Twitter Bootstrap CSS conflicting with jQuery themeroller for dataTables

Hi I have a site styled with Twitter Bootstrap but I want to use either a default dataTables theme or a jQuery themeroller them. There seems to be conflicting CSS here as when I render my dataTable the input elements eg. The search and show number entries inputs look all big and chunky from the twitter CSS. Is there any way to stop this or is this just a side effect of using different theme files?

Thanks