Wordpress on same domain and url with other app

.htaccess_nette

<ifModule mod_gzip.c>
mod_gzip_on Yes
mod_gzip_dechunk Yes
mod_gzip_item_include file .(html?|txt|css|js|php|pl)$
mod_gzip_item_include handler ^cgi-script$
mod_gzip_item_include mime ^text/.*
mod_gzip_item_include mime ^application/x-javascript.*
mod_gzip_item_exclude mime ^image/.*
mod_gzip_item_exclude rspheader ^Content-Encoding:.*gzip.*
</ifModule>

# wordpress
# hp, clanky, rubrika, tagy
RewriteRule ^magazin                                wordpress/index.php [L]
RewriteRule ^magazin/                               wordpress/index.php [L]
RewriteRule ^clanky-o-hubnuti/(.*)                  wordpress/clanky-o-hubnuti/$1 [L]
RewriteRule ^clanek/(.*)														wordpress/clanek/$1 [L]
RewriteRule ^rubrika/(.*)														wordpress/rubrika/$1 [L]
RewriteRule ^stitek/(.*)                            wordpress/stitek/$1 [L]

# soubory
RewriteRule ^wp-content/(.*)                        wordpress/wp-content/$1 [L]

# admin
RewriteRule ^wp-login.php                           wordpress/wp-login.php [L]
RewriteRule ^wp-admin/(.*)                          wordpress/wp-admin/$1 [L]
RewriteRule ^wp-includes/(.*)                       wordpress/wp-includes/$1 [L]

# root soubory
RewriteRule ^wp-activate.php                        wordpress/wp-activate.php [L]
RewriteRule ^wp-blog-header.php                     wordpress/wp-blog-header.php [L]
RewriteRule ^wp-comments-post.php                   wordpress/wp-comments-post.php [L]
RewriteRule ^wp-config-sample.php                   wordpress/wp-config-sample.php [L]
RewriteRule ^wp-config-sample.php                   wordpress/wp-config-sample.php [L]
RewriteRule ^wp-cron.php                            wordpress/wp-cron.php [L]
RewriteRule ^wp-links-opml.php                      wordpress/wp-links-opml.php [L]
RewriteRule ^wp-load.php 														wordpress/wp-load.php [L]
RewriteRule ^wp-mail.php 														wordpress/wp-mail.php [L]
RewriteRule ^wp-settings.php                        wordpress/wp-settings.php [L]
RewriteRule ^wp-signup.php                          wordpress/wp-signup.php [L]
RewriteRule ^wp-trackback.php                       wordpress/wp-trackback.php [L]
RewriteRule ^xmlrpc.php                             wordpress/xmlrpc.php [L]

# www fix for nette framework
RewriteRule (.*) www/$1 [L]

.htaccess_wordpress

# BEGIN WordPress
<IfModule mod_rewrite.c>
RewriteEngine On
RewriteBase /
RewriteRule ^index\.php$ - [L]
RewriteCond %{REQUEST_FILENAME} !-f
RewriteCond %{REQUEST_FILENAME} !-d
RewriteRule . /wordpress/index.php [L]
</IfModule>
# END WordPress

functions.php

# disable wordpress homepage redirecting & custom page url with prefix

function wpse_184163_disable_canonical_front_page( $redirect ) {
    if ( is_page() && $front_page = get_option( 'page_on_front' ) ) {
        if ( is_page( $front_page ) )
            $redirect = false;
    }

    return $redirect;
}

add_filter( 'redirect_canonical', 'wpse_184163_disable_canonical_front_page' );

add_action( 'init', 'custom_page_rules' );
function custom_page_rules() {
	global $wp_rewrite;
  	// Change the value of the author permalink base to whatever you want here
	//$wp_rewrite->author_base = '';
	// Change the value of the page permalink base to whatever you want here
	$wp_rewrite->page_structure = 's/%pagename%';
	$wp_rewrite->flush_rules();
}

symlink.sh

# create virtual directory in domain.com/wordpress

ln -s /var/www/html/domain.com/wordpress /var/www/html/magazine.site.com

# instructions
echo "now setup wordpress for url domain.com"