Thanks for you reply. I am doing simulation for ionic liquids BMIM + CL. Total number of atoms are 3328.
Nilesh > Assuming you're using LINCS, from the manual: > "With domain decomposition, the cell size is limited by the distance > spanned by *lincs-order*+1 constraints." > Assuming a default lincs-order (4), 0.82nm seems a fairly sane distance > for > 5 bonds. > > Which means that you're probably using too many nodes for the size of your > system. > > Hope that helps. If it doesn't you'll need to provide some information > about your system. > > -Trayder > > > > On Thu, Oct 17, 2013 at 1:27 PM, Nilesh Dhumal > <ndhu...@andrew.cmu.edu>wrote: > >> Hello, >> >> I am getting the following error for simulation. I am using Gromacs >> VERSION 4.5.5 and running on 24 processors. >> >> Should I reduce the number of processor or the problem is in bonded >> parameters. If I use -nt 1 option. I could run the simulation. >> >> Fatal error: >> There is no domain decomposition for 16 nodes that is compatible with >> the >> given box and a minimum cell size of 0.826223 nm >> Change the number of nodes or mdrun option -rdd or -dds >> Look in the log file for details on the domain decomposition >> >> >> Nilesh >> >> -- >> 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
