Salaam Aleikum,<br>
<br>
In addition it is worth to note that the standard groups gromacs uses
include Protein and Non-Protein, which you can use for temperature
coupling without using an "external" index group.<br>
<br>
Tsjerk<br><br><div><span class="gmail_quote">On 12/27/05, <b class="gmail_sendername">Itamar Kass</b> <<a href="mailto:ikass@cc.huji.ac.il">ikass@cc.huji.ac.il</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;">
<br> Shalom,<br><br>You can use make_ndx. Using this you can create a new group from the<br>combination of other groups (e.g. "2 | 3" will combine groups 2 and<br>3). thane you can rename it and put it in your mdp file.
<br><br>Cheers.<br><br><br>On Dec 27, 2005, at 2:42 PM, hnam wrote:<br><br>><br>><br>> In the name of God<br>> I have three group in my system ,Protein ,Sol, Na+ ,how can i<br>> create these<br>> group at index file or how can i make proper index file for my system.
<br>><br>> Thank you very much in advance<br>> Institute of Biochemistry and Biophysics (IBB)<br>> Tehran University<br>> P.O.box 1417614411<br>> Tehran<br>> Iran<br>><br>><br>> _______________________________________________
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