[gmx-users] Making a move using command gromacs/vmd

Justin Lemkul jalemkul at vt.edu
Mon May 29 21:14:34 CEST 2017

On 5/29/17 3:00 PM, Poncho Arvayo Zatarain wrote:
> Hello gromacs user: i want to make a movie using a gromacs command. I use this: gmx trjconv -s file.gro -f file.trr -pbc -o no jump -ndec 7 -o movie.gro. But it mrks me the following error: command line -o does not exist. So, i erase -o on "-o no jump" and marks me the error: invalid command: no jump. What is the command to obtain movie.gro? Thank you.

You're just scrambling syntax.  Anything separated by whitespace will be 
interpreted as a new argument.  So "-pbc nojump" is valid, but "-pbc -o no jump" 
is incorrect on two levels (sequential options with no arguments, invalid use of 
a command-line argument).



Justin A. Lemkul, Ph.D.
Ruth L. Kirschstein NRSA Postdoctoral Fellow

Department of Pharmaceutical Sciences
School of Pharmacy
Health Sciences Facility II, Room 629
University of Maryland, Baltimore
20 Penn St.
Baltimore, MD 21201

jalemkul at outerbanks.umaryland.edu | (410) 706-7441


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