1GMX-DUMP(1)                         GROMACS                        GMX-DUMP(1)
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NAME

6       gmx-dump - Make binary files human readable
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SYNOPSIS

9          gmx dump [-s [<.tpr>]] [-f [<.xtc/.trr/...>]] [-e [<.edr>]]
10                   [-cp [<.cpt>]] [-p [<.top>]] [-mtx [<.mtx>]] [-om [<.mdp>]]
11                   [-[no]nr] [-[no]param] [-[no]sys] [-[no]orgir]
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DESCRIPTION

14       gmx  dump reads a run input file (.tpr), a trajectory (.trr/.xtc//tng),
15       an energy file (.edr) or a checkpoint file (.cpt) and  prints  that  to
16       standard  output  in  a readable format.  This program is essential for
17       checking your run input file in case of problems.
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19       The program can also preprocess a topology to  help  finding  problems.
20       Note  that currently setting GMXLIB is the only way to customize direc‐
21       tories used for searching include files.
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OPTIONS

24       Options to specify input files:
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26       -s [<.tpr>] (topol.tpr) (Optional)
27              Portable xdr run input file
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29       -f [<.xtc/.trr/…>] (traj.xtc) (Optional)
30              Trajectory: xtc trr cpt gro g96 pdb tng
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32       -e [<.edr>] (ener.edr) (Optional)
33              Energy file
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35       -cp [<.cpt>] (state.cpt) (Optional)
36              Checkpoint file
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38       -p [<.top>] (topol.top) (Optional)
39              Topology file
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41       -mtx [<.mtx>] (hessian.mtx) (Optional)
42              Hessian matrix
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44       Options to specify output files:
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46       -om [<.mdp>] (grompp.mdp) (Optional)
47              grompp input file with MD parameters
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49       Other options:
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51       -[no]nr (yes)
52              Show index numbers in output (leaving them out makes  comparison
53              easier, but creates a useless topology)
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55       -[no]param (no)
56              Show  parameters  for  each  bonded  interaction  (for comparing
57              dumps, it is useful to combine this with -nonr)
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59       -[no]sys (no)
60              List the atoms and bonded  interactions  for  the  whole  system
61              instead of for each molecule type
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63       -[no]orgir (no)
64              Show  input parameters from tpr as they were written by the ver‐
65              sion that produced the file, instead of how the current  version
66              reads them
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KNOWN ISSUES

69       · Position restraint output from -sys -s is broken
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SEE ALSO

72       gmx(1)
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74       More     information    about    GROMACS    is    available    at    <‐
75       http://www.gromacs.org/>.
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78       2019, GROMACS development team
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832019.4                           Oct 02, 2019                      GMX-DUMP(1)
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