Hi SeoDorje - What you are probably looking for is the robots meta tag. Use the tag in the head section of each the page you don't want indexed, with this syntax....
<meta name="robots" content="noindex">
This is the equivalent of...
<meta name="robots" content="noindex,follow">
...which is what you want, but as "follow" is the default attribute, it's not necessary to use it. In the above form, the robots tag will keep the page from appearing in the index, but will allow it to accumulate and transmit PageRank.
Note that for your purposes, "nofollow" should not be used... as "nofollow" would prevent PageRank from flowing naturally through your site.
The tag is not case sensitive. A good outside reference for the meta robots tag is... Using the robots meta tag Official Google Webmaster Central Blog http://googlewebmastercentral.blogspot.com/2007/03/using-robots-meta-tag.html
Something to note, btw... if your /fr and /en pages are in French and English, with sufficient text content in their respective languages to overcome the effects of your template boilerplate, they will not be considered duplicates.