<html><body><div style="color:#000; background-color:#fff; font-family:times new roman, new york, times, serif;font-size:12pt"><div>Dear All,</div><div> </div><div>Before and after extention we have 2 trajectorty files, and by trjcat we got we, then we can do the g_rms</div><div> </div><div>g_rms -s *.tpr -f *_noPBC.xtc -o rmsd.xvg -tu ns</div><div> </div><div>But here for the g_rms command I find no matter whether we use the *.tpr of the initiation of the production MD, or the *.tpr for the initiation of the extension part, the rmsd.xvg curves seems same.</div><div> </div><div>Will you please give some comment on it?</div><div> </div><div>Cheers,</div><div> </div><div>Acoot</div> </div></body></html>