Hi,
I am using OpenMPI 1.8.1 in a Linux cluster that we recently setup. It
builds fine, but when I try to run even the simplest hello.c program it'll
cause a segfault. Any suggestions on how to correct this?
The steps I did and error message are below.
1. Built OpenMPI 1.8.1 on the cluster. The ompi_info is attached.
2. cd to examples directory and mpicc hello_c.c
3. mpirun -np 2 ./a.out
4. Error text is attached.
Please let me know if you need more info.
Thank you,
Saliya
--
Saliya Ekanayake esal...@gmail.com
Cell 812-391-4914 Home 812-961-6383
http://saliya.org
Package: Open MPI sekan...@tempest.dsc.soic.indiana.edu
Distribution
Open MPI: 1.8.1
Open MPI repo revision: r31483
Open MPI release date: Apr 22, 2014
Open RTE: 1.8.1
Open RTE repo revision: r31483
Open RTE release date: Apr 22, 2014
OPAL: 1.8.1
OPAL repo revision: r31483
OPAL release date: Apr 22, 2014
MPI API: 3.0
Ident string: 1.8.1
Prefix: /N/u/sekanaya/buildompi-1.8.1
Configured architecture: x86_64-unknown-linux-gnu
Configure host: tempest.dsc.soic.indiana.edu
Configured by: sekanaya
Configured on: Thu Oct 23 11:02:15 EDT 2014
Configure host: tempest.dsc.soic.indiana.edu
Built by: sekanaya
Built on: Thu Oct 23 11:20:55 EDT 2014
Built host: tempest.dsc.soic.indiana.edu
C bindings: yes
C++ bindings: yes
Fort mpif.h: yes (all)
Fort use mpi: yes (limited: overloading)
Fort use mpi size: deprecated-ompi-info-value
Fort use mpi_f08: no
Fort mpi_f08 compliance: The mpi_f08 module was not built
Fort mpi_f08 subarrays: no
Java bindings: yes
Wrapper compiler rpath: runpath
C compiler: gcc
C compiler absolute: /usr/bin/gcc
C compiler family name: GNU
C compiler version: 4.4.7
C++ compiler: g++
C++ compiler absolute: /usr/bin/g++
Fort compiler: gfortran
Fort compiler abs: /usr/bin/gfortran
Fort ignore TKR: no
Fort 08 assumed shape: no
Fort optional args: no
Fort BIND(C) (all): no
Fort ISO_C_BINDING: no
Fort SUBROUTINE BIND(C): no
Fort TYPE,BIND(C): no
Fort T,BIND(C,name="a"): no
Fort PRIVATE: no
Fort PROTECTED: no
Fort ABSTRACT: no
Fort ASYNCHRONOUS: no
Fort PROCEDURE: no
Fort f08 using wrappers: no
C profiling: yes
C++ profiling: yes
Fort mpif.h profiling: yes
Fort use mpi profiling: yes
Fort use mpi_f08 prof: no
C++ exceptions: no
Thread support: posix (MPI_THREAD_MULTIPLE: no, OPAL support: yes,
OMPI progress: no, ORTE progress: yes, Event lib: yes)
Sparse Groups: no
Internal debug support: no
MPI interface warnings: yes
MPI parameter check: runtime
Memory profiling support: no
Memory debugging support: no
libltdl support: yes
Heterogeneous support: no
mpirun default --prefix: no
MPI I/O support: yes
MPI_WTIME support: gettimeofday
Symbol vis. support: yes
Host topology support: yes
MPI extensions:
FT Checkpoint support: no (checkpoint thread: no)
C/R Enabled Debugging: no
VampirTrace support: yes
MPI_MAX_PROCESSOR_NAME: 256
MPI_MAX_ERROR_STRING: 256
MPI_MAX_OBJECT_NAME: 64
MPI_MAX_INFO_KEY: 36
MPI_MAX_INFO_VAL: 256
MPI_MAX_PORT_NAME: 1024
MPI_MAX_DATAREP_STRING: 128
MCA backtrace: execinfo (MCA v2.0, API v2.0, Component v1.8.1)
MCA compress: bzip (MCA v2.0, API v2.0, Component v1.8.1)
MCA compress: gzip (MCA v2.0, API v2.0, Component v1.8.1)
MCA crs: none (MCA v2.0, API v2.0, Component v1.8.1)
MCA db: hash (MCA v2.0, API v1.0, Component v1.8.1)
MCA db: print (MCA v2.0, API v1.0, Component v1.8.1)
MCA event: libevent2021 (MCA v2.0, API v2.0, Component v1.8.1)
MCA hwloc: hwloc172 (MCA v2.0, API v2.0, Component v1.8.1)
MCA if: posix_ipv4 (MCA v2.0, API v2.0, Component v1.8.1)
MCA if: linux_ipv6 (MCA v2.0, API v2.0, Component v1.8.1)
MCA installdirs: env (MCA v2.0, API v2.0, Component v1.8.1)
MCA installdirs: config (MCA v2.0, API v2.0, Component v1.8.1)
MCA memory: linux (MCA v2.0, API v2.0, Component v1.8.1)
MCA pstat: linux (MCA v2.0, API v2.0, Component v1.8.1)
MCA sec: basic (MCA v2.0, API v1.0, Component v1.8.1)
MCA shmem: mmap (MCA v2.0, API v2.0, Component v1.8.1)
MCA shmem: posix (MCA v2.0, API v2.0, Component v1.8.1)
MCA shmem: sysv (MCA v2.0, API v2.0, Component v1.8.1)
MCA timer: linux (MCA v2.0, API v2.0, Component v1.8.1)
MCA dfs: app (MCA v2.0, API v1.0, Component v1.8.1)
MCA dfs: orted (MCA v2.0, API v1.0, Component v1.8.1)
MCA dfs: test (MCA v2.0, API v1.0, Component v1.8.1)
MCA errmgr: default_app (MCA v2.0, API v3.0, Component v1.8.1)
MCA errmgr: default_hnp (MCA v2.0, API v3.0, Component v1.8.1)
MCA errmgr: default_orted (MCA v2.0, API v3.0, Component v1.8.1)
MCA errmgr: default_tool (MCA v2.0, API v3.0, Component v1.8.1)
MCA ess: env (MCA v2.0, API v3.0, Component v1.8.1)
MCA ess: hnp (MCA v2.0, API v3.0, Component v1.8.1)
MCA ess: singleton (MCA v2.0, API v3.0, Component v1.8.1)
MCA ess: slurm (MCA v2.0, API v3.0, Component v1.8.1)
MCA ess: tool (MCA v2.0, API v3.0, Component v1.8.1)
MCA filem: raw (MCA v2.0, API v2.0, Component v1.8.1)
MCA grpcomm: bad (MCA v2.0, API v2.0, Component v1.8.1)
MCA iof: hnp (MCA v2.0, API v2.0, Component v1.8.1)
MCA iof: mr_hnp (MCA v2.0, API v2.0, Component v1.8.1)
MCA iof: mr_orted (MCA v2.0, API v2.0, Component v1.8.1)
MCA iof: orted (MCA v2.0, API v2.0, Component v1.8.1)
MCA iof: tool (MCA v2.0, API v2.0, Component v1.8.1)
MCA odls: default (MCA v2.0, API v2.0, Component v1.8.1)
MCA oob: tcp (MCA v2.0, API v2.0, Component v1.8.1)
MCA plm: isolated (MCA v2.0, API v2.0, Component v1.8.1)
MCA plm: rsh (MCA v2.0, API v2.0, Component v1.8.1)
MCA plm: slurm (MCA v2.0, API v2.0, Component v1.8.1)
MCA ras: loadleveler (MCA v2.0, API v2.0, Component v1.8.1)
MCA ras: simulator (MCA v2.0, API v2.0, Component v1.8.1)
MCA ras: slurm (MCA v2.0, API v2.0, Component v1.8.1)
MCA rmaps: lama (MCA v2.0, API v2.0, Component v1.8.1)
MCA rmaps: mindist (MCA v2.0, API v2.0, Component v1.8.1)
MCA rmaps: ppr (MCA v2.0, API v2.0, Component v1.8.1)
MCA rmaps: rank_file (MCA v2.0, API v2.0, Component v1.8.1)
MCA rmaps: resilient (MCA v2.0, API v2.0, Component v1.8.1)
MCA rmaps: round_robin (MCA v2.0, API v2.0, Component v1.8.1)
MCA rmaps: seq (MCA v2.0, API v2.0, Component v1.8.1)
MCA rmaps: staged (MCA v2.0, API v2.0, Component v1.8.1)
MCA rml: oob (MCA v2.0, API v2.0, Component v1.8.1)
MCA routed: binomial (MCA v2.0, API v2.0, Component v1.8.1)
MCA routed: debruijn (MCA v2.0, API v2.0, Component v1.8.1)
MCA routed: direct (MCA v2.0, API v2.0, Component v1.8.1)
MCA routed: radix (MCA v2.0, API v2.0, Component v1.8.1)
MCA state: app (MCA v2.0, API v1.0, Component v1.8.1)
MCA state: hnp (MCA v2.0, API v1.0, Component v1.8.1)
MCA state: novm (MCA v2.0, API v1.0, Component v1.8.1)
MCA state: orted (MCA v2.0, API v1.0, Component v1.8.1)
MCA state: staged_hnp (MCA v2.0, API v1.0, Component v1.8.1)
MCA state: staged_orted (MCA v2.0, API v1.0, Component v1.8.1)
MCA state: tool (MCA v2.0, API v1.0, Component v1.8.1)
MCA allocator: basic (MCA v2.0, API v2.0, Component v1.8.1)
MCA allocator: bucket (MCA v2.0, API v2.0, Component v1.8.1)
MCA bcol: basesmuma (MCA v2.0, API v2.0, Component v1.8.1)
MCA bcol: ptpcoll (MCA v2.0, API v2.0, Component v1.8.1)
MCA bml: r2 (MCA v2.0, API v2.0, Component v1.8.1)
MCA btl: openib (MCA v2.0, API v2.0, Component v1.8.1)
MCA btl: self (MCA v2.0, API v2.0, Component v1.8.1)
MCA btl: sm (MCA v2.0, API v2.0, Component v1.8.1)
MCA btl: tcp (MCA v2.0, API v2.0, Component v1.8.1)
MCA btl: vader (MCA v2.0, API v2.0, Component v1.8.1)
MCA coll: basic (MCA v2.0, API v2.0, Component v1.8.1)
MCA coll: hierarch (MCA v2.0, API v2.0, Component v1.8.1)
MCA coll: inter (MCA v2.0, API v2.0, Component v1.8.1)
MCA coll: libnbc (MCA v2.0, API v2.0, Component v1.8.1)
MCA coll: ml (MCA v2.0, API v2.0, Component v1.8.1)
MCA coll: self (MCA v2.0, API v2.0, Component v1.8.1)
MCA coll: sm (MCA v2.0, API v2.0, Component v1.8.1)
MCA coll: tuned (MCA v2.0, API v2.0, Component v1.8.1)
MCA dpm: orte (MCA v2.0, API v2.0, Component v1.8.1)
MCA fbtl: posix (MCA v2.0, API v2.0, Component v1.8.1)
MCA fcoll: dynamic (MCA v2.0, API v2.0, Component v1.8.1)
MCA fcoll: individual (MCA v2.0, API v2.0, Component v1.8.1)
MCA fcoll: static (MCA v2.0, API v2.0, Component v1.8.1)
MCA fcoll: two_phase (MCA v2.0, API v2.0, Component v1.8.1)
MCA fcoll: ylib (MCA v2.0, API v2.0, Component v1.8.1)
MCA fs: ufs (MCA v2.0, API v2.0, Component v1.8.1)
MCA io: ompio (MCA v2.0, API v2.0, Component v1.8.1)
MCA io: romio (MCA v2.0, API v2.0, Component v1.8.1)
MCA mpool: grdma (MCA v2.0, API v2.0, Component v1.8.1)
MCA mpool: sm (MCA v2.0, API v2.0, Component v1.8.1)
MCA osc: rdma (MCA v2.0, API v3.0, Component v1.8.1)
MCA osc: sm (MCA v2.0, API v3.0, Component v1.8.1)
MCA pml: v (MCA v2.0, API v2.0, Component v1.8.1)
MCA pml: bfo (MCA v2.0, API v2.0, Component v1.8.1)
MCA pml: cm (MCA v2.0, API v2.0, Component v1.8.1)
MCA pml: ob1 (MCA v2.0, API v2.0, Component v1.8.1)
MCA pubsub: orte (MCA v2.0, API v2.0, Component v1.8.1)
MCA rcache: vma (MCA v2.0, API v2.0, Component v1.8.1)
MCA rte: orte (MCA v2.0, API v2.0, Component v1.8.1)
MCA sbgp: basesmsocket (MCA v2.0, API v2.0, Component v1.8.1)
MCA sbgp: basesmuma (MCA v2.0, API v2.0, Component v1.8.1)
MCA sbgp: p2p (MCA v2.0, API v2.0, Component v1.8.1)
MCA sharedfp: individual (MCA v2.0, API v2.0, Component v1.8.1)
MCA sharedfp: lockedfile (MCA v2.0, API v2.0, Component v1.8.1)
MCA sharedfp: sm (MCA v2.0, API v2.0, Component v1.8.1)
MCA topo: basic (MCA v2.0, API v2.1, Component v1.8.1)
MCA vprotocol: pessimist (MCA v2.0, API v2.0, Component v1.8.1)
[sekanaya@tempest examples]$ mpirun -np 1 ./a.out
[tempest:10471] *** Process received signal ***
[tempest:10471] Signal: Segmentation fault (11)
[tempest:10471] Signal code: Address not mapped (1)
[tempest:10471] Failing at address: 0x30
[tempest:10471] [ 0] /lib64/libpthread.so.0[0x38b4a0f710]
[tempest:10471] [ 1]
/N/u/sekanaya/buildompi-1.8.1/lib/openmpi/mca_btl_openib.so(+0x1eb66)[0x7f0f20481b66]
[tempest:10471] [ 2]
/N/u/sekanaya/buildompi-1.8.1/lib/openmpi/mca_btl_openib.so(+0x1f120)[0x7f0f20482120]
[tempest:10471] [ 3]
/N/u/sekanaya/buildompi-1.8.1/lib/openmpi/mca_btl_openib.so(ompi_btl_openib_connect_base_select_for_local_port+0x12c)[0x7f0f2048081c]
[tempest:10471] [ 4]
/N/u/sekanaya/buildompi-1.8.1/lib/openmpi/mca_btl_openib.so(+0x11938)[0x7f0f20474938]
[tempest:10471] [ 5]
/N/u/sekanaya/buildompi-1.8.1/lib/libmpi.so.1(mca_btl_base_select+0x117)[0x7f0f2455ef77]
[tempest:10471] [ 6]
/N/u/sekanaya/buildompi-1.8.1/lib/openmpi/mca_bml_r2.so(mca_bml_r2_component_init+0x12)[0x7f0f206916f2]
[tempest:10471] [ 7]
/N/u/sekanaya/buildompi-1.8.1/lib/libmpi.so.1(mca_bml_base_init+0x99)[0x7f0f2455e799]
[tempest:10471] [ 8]
/N/u/sekanaya/buildompi-1.8.1/lib/openmpi/mca_pml_ob1.so(+0x51e8)[0x7f0f1f1771e8]
[tempest:10471] [ 9]
/N/u/sekanaya/buildompi-1.8.1/lib/libmpi.so.1(mca_pml_base_select+0x1e0)[0x7f0f245717a0]
[tempest:10471] [10]
/N/u/sekanaya/buildompi-1.8.1/lib/libmpi.so.1(ompi_mpi_init+0x510)[0x7f0f24522290]
[tempest:10471] [11]
/N/u/sekanaya/buildompi-1.8.1/lib/libmpi.so.1(MPI_Init+0x170)[0x7f0f245411d0]
[tempest:10471] [12] ./a.out[0x400806]
[tempest:10471] [13] /lib64/libc.so.6(__libc_start_main+0xfd)[0x38b461ed5d]
[tempest:10471] [14] ./a.out[0x400719]
[tempest:10471] *** End of error message ***
--------------------------------------------------------------------------
mpirun noticed that process rank 0 with PID 10471 on node tempest exited on
signal 11 (Segmentation fault).
