<html><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; "><div><br></div>It was a good idea to ask! You might want to try the MARTINI forum at the cgmartini.nl web site, though.<div><br></div><div>In short the way you did it will probably fill up the box with more water or antifreeze particle than necessary ... </div><div><br></div><div>As an alternative you may want to simply replace 10% of the existing waters into antifreeze particles. You need to change the name in the gro files and adapt the topology accordingly. Then an equilibration will disperse the WF particle pretty fast.</div><div><br></div><div>XAvier.</div><div><br><div><div>On Dec 13, 2011, at 2:56 PM, mohammad agha wrote:</div><br class="Apple-interchange-newline"><blockquote type="cite"><div><div style="color:#000; background-color:#fff; font-family:verdana, helvetica, sans-serif;font-size:12pt"><div>Dear Prof. <br></div><div><br></div><div>I have a doubt about my way to add antifreeze water to my system, also I think my question looks silly but please help me for more certainty.</div><div>I changed "W" to "WF" in water.gro file of water that I downloaded from MARTINI site and named that antifreezewater.gro , and with below command added antifreeze water to my system:</div><div># genbox -cp -------.gro -cs antifreezewater.gro -o --------.gro -maxsol 1000</div><div>Already I had added water.gro to my system with the same command.</div><div>May I know that I am right or wrong and if I'm wrong please say me the right way?</div><div><br></div><div>Thanks</div><div>Best Regards</div><div>Sara<br></div><div> </div></div></div>-- <br>gmx-users mailing list <a href="mailto:gmx-users@gromacs.org">gmx-users@gromacs.org</a><br><a href="http://lists.gromacs.org/mailman/listinfo/gmx-users">http://lists.gromacs.org/mailman/listinfo/gmx-users</a><br>Please search the archive at http://www.gromacs.org/Support/Mailing_Lists/Search before posting!<br>Please don't post (un)subscribe requests to the list. Use the <br>www interface or send it to gmx-users-request@gromacs.org.<br>Can't post? Read http://www.gromacs.org/Support/Mailing_Lists</blockquote></div><br></div></body></html>