These ebuilds come from http://overlays.gentoo.org/dev/je_fro.
If you have some problems, go to the official site first.
namd : A powerful and highly parallelized molecular dynamics code ( http://www.ks.uiuc.edu/Research/namd/ )
Add an ebuild in portage :
The ebuild is now in the portage tree.
You can also use layman : emerge layman then layman -a zugaina
For Paludis use this rsync : rsync://gentoo.zugaina.org/zugaina-portage
If you have a problem : ycarus(-at-)zugaina.org