Pagination in a custom query

template-gallery.php

<?php
/**
 * Template Name: Galleries
 *
 * @package      BE_Gallery
 * @since        1.0.0
 * @link         https://github.com/billerickson/BE-Gallery
 * @author       Bill Erickson <bill@billerickson.net>
 * @copyright    Copyright (c) 2011, Bill Erickson
 * @license      http://opensource.org/licenses/gpl-2.0.php GNU Public License
 *
 */
 
// Remove the standard pagination, so we don't get two sets
remove_action( 'genesis_after_endwhile', 'genesis_posts_nav' );

/**
 * Galleries Loop
 * Custom paginated loop
 */
function be_galleries_loop() {
	$args = array(
		'posts_per_page' => 6,
		'post_type' => 'post',
		'paged' => get_query_var( 'paged' ),
	);
	
	global $wp_query;
	$wp_query = new WP_Query( $args );
	if( $wp_query->have_posts() ): 
		while( $wp_query->have_posts() ): $wp_query->the_post(); global $post;
			$classes = 'one-third';
			if( 0 == $wp_query->current_post || 0 == $wp_query->current_post % 3 )
				$classes .= ' first';
			echo '<div class="'.  $classes . '"><h2><a href="' . get_permalink() . '">' . get_the_title() . '<br />' . get_the_post_thumbnail( $post->ID, 'be_archive' ) . '</a></h2></div>';		
		endwhile;
		genesis_posts_nav();
	endif;
	wp_reset_query();
}
add_action( 'genesis_after_entry', 'be_galleries_loop' );

genesis();