Dear user, When I am using: genbox -cp confout.gro -cs water-1bar-303K.gro -vdwd 0.21 -o solvated.gro
to add water in a coarse grained system, after running mdrun I am getting "Syntax error" and it shows maybe the distances are so close or there are some clashes. Do you know how can I figure it out? Or actually if we have some clashes in system how we can correct them? Thanks, Dariush Mohammadyani Department of Structural Biology University of Pittsburgh School of Medicine Biomedical Science Tower 3 3501 Fifth Avenue Pittsburgh, PA 15261 USA
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