No, it is there: $ cd /usr/local/bin [user at localhost bin]$ ls dssp vmd And I had made it executable with chmod a+x Thank you. -- View this message in context: http://gromacs.5086.x6.nabble.com/A-problem-with-do-dssp-command-tp5008049p5008055.html Sent from the GROMACS Users Forum mailing list archive at Nabble.com.