On 29 janvier 2014 17:06, Scott Monsma [smon...@lucigen.com] wrote: > À : denovoassembler-users@lists.sourceforge.net > Objet : [Denovoassembler-users] mpi error? > > Hi, I’ve just built and tried the first run of Ray 2.3, and I seem to be > getting an mpi error near the end of the assembly run. Here’s the console > output, is there any other error log you’d need to see? At the bottom is my > mpiexec version. >
Hi, >From the information you provided, I can't see the error right away. However, I can tell that Open-MPI 1.5.4 is a bit old. The 1.5 series is retired. http://www.open-mpi.org/software/ompi/v1.6/ > Rank 0 freed 16777216 bytes from the path memory pool (chunks: 4) > Rank 1 freed 16777216 bytes from the path memory pool (chunks: 4) > Rank 6 freed 16777216 bytes from the path memory pool (chunks: 4) > Rank 2 freed 16777216 bytes from the path memory pool (chunks: 4) > Rank 3 freed 16777216 bytes from the path memory pool (chunks: 4) > Rank 4 freed 16777216 bytes from the path memory pool (chunks: 4) > Rank 5 freed 16777216 bytes from the path memory pool (chunks: 4) > [biolinux-Precision-WorkStation-T5500:6883] *** An error occurred in MPI_Isend > [biolinux-Precision-WorkStation-T5500:6883] *** on communicator MPI_COMM_WORLD > [biolinux-Precision-WorkStation-T5500:6883] *** MPI_ERR_RANK: invalid rank > [biolinux-Precision-WorkStation-T5500:6883] *** MPI_ERRORS_ARE_FATAL: your > MPI job will now abort > -------------------------------------------------------------------------- > mpiexec has exited due to process rank 1 with PID 6883 on > node biolinux-Precision-WorkStation-T5500 exiting improperly. There are two > reasons this could occur: > > 1. this process did not call "init" before exiting, but others in > the job did. This can cause a job to hang indefinitely while it waits > for all processes to call "init". By rule, if one process calls "init", > then ALL processes must call "init" prior to termination. > > 2. this process called "init", but exited without calling "finalize". > By rule, all processes that call "init" MUST call "finalize" prior to > exiting or it will be considered an "abnormal termination" > > This may have caused other processes in the application to be > terminated by signals sent by mpiexec (as reported here). > -------------------------------------------------------------------------- > [biolinux-Precision-WorkStation-T5500:06881] 6 more processes have sent help > message help-mpi-errors.txt / mpi_errors_are_fatal > [biolinux-Precision-WorkStation-T5500:06881] Set MCA parameter > "orte_base_help_aggregate" to 0 to see all help / error messages > > biolinux@biolinux-Precision-WorkStation-T5500[Ray-2.3.0] mpiexec > [ 3:08PM] > mpiexec (OpenRTE) 1.5.4 > > > > thanks! > -Scott > ------------------------------------------------------------------------------ WatchGuard Dimension instantly turns raw network data into actionable security intelligence. It gives you real-time visual feedback on key security issues and trends. Skip the complicated setup - simply import a virtual appliance and go from zero to informed in seconds. http://pubads.g.doubleclick.net/gampad/clk?id=123612991&iu=/4140/ostg.clktrk _______________________________________________ Denovoassembler-users mailing list Denovoassembler-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/denovoassembler-users
