The WP_Pagenavi FAQ links to the following article to explain how to use the Pagenavi plugin with a secondary query by passing the wp_pagenavi() function a query parameter.
From the tutorial:
$my_query = new WP_Query();
while ( $my_query->have_posts() ) : $my_query->the_post();
the_title();
// more stuff here
endwhile;
wp_pagenavi( array( 'query' => $my_query ) );
wp_reset_postdata(); // avoid errors further down the page
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