Error in Supercomputering
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Ning Wang
May 11, 2023, 11:21:05 AM5/11/23
to basilisk-fr
Dear everyone,
there is an error when Supercomputering:
/home/wn/basilisk/src/common.h: In function 'mpi_init':
/home/wn/basilisk/src/common.h:777:7: warning: implicit declaration of function 'setenv' [-Wimplicit-function-declaration]
/home/wn/basilisk/src/common.h: In function 'qpopen':
/home/wn/basilisk/src/common.h:1283:3: warning: implicit declaration of function 'popen' [-Wimplicit-function-declaration]
/home/wn/basilisk/src/common.h:1283:15: warning: integer assigned to pointer during initialization, no type conversion [enabled by default]
/home/wn/basilisk/src/common.h: In function 'qpclose':
/home/wn/basilisk/src/common.h:1305:3: warning: implicit declaration of function 'pclose' [-Wimplicit-function-declaration]
/home/wn/basilisk/src/common.h: In function 'display':
/home/wn/basilisk/src/common.h:1438:7: warning: implicit declaration of function 'strdup' [-Wimplicit-function-declaration]
/home/wn/basilisk/src/common.h:1438:24: warning: assignment of integer to pointer without type conversion [enabled by default]
/home/wn/basilisk/src/grid/stencils.h: In function 'end_stencil':
/home/wn/basilisk/src/grid/stencils.h:264:13: warning: assignment of integer to pointer without type conversion [enabled by default]
/home/wn/basilisk/src/grid/stencils.h:296:37: warning: integer assigned to pointer in assignment, no type conversion [enabled by default]
/home/wn/basilisk/src/grid/fpe.h: In function 'catch_fpe':
/home/wn/basilisk/src/grid/fpe.h:41:20: error: unknown storage size for 'act'
/home/wn/basilisk/src/grid/fpe.h:43:3: warning: implicit declaration of function 'sigemptyset' [-Wimplicit-function-declaration]
/home/wn/basilisk/src/grid/fpe.h:46:3: warning: implicit declaration of function 'sigaction' [-Wimplicit-function-declaration]
/home/wn/basilisk/src/grid/fpe.h:50:18: error: 'SA_RESETHAND' undeclared (first use inside this function)
/home/wn/basilisk/src/grid/fpe.h:50:18: Note: each undeclared identifier is reported only once within the function in which it occurs
/home/wn/basilisk/src/grid/fpe.h:41:20: warning: unused variable 'act' [-Wunused-variable]
/home/wn/basilisk/src/grid/cartesian-common.h: In function 'cartesian_init_scalar':
/home/wn/basilisk/src/grid/cartesian-common.h:481:11: warning: integer assigned to pointer in assignment, no type conversion [enabled by default]
/home/wn/basilisk/src/grid/cartesian-common.h: In function 'replace_':
/home/wn/basilisk/src/common.h:365:36: warning: integer assigned to pointer during initialization, no type conversion [enabled by default]
/home/wn/basilisk/src/grid/cartesian-common.h:647:17: Note: in expansion of macro ‘psrdup’
/home/wn/basilisk/src/grid/tree-mpi.h: In function 'rcv_pid_new':
/home/wn/basilisk/src/grid/tree-mpi.h:82:11: warning: assignment assigning integer to pointer without type conversion [enabled by default]
/home/wn/basilisk/src/output.h: In function 'open_image':
/home/wn/basilisk/src/output.h:455:50: warning: assignment of integer to pointer without type conversion [enabled by default]
/home/wn/basilisk/src/output.h: In function 'replace':
/home/wn/basilisk/src/output.h:826:7: warning: integer assigned to pointer on return, no cast [enabled by default]
/home/wn/basilisk/src/output.h:828:7: warning: integer assigned to pointer on return, no cast [enabled by default]
/home/wn/basilisk/src/output.h:830:7: warning: integer assigned to pointer on return, no cast [enabled by default]
/home/wn/basilisk/src/common.h:365:36: warning: integer assigned to pointer during initialization, no type conversion [enabled by default]
/home/wn/basilisk/src/output.h:832:17: Note: in expansion of macro ‘psrdup’
/home/wn/basilisk/src/output.h: In function 'restore':
/home/wn/basilisk/src/output.h:1309:27: warning: assignment of integer to pointer without type conversion [enabled by default]
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][child_handler] MPI process (rank: 1, pid: 131386) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 0, pid: 131385) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 2, pid: 131387) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 3, pid: 131388) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 4, pid: 131389) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 5, pid: 131390) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 6, pid: 131391) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 7, pid: 131392) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 8, pid: 131393) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 9, pid: 131394) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 10, pid: 131395) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 11, pid: 131396) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 12, pid: 131397) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 13, pid: 131398) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 14, pid: 131399) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 15, pid: 131400) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 16, pid: 131401) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 17, pid: 131402) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 18, pid: 131403) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 19, pid: 131404) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 20, pid: 131405) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 21, pid: 131406) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 22, pid: 131407) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 23, pid: 131408) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 24, pid: 131409) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 25, pid: 131410) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 26, pid: 131411) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 27, pid: 131412) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 28, pid: 131413) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 29, pid: 131414) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 30, pid: 131415) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 31, pid: 131416) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 32, pid: 131417) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 33, pid: 131418) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 34, pid: 131419) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 35, pid: 131420) exited with status 1
/home/wn/basilisk/src/common.h:777:7: warning: implicit declaration of function 'setenv' [-Wimplicit-function-declaration]
/home/wn/basilisk/src/common.h: In function 'qpopen':
/home/wn/basilisk/src/common.h:1283:3: warning: implicit declaration of function 'popen' [-Wimplicit-function-declaration]
/home/wn/basilisk/src/common.h:1283:15: warning: integer assigned to pointer during initialization, no type conversion [enabled by default]
/home/wn/basilisk/src/common.h: In function 'qpclose':
/home/wn/basilisk/src/common.h:1305:3: warning: implicit declaration of function 'pclose' [-Wimplicit-function-declaration]
/home/wn/basilisk/src/common.h: In function 'display':
/home/wn/basilisk/src/common.h:1438:7: warning: implicit declaration of function 'strdup' [-Wimplicit-function-declaration]
/home/wn/basilisk/src/common.h:1438:24: warning: assignment of integer to pointer without type conversion [enabled by default]
/home/wn/basilisk/src/grid/stencils.h: In function 'end_stencil':
/home/wn/basilisk/src/grid/stencils.h:264:13: warning: assignment of integer to pointer without type conversion [enabled by default]
/home/wn/basilisk/src/grid/stencils.h:296:37: warning: integer assigned to pointer in assignment, no type conversion [enabled by default]
/home/wn/basilisk/src/grid/fpe.h: In function 'catch_fpe':
/home/wn/basilisk/src/grid/fpe.h:41:20: error: unknown storage size for 'act'
/home/wn/basilisk/src/grid/fpe.h:43:3: warning: implicit declaration of function 'sigemptyset' [-Wimplicit-function-declaration]
/home/wn/basilisk/src/grid/fpe.h:46:3: warning: implicit declaration of function 'sigaction' [-Wimplicit-function-declaration]
/home/wn/basilisk/src/grid/fpe.h:50:18: error: 'SA_RESETHAND' undeclared (first use inside this function)
/home/wn/basilisk/src/grid/fpe.h:50:18: Note: each undeclared identifier is reported only once within the function in which it occurs
/home/wn/basilisk/src/grid/fpe.h:41:20: warning: unused variable 'act' [-Wunused-variable]
/home/wn/basilisk/src/grid/cartesian-common.h: In function 'cartesian_init_scalar':
/home/wn/basilisk/src/grid/cartesian-common.h:481:11: warning: integer assigned to pointer in assignment, no type conversion [enabled by default]
/home/wn/basilisk/src/grid/cartesian-common.h: In function 'replace_':
/home/wn/basilisk/src/common.h:365:36: warning: integer assigned to pointer during initialization, no type conversion [enabled by default]
/home/wn/basilisk/src/grid/cartesian-common.h:647:17: Note: in expansion of macro ‘psrdup’
/home/wn/basilisk/src/grid/tree-mpi.h: In function 'rcv_pid_new':
/home/wn/basilisk/src/grid/tree-mpi.h:82:11: warning: assignment assigning integer to pointer without type conversion [enabled by default]
/home/wn/basilisk/src/output.h: In function 'open_image':
/home/wn/basilisk/src/output.h:455:50: warning: assignment of integer to pointer without type conversion [enabled by default]
/home/wn/basilisk/src/output.h: In function 'replace':
/home/wn/basilisk/src/output.h:826:7: warning: integer assigned to pointer on return, no cast [enabled by default]
/home/wn/basilisk/src/output.h:828:7: warning: integer assigned to pointer on return, no cast [enabled by default]
/home/wn/basilisk/src/output.h:830:7: warning: integer assigned to pointer on return, no cast [enabled by default]
/home/wn/basilisk/src/common.h:365:36: warning: integer assigned to pointer during initialization, no type conversion [enabled by default]
/home/wn/basilisk/src/output.h:832:17: Note: in expansion of macro ‘psrdup’
/home/wn/basilisk/src/output.h: In function 'restore':
/home/wn/basilisk/src/output.h:1309:27: warning: assignment of integer to pointer without type conversion [enabled by default]
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][spawn_processes] Failed to execvp() 'bump': No such file or directory (2)
[cu80:mpispawn_0][child_handler] MPI process (rank: 1, pid: 131386) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 0, pid: 131385) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 2, pid: 131387) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 3, pid: 131388) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 4, pid: 131389) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 5, pid: 131390) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 6, pid: 131391) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 7, pid: 131392) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 8, pid: 131393) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 9, pid: 131394) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 10, pid: 131395) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 11, pid: 131396) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 12, pid: 131397) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 13, pid: 131398) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 14, pid: 131399) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 15, pid: 131400) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 16, pid: 131401) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 17, pid: 131402) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 18, pid: 131403) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 19, pid: 131404) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 20, pid: 131405) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 21, pid: 131406) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 22, pid: 131407) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 23, pid: 131408) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 24, pid: 131409) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 25, pid: 131410) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 26, pid: 131411) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 27, pid: 131412) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 28, pid: 131413) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 29, pid: 131414) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 30, pid: 131415) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 31, pid: 131416) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 32, pid: 131417) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 33, pid: 131418) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 34, pid: 131419) exited with status 1
[cu80:mpispawn_0][child_handler] MPI process (rank: 35, pid: 131420) exited with status 1
And here is my subscript:
#!/bin/sh
#PBS -N test
#PBS -l nodes=1:ppn=36
#PBS -l walltime=1000:00:00
#PBS -q cu
#PBS -j oe
#PBS -r y
#PBS -V
#PBS -S /bin/bash
source /software/intel2020/compilers_and_libraries_2020/linux/bin/compilervars.sh intel64
source /software/intel2020/mkl/bin/mklvars.sh intel64
source /software/intel2020/compilers_and_libraries_2020/linux/mpi/intel64/bin/mpivars.sh
export PATH=/software/mpi/mvapich2/bin:$PATH
export LD_LIBRARY_PATH=/software/mpi/mvapich2/lib:$LD_LIBRARY_PATH
cat $PBS_NODEFILE > /tmp/nodefile.$
cd $PBS_O_WORKDIR
mpicc -Wall -std=c99 -O2 -D_MPI=1 _bump.c -o bump -lm
mpirun_rsh -np 36 -hostfile $PBS_NODEFILE bump
rm -f /tmp/nodefile.$$
rm -f /tmp/nodes.$$
#PBS -N test
#PBS -l nodes=1:ppn=36
#PBS -l walltime=1000:00:00
#PBS -q cu
#PBS -j oe
#PBS -r y
#PBS -V
#PBS -S /bin/bash
source /software/intel2020/compilers_and_libraries_2020/linux/bin/compilervars.sh intel64
source /software/intel2020/mkl/bin/mklvars.sh intel64
source /software/intel2020/compilers_and_libraries_2020/linux/mpi/intel64/bin/mpivars.sh
export PATH=/software/mpi/mvapich2/bin:$PATH
export LD_LIBRARY_PATH=/software/mpi/mvapich2/lib:$LD_LIBRARY_PATH
cat $PBS_NODEFILE > /tmp/nodefile.$
cd $PBS_O_WORKDIR
mpicc -Wall -std=c99 -O2 -D_MPI=1 _bump.c -o bump -lm
mpirun_rsh -np 36 -hostfile $PBS_NODEFILE bump
rm -f /tmp/nodefile.$$
rm -f /tmp/nodes.$$
Any comments from anyone would be greatly appreciated！
Regrads,
Ning Wang
Anil Kumar
Aug 25, 2023, 2:55:06 AM8/25/23
to basilisk-fr
Hey, If you are still stuck, try this:
#!/bin/sh
#PBS -N test
#PBS -l nodes=1:ppn=36
#PBS -l walltime=1000:00:00
#PBS -q cu
#PBS -j oe
#PBS -r y
#PBS -V
#PBS -S /bin/bash
source /software/intel2020/compilers_and_libraries_2020/linux/bin/compilervars.sh intel64
source /software/intel2020/mkl/bin/mklvars.sh intel64
source /software/intel2020/compilers_and_libraries_2020/linux/mpi/intel64/bin/mpivars.sh
export PATH=/software/mpi/mvapich2/bin:$PATH
export LD_LIBRARY_PATH=/software/mpi/mvapich2/lib:$LD_LIBRARY_PATH
cat $PBS_NODEFILE > /tmp/nodefile.$
cd $PBS_O_WORKDIR
mpicc -Wall -D_XOPEN_SOURCE=700 -std=c99 -O2 -D_MPI=1 _bump.c -o bump -lm
mpirun_rsh -np 36 -hostfile $PBS_NODEFILE bump
rm -f /tmp/nodefile.$$
rm -f /tmp/nodes.$$
This is same error as discussed in thread: https://groups.google.com/g/basilisk-fr/c/vbvIhvdtOfI/m/ByTtwBjnAAAJ
#!/bin/sh
#PBS -N test
#PBS -l nodes=1:ppn=36
#PBS -l walltime=1000:00:00
#PBS -q cu
#PBS -j oe
#PBS -r y
#PBS -V
#PBS -S /bin/bash
source /software/intel2020/compilers_and_libraries_2020/linux/bin/compilervars.sh intel64
source /software/intel2020/mkl/bin/mklvars.sh intel64
source /software/intel2020/compilers_and_libraries_2020/linux/mpi/intel64/bin/mpivars.sh
export PATH=/software/mpi/mvapich2/bin:$PATH
export LD_LIBRARY_PATH=/software/mpi/mvapich2/lib:$LD_LIBRARY_PATH
cat $PBS_NODEFILE > /tmp/nodefile.$
cd $PBS_O_WORKDIR
mpirun_rsh -np 36 -hostfile $PBS_NODEFILE bump
rm -f /tmp/nodefile.$$
rm -f /tmp/nodes.$$
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