[gmx-users] cutting the trajectory in small subtrajectories

[Kukol, Andreas]

Use -b and -e options repeatedly to save part of your trajectory into a series of files

OR: use '-skip 2' to reduce the number of frames by half over the whole of your simulation.

Andreas

From: gmx-users-bounces at gromacs.org [mailto:gmx-users-bounces at gromacs.org] On Behalf Of serdar durdagi
Sent: 13 May 2008 08:16
To: gmx-users at gromacs.org
Subject: [gmx-users] cutting the trajectory in small subtrajectories

Dear all,

I made a simulation with 2.5 ns (with 12500 frames), when I want to open this *.xtc file in VMD, it fails. it can read around 50% of frames and than complains low virtual memory (actually I am using a PC that has 1GB RAM).

Thus, I would like to cut my *.xtc file to small subtrajectory files. In gromacs manual, it says it is possible with trjconv option together with sub. But it's not clear how can I give a command let's say to divide my whole trajectory file to 5 subtrajectories.

Thank you very much in advance for your comments.


Serdar




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