lammps : Large-scale Atomic/Molecular Massively Parallel Simulator ( https://lammps.sandia.gov/ )
vsim : Vsim visualizes atomic structures such as crystals, grain boundaries, molecules and so on. ( https://gitlab.com/l_sim/v_sim )
Add an ebuild in portage :
The ebuild is now in the portage tree.
You can also use layman : emerge layman then layman -a touchfish-os
For Paludis use this rsync : rsync://gentoo.zugaina.org/touchfish-os-portage
If you have a problem : ycarus(-at-)zugaina.org