Hi [EMAIL PROTECTED], I have recently modified the routine as to not crash upon a shift over periodic boundaries, which would occur with the original code. Also, I streamlined the routines such that they don't lead to large modifications of update.c I will put the modified code on line, probably today, and provide the link to it. This concerns version 3.3.1. I'm working on making the implementation more robust, and if finished I'll short-circuit with David about adding the changes to the official code.
Cheers, Tsjerk On Wed, Mar 19, 2008 at 12:22 AM, <[EMAIL PROTECTED]> wrote: > Hi all, > > searching in the ml I found this thread: > http://www.gromacs.org/pipermail/gmx-users/2006-April/021256.html > about comm-mode=angular and the method described in > J. Chem. Phys. 112(1) pp. 9-23 to remove com translation and rotation. > > I was not able to download the modified versions of the code at > http://md.chem.rug.nl/~tsjerk/GMX/ where this method is implemented. > I was wondering if anyone has implemented it in some newer version of > gromacs as Tsjerk Wassenaar did for 3.2.1. > > I am reading the relevant paper about the method just now but Iwas not > able to find any additional examples of its use. > When it is better/necessary to use it than simply removing com > translation, given that I do not want to use comm-mode=angular with > pbc? > > thank in advance > _______________________________________________ > gmx-users mailing list [email protected] > http://www.gromacs.org/mailman/listinfo/gmx-users > Please search the archive at http://www.gromacs.org/search before posting! > Please don't post (un)subscribe requests to the list. Use the > www interface or send it to [EMAIL PROTECTED] > Can't post? Read http://www.gromacs.org/mailing_lists/users.php > -- Tsjerk A. Wassenaar, Ph.D. Junior UD (post-doc) Biomolecular NMR, Bijvoet Center Utrecht University Padualaan 8 3584 CH Utrecht The Netherlands P: +31-30-2539931 F: +31-30-2537623 _______________________________________________ gmx-users mailing list [email protected] http://www.gromacs.org/mailman/listinfo/gmx-users Please search the archive at http://www.gromacs.org/search before posting! Please don't post (un)subscribe requests to the list. Use the www interface or send it to [EMAIL PROTECTED] Can't post? Read http://www.gromacs.org/mailing_lists/users.php
