(
			'name'					=> __('Práca', 'simple-onody'),
			'singular_name' 		=> __('Pracovné ponuky', 'simple-onody'),
			'add_new'				=> __('Prida? ponuku', 'simple-onody'),
			'add_new_item'			=> __('Prida? ponuku', 'simple-onody'),
			'new_item'				=> __('Prida? ponuku', 'simple-onody'),
			'view_item'				=> __('Zobrazi? ponuku', 'simple-onody'),
			'search_items' 			=> __('Vyhlada? ponuku', 'simple-onody'),
			'edit_item' 			=> __('Upravi? ponuku', 'simple-onody'),
			'all_items'				=> __('V?etky ponuky', 'simple-onody'),
			'not_found'				=> __('?iadne ponuky sa nena?li', 'simple-onody'),
			'not_found_in_trash'	=> __('?iadne ponuky sa nena?li v ko?i', 'simple-onody')
		),
		'taxonomies'		=> array('custom-categories'),
		'public'			=> true,
		'show_ui'			=> true,
		'_builtin'			=> false,
		'_edit_link'		=> 'post.php?post=%d',
		'capability_type'	=> 'post',
		'rewrite'			=> array('slug' => __($custom_slug)),
		'hierarchical'		=> false,
		'menu_position'		=> 20,
		'supports'			=> array('title', 'editor', 'comments', 'thumbnail')
	);

	/** create categories (taxonomy) */
	register_taxonomy('custom-categories', 'project', array(
			'hierarchical'		=> true,
			'show_ui'			=> true,
			'rewrite'			=> array('slug' => __($custom_slug . '/stat')),
			'labels'			=> array(
					'name' 							=> __('?táty', 'simple-onody'),
					'singular_name'					=> __('Ponky v ?tátoch', 'simple-onody'),
					'search_items' 					=> __('H?ada? ponuku v ?tátoch', 'simple-onody'),
					'popular_items'					=> __('Ob?úbené ?táty', 'simple-onody'),
					'all_items'						=> __('V?etky ?táty', 'simple-onody'),
					'parent_item'					=> __('Nadradeny ?tát (nepovinné!)', 'simple-onody'),
					'parent_item_colon'				=> __('Nadradeny ?tát (nepovinné!)', 'simple-onody'),
					'edit_item'						=> __('Upravi? ?táty', 'simple-onody'),
					'update_item'					=> __('Prida? ?tát', 'simple-onody'),
					'add_new_item'					=> __('Prida? novy ?tát', 'simple-onody'),
					'new_item_name'					=> __('Novy ?tát', 'simple-onody'),
					'separate_items_with_commas'	=> __('Separate Categories with commas', 'simple-onody'),
					'add_or_remove_items' 			=> __('Prida? alebo Odstráni? ?tát', 'simple-onody'),
					'choose_from_most_used' 		=> __('Vyberte z najpo?ívanej?ích ?tátov', 'simple-onody')
		)
	));

	/** create new custom post type */
	register_post_type('work', $args);
}

I am sorry but my English is poor.