WordPress installed in a sub root-directory folder

Hello,
I do this several times: installing wordpress in a sub folder in the root directory. Then, when the site is ready, I put it online using the method described as “Using a pre-existing subdirectory install” in the wordpress Codex (http://codex.wordpress.org/Giving_WordPress_Its_Own_Directory).

This is my first time with woocommerce plugin.
I’m using woocommerce with the musica theme (http://goo.gl/psTVa).

I´wonder if installing and running wordpress this way, could cause some problems or issues with the bank account info charged in the woocommerce plugin, or may affect the woocommerce plugin performance.

Thanks a lot!