Hi Mark, Thank you for the suggestion, that's what I needed to know!
Best, Ali Sinan Saglam On Fri, Aug 30, 2013 at 3:51 AM, Mark Abraham <mark.j.abra...@gmail.com>wrote: > >From memory, the Bussi thermostat does take its seed from ld-seed. You > can see this yourself by observing that mdrun -reprod with ld-seed set > to some value of your choice is reproducible by itself and different > from that of a different ld-seed. > > Mark > > On Thu, Aug 29, 2013 at 9:15 PM, Ali Sinan Saglam > <asinansag...@gmail.com> wrote: > > Hi, > > > > I was planning to use the velocity verlet ingetrator (md-vv) with > velocity > > rescaling thermostat (tcoupl = v-rescale). I know that velocity rescaling > > thermostat is a stochastic thermostat and uses a random seed and > generally > > with the stochastic thermostats one would use the sd integrator that uses > > ld-seed = -1 option for a random seed. > > > > I was just wondering if one uses the velocity verlet integrator with a > > stochastic thermostat does the ld-seed option work as it does with the sd > > (or bd) integrator? (the manual currently doesn't say anything about > this > > http://manual.gromacs.org/online/mdp_opt.html#run) > > > > Best, > > Ali Sinan Saglam > > -- > > gmx-users mailing list gmx-users@gromacs.org > > http://lists.gromacs.org/mailman/listinfo/gmx-users > > * Please search the archive at > http://www.gromacs.org/Support/Mailing_Lists/Search before posting! > > * Please don't post (un)subscribe requests to the list. Use the > > www interface or send it to gmx-users-requ...@gromacs.org. > > * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists > -- > gmx-users mailing list gmx-users@gromacs.org > http://lists.gromacs.org/mailman/listinfo/gmx-users > * Please search the archive at > http://www.gromacs.org/Support/Mailing_Lists/Search before posting! > * Please don't post (un)subscribe requests to the list. Use the > www interface or send it to gmx-users-requ...@gromacs.org. > * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists > -- gmx-users mailing list gmx-users@gromacs.org http://lists.gromacs.org/mailman/listinfo/gmx-users * Please search the archive at http://www.gromacs.org/Support/Mailing_Lists/Search before posting! * Please don't post (un)subscribe requests to the list. Use the www interface or send it to gmx-users-requ...@gromacs.org. * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists
