Hi Guys, I have done the simulation. The total steps is 5000000. At around 900000 steps, the error information appear like the followings.
Please give me some suggestions to fix it. Best wishes, Desheng ------------------------------------------------------ Program mdrun, VERSION 4.5.5 Source code file: domdec.c, line: 3266 Software inconsistency error: Inconsistent DD boundary staggering limits! For more information and tips for troubleshooting, please check the GROMACS website at http://www.gromacs.org/Documentation/Errors ------------------------------------------------------- "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) ------------------------------------------------------- Program mdrun, VERSION 4.5.5 Source code file: domdec.c, line: 3266 Software inconsistency error: Inconsistent DD boundary staggering limits! For more information and tips for troubleshooting, please check the GROMACS website at http://www.gromacs.org/Documentation/Errors ------------------------------------------------------- "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) Error on node 102, will try to stop all the nodes Halting parallel program mdrun on CPU 102 out of 120 Error on node 105, will try to stop all the nodes Halting parallel program mdrun on CPU 105 out of 120 Error on node 51, will try to stop all the nodes Halting parallel program mdrun on CPU 51 out of 120 ------------------------------------------------------- Program mdrun, VERSION 4.5.5 Source code file: domdec.c, line: 3266 Software inconsistency error: Inconsistent DD boundary staggering limits! For more information and tips for troubleshooting, please check the GROMACS website at http://www.gromacs.org/Documentation/Errors ------------------------------------------------------- "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) Error on node 81, will try to stop all the nodes Halting parallel program mdrun on CPU 81 out of 120 ------------------------------------------------------- Program mdrun, VERSION 4.5.5 Source code file: domdec.c, line: 3266 Software inconsistency error: Inconsistent DD boundary staggering limits! For more information and tips for troubleshooting, please check the GROMACS website at http://www.gromacs.org/Documentation/Errors ------------------------------------------------------- "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) Error on node 63, will try to stop all the nodes Halting parallel program mdrun on CPU 63 out of 120 ------------------------------------------------------- Program mdrun, VERSION 4.5.5 Source code file: domdec.c, line: 3266 Software inconsistency error: Inconsistent DD boundary staggering limits! For more information and tips for troubleshooting, please check the GROMACS website at http://www.gromacs.org/Documentation/Errors ------------------------------------------------------- "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) Error on node 33, will try to stop all the nodes Halting parallel program mdrun on CPU 33 out of 120 ------------------------------------------------------- Program mdrun, VERSION 4.5.5 Source code file: domdec.c, line: 3266 Software inconsistency error: Inconsistent DD boundary staggering limits! For more information and tips for troubleshooting, please check the GROMACS website at http://www.gromacs.org/Documentation/Errors ------------------------------------------------------- "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) ------------------------------------------------------- Program mdrun, VERSION 4.5.5 Source code file: domdec.c, line: 3266 Software inconsistency error: Inconsistent DD boundary staggering limits! For more information and tips for troubleshooting, please check the GROMACS website at http://www.gromacs.org/Documentation/Errors ------------------------------------------------------- "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) Error on node 54, will try to stop all the nodes Halting parallel program mdrun on CPU 54 out of 120 Error on node 24, will try to stop all the nodes Halting parallel program mdrun on CPU 24 out of 120 ------------------------------------------------------- Program mdrun, VERSION 4.5.5 Source code file: domdec.c, line: 3266 Software inconsistency error: Inconsistent DD boundary staggering limits! For more information and tips for troubleshooting, please check the GROMACS website at http://www.gromacs.org/Documentation/Errors ------------------------------------------------------- "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) Error on node 84, will try to stop all the nodes Halting parallel program mdrun on CPU 84 out of 120 gcq#359: "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) gcq#359: "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) application called MPI_Abort(MPI_COMM_WORLD, -1) - process 42 ------------------------------------------------------- Program mdrun, VERSION 4.5.5 Source code file: domdec.c, line: 3266 Software inconsistency error: Inconsistent DD boundary staggering limits! For more information and tips for troubleshooting, please check the GROMACS website at http://www.gromacs.org/Documentation/Errors ------------------------------------------------------- "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) Error on node 36, will try to stop all the nodes application called MPI_Abort(MPI_COMM_WORLD, -1) - process 21 Halting parallel program mdrun on CPU 36 out of 120 gcq#359: "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) application called MPI_Abort(MPI_COMM_WORLD, -1) - process 114 gcq#359: "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) application called MPI_Abort(MPI_COMM_WORLD, -1) - process 66 gcq#359: "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) ------------------------------------------------------- ------------------------------------------------------- "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) application called MPI_Abort(MPI_COMM_WORLD, -1) - process 45 gcq#359: "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) Error on node 39, will try to stop all the nodes application called MPI_Abort(MPI_COMM_WORLD, -1) - process 18 gcq#359: "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) Halting parallel program mdrun on CPU 39 out of 120 application called MPI_Abort(MPI_COMM_WORLD, -1) - process 93 gcq#359: "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) application called MPI_Abort(MPI_COMM_WORLD, -1) - process 117 gcq#359: "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) application called MPI_Abort(MPI_COMM_WORLD, -1) - process 69 gcq#359: "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) application called MPI_Abort(MPI_COMM_WORLD, -1) - process 90 gcq#359: "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) application called MPI_Abort(MPI_COMM_WORLD, -1) - process 75 gcq#359: "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) application called MPI_Abort(MPI_COMM_WORLD, -1) - process 108 gcq#359: "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) gcq#359: "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) application called MPI_Abort(MPI_COMM_WORLD, -1) - process 30 application called MPI_Abort(MPI_COMM_WORLD, -1) - process 72 gcq#359: "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) application called MPI_Abort(MPI_COMM_WORLD, -1) - process 15 gcq#359: "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) application called MPI_Abort(MPI_COMM_WORLD, -1) - process 99 gcq#359: "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) gcq#359: "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) application called MPI_Abort(MPI_COMM_WORLD, -1) - process 87 application called MPI_Abort(MPI_COMM_WORLD, -1) - process 78 gcq#359: "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) gcq#359: "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) application called MPI_Abort(MPI_COMM_WORLD, -1) - process 57 application called MPI_Abort(MPI_COMM_WORLD, -1) - process 96 gcq#359: "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) gcq#359: "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) gcq#359: "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) application called MPI_Abort(MPI_COMM_WORLD, -1) - process 27 application called MPI_Abort(MPI_COMM_WORLD, -1) - process 48 application called MPI_Abort(MPI_COMM_WORLD, -1) - process 60 gcq#359: "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) application called MPI_Abort(MPI_COMM_WORLD, -1) - process 81 gcq#359: "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) gcq#359: "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) gcq#359: "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) application called MPI_Abort(MPI_COMM_WORLD, -1) - process 24 application called MPI_Abort(MPI_COMM_WORLD, -1) - process 102 application called MPI_Abort(MPI_COMM_WORLD, -1) - process 33 gcq#359: "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) gcq#359: "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) gcq#359: "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) application called MPI_Abort(MPI_COMM_WORLD, -1) - process 51 application called MPI_Abort(MPI_COMM_WORLD, -1) - process 36 application called MPI_Abort(MPI_COMM_WORLD, -1) - process 84 gcq#359: "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) application called MPI_Abort(MPI_COMM_WORLD, -1) - process 54 gcq#359: "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) application called MPI_Abort(MPI_COMM_WORLD, -1) - process 39 gcq#359: "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) application called MPI_Abort(MPI_COMM_WORLD, -1) - process 9 gcq#359: "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) application called MPI_Abort(MPI_COMM_WORLD, -1) - process 12 gcq#359: "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) application called MPI_Abort(MPI_COMM_WORLD, -1) - process 105 gcq#359: "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) application called MPI_Abort(MPI_COMM_WORLD, -1) - process 111 gcq#359: "If it weren't for bad luck, we'd have no luck at all" (The Unthanks) application called MPI_Abort(MPI_COMM_WORLD, -1) - process 63 srun: error: cu08n87: tasks 0,3,6: Exited with exit code 255 srun: error: cu08n124: tasks 18,21: Exited with exit code 255 srun: error: cu09n191: tasks 66,69: Exited with exit code 255 srun: error: cu11n188: tasks 114,117: Exited with exit code 255 srun: error: cu11n185: tasks 90,93: Exited with exit code 255 srun: error: cu09n141: tasks 42,45: Exited with exit code 255 srun: error: cu09n192: tasks 72,75,78: Exited with exit code 255 srun: error: cu11n187: tasks 105,108,111: Exited with exit code 255 srun: error: cu11n186: tasks 96,99,102: Exited with exit code 255 srun: error: cu08n125: tasks 24,27,30: Exited with exit code 255 srun: error: cu08n110: tasks 9,12,15: Exited with exit code 255 srun: error: cu08n126: tasks 33,36,39: Exited with exit code 255 srun: error: cu09n142: tasks 48,51,54: Exited with exit code 255 srun: error: cu11n184: tasks 81,84,87: Exited with exit code 255 srun: error: cu09n164: tasks 57,60,63: Exited with exit code 255 10946,1 -- 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! 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