Re: [gmx-users] g_rdf -[no]com

2008-01-11 Thread Vasilii Artyukhov
Ok, thanks! 2008/1/11, Berk Hess <[EMAIL PROTECTED]>: > > > > > > > Date: Fri, 11 Jan 2008 15:58:23 +0100 > > From: [EMAIL PROTECTED] > > To: gmx-users@gromacs.org > > Subject: Re: [gmx-users] g_rdf -[no]com > >

RE: [gmx-users] g_rdf -[no]com

2008-01-11 Thread Berk Hess
> Date: Fri, 11 Jan 2008 15:58:23 +0100 > From: [EMAIL PROTECTED] > To: gmx-users@gromacs.org > Subject: Re: [gmx-users] g_rdf -[no]com > > Oh yes, the -rdf option! And the run input file! That makes me feel kinda > stupid... Thank you

Re: [gmx-users] g_rdf -[no]com

2008-01-11 Thread Vasilii Artyukhov
Oh yes, the -rdf option! And the run input file! That makes me feel kinda stupid... Thank you very much & sorry for the dumb questions. But still, having read the help again, I don't quite get the logic behind g_rdf -com -rdf atom -n -s giving me an all-zero output for the RDF between the COM of t

Re: [gmx-users] g_rdf -[no]com

2008-01-11 Thread David van der Spoel
Vasilii Artyukhov wrote: Hi everybody, I'm dealing with aqueous solutions of some small molecules. Just to clarify: 1) When I type g_rdf, is the -com option on by default? g_rdf -h makes me suspect it is... read again. 2) When I type g_rdf -nocom, what point of the molecule does the resulti

[gmx-users] g_rdf -[no]com

2008-01-11 Thread Vasilii Artyukhov
Hi everybody, I'm dealing with aqueous solutions of some small molecules. Just to clarify: 1) When I type g_rdf, is the -com option on by default? g_rdf -h makes me suspect it is... 2) When I type g_rdf -nocom, what point of the molecule does the resulting RDF correspond to? 3) g_rdf -h says that