WavePlayer integrates with WooCommerce using its action and filter hooks. So, as long as your theme is compliant with WooCommerce theme developing guidelines, you should not find any problem integrating WavePlayer with WooCommerce using your theme. For example, this website is based on the official Storefront theme, developed by the WooCommerce team and fully compliant with their developing guidelines, and the integration is absolutely seamless.
Some themes, though, use various forms of customization that might conflict with WavePlayer integration. For example, a CSS rule of the theme could prevent an element in the player to display correctly. If you are not familiar with coding, we would recommend you to contact us, sending an email to [email protected]. We will do our best to point you in the right direction in fixing your issues.