Are you sure you wrote all of your steps to your trajectory file? That
is, is the trajectory file really 1x10^6 frames long? For most systems
that would be a HUGE file. In particular, what value are you using for
nstxout? I think by default you will get a pdb file containing all of
the frames that are in the trajectory file you run trjconv on.<br>
<br>
David<br>
<br><br><div><span class="gmail_quote">On 12/20/05, <b class="gmail_sendername">Michael Bajomo</b> <<a href="mailto:bajomo@gmail.com">bajomo@gmail.com</a>> wrote:</span><blockquote class="gmail_quote" style="border-left: 1px solid rgb(204, 204, 204); margin: 0pt 0pt 0pt 0.8ex; padding-left: 1ex;">
<div>Hiy guys,</div>
<div> </div>
<div>When I used trjconv to convert a 2ns (1,000,000 steps) trajectory
file (.trj)of a protein in water into pdb format, the pdb file only
contains the first 12ps. Why is this? Does trjconv have a limit on the
filesize it will make or the number of steps it will consider? Thanks
for all your help.
</div>
<br>_______________________________________________<br>gmx-users mailing list<br><a onclick="return top.js.OpenExtLink(window,event,this)" href="mailto:gmx-users@gromacs.org">gmx-users@gromacs.org</a><br><a onclick="return top.js.OpenExtLink(window,event,this)" href="http://www.gromacs.org/mailman/listinfo/gmx-users" target="_blank">
http://www.gromacs.org/mailman/listinfo/gmx-users</a><br>Please don't post (un)subscribe requests to the list. Use the<br>www interface or send it to <a onclick="return top.js.OpenExtLink(window,event,this)" href="mailto:gmx-users-request@gromacs.org">
gmx-users-request@gromacs.org</a>.<br><br></blockquote></div><br>