It is useful to have the std LINUX gv program installed too, it shows ps graphics files. once you have a basic LINUX installation, I suggest: --make a bin directory cd ~ mkdir bin --put all downloaded executable program files (from wherever the landed, perhaps Downloads) to the bin directory: mv multiX* ~/bin mv plt_mult ~/bin mv cif_construct ~/bin mv mk_lig ~/bin ... cd ~/bin chmod a+x * --make it known to LINUX where your program files are, edit the ~/.bashrc file by adding this line: declare -x PATH=$PATH:$HOME/bin:. --further suggestion, create a projects directory where all your projects can be found in subdirectories cd ~ mkdir projects cd projects mkdir project_multiplet_test0 cd project_multiplet_test0 --> see basic workflow notes on how to do a calculation