I always have to disable my .htaccess to be able to see my stats page located unrder my domain in /stats . What can I do to tell htaccess to ignore routing /stats?
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You need to set the directory index in the .htaccess file. The first option is to add the directory index to the main .htaccess file and the second would be to create a new .htaccess file for just that specific subfolder.
This sets priorty to 1st PHP, 2nd HTML, 3rd HTM:
DirectoryIndex index.php index.html index.htm
Alternatively the default document can also be set using Apache directories, which is personally my prefered way of doing things. I don't care for .htaccess files.