Thank you a lot, I only changed the couple-intramol setting (couple-intramol=yes) and now it´s running just fine. However I have a doubt about something. In the manual says the following when using couple-intramol=no
"In this manner the decoupled state of the molecule corresponds to the proper vacuum state without periodicity effects" I don´t understand the real effects and implications of this on my simulation. Does it mean that it is better to run with couple-intramol=no? I also read that using couple-intramol=yes has it's advantages: "This can be useful for partitioning free-energies of relatively large molecules, where the intra-molecular non-bonded interactions might lead to kinetically trapped vacuum conformations. Again, I don't understand what is the real meaning of that. Can you please make this clear for me? Thank you again, Sonia Aguilera Graduate Assistant Universidad de los Andes-Colombia -- View this message in context: http://gromacs.5086.n6.nabble.com/Error-There-is-no-domain-decomposition-for-6-nodes-that-is-compatible-tp5001648p5001707.html Sent from the GROMACS Users Forum mailing list archive at Nabble.com. -- 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
