[gmx-users] any chance to write avoid writing out trr but only xtc file ?

Jörn-Benjamin Lenz joern.lenz at screeningport.com
Tue Dec 1 16:30:31 CET 2009

dear users of gromacs,

i updated my gromacs from 4.0.1 to 4.0.5 and now i am facing the following problem:

using the older version of gromacs I submitted REMD jobs to our cluster (which also was updated from suse 10.3 to suse 11.1) and two differently formatted output files were generated: trr files and xtc files
since we always are short on disk space in our home folders i did the following:
the trr files were written to the a folder in my home directory on our fileserver whereas the xtc files were written to the local machine i was using. in order to save disk storage on our fileserver (i.e. in /home/joern/...) i deleted the trr files once as soon as they were produced and the job on our cluster was still happy and wrote the xtc files to my local machine and i was very happy with that behaviour.

using gromacs 4.0.5, again trr and xtc files are written. however, as soon as i delete the trr files the mdrun jobs die and the whole job finishes without keep on writing the xtc files as it did with the older version.

is there  a chance to say gromacs not to write out a trr file at all but only a xtc file. without using the mdrun -o command gromacs still writes out the standard trajX.trr files. or is this becuase of the update from suse 10.3 to suse 11.1 ?

any help and / or advice is much appreciated !
many thanks in advance,


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