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when hacking a theme you have to make a new folder in the theme folder. (ie : mythem) you put all necessary files (html files, css files, images)
After this you have in the admin area (ADMIN/PREFERENCES) a dropdown box where you should select all themes you want to be shown.
put the 'Update module template .html files from themes/your theme/templates directory?' at 'yes'
At least you can show the 'templates' block on your main page in the blocks section.
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