Hi Castain,
You have some major problems with confused installations of MPIs. First, you cannot
compile an application against>MPICH and expect to run it with OMPI - the two are
not binary compatible. You need to compile against the MPI>installation you intend
to run against.
I did this, sry i didnt tell this.
I tried mpich and openmpi, and of course for each case i compiled againt
mpich and opem mpi
Second, your errors appear to be because you are not pointing your library path at the
OMPI installation, and so the>libraries are not being found. You need to set
LD_LIBRARY_PATH to include the path to where you installed OMPI.>Based on the
configure line you give, that would mean ensuring that /opt/mpirun/lib was in that
envar. Likewise,>/opt/mpirun/bin needs to be in your PATH.
hmm....i installed openmpi in the std location, changed the variables to this
and this works now....
But now i have the same problem again (the problem why i wrote u in the first
place):
markus@linux-6wa6:/media/808CCB178CCB069E/MD Simulations/Test Simu1>
sudo mpirun -n 4 ./DLPOLY.Z
root's password:
[linux-6wa6:05565] [[INVALID],INVALID] ORTE_ERROR_LOG: Not found in file
runtime/orte_init.c at line 125
--------------------------------------------------------------------------
It looks like orte_init failed for some reason; your parallel process is
likely to abort. There are many reasons that a parallel process can
fail during orte_init; some of which are due to configuration or
environment problems. This failure appears to be an internal failure;
here's some additional information (which may only be relevant to an
Open MPI developer):
orte_ess_base_select failed
--> Returned value Not found (-13) instead of ORTE_SUCCESS
--------------------------------------------------------------------------
[linux-6wa6:05565] [[INVALID],INVALID] ORTE_ERROR_LOG: Not found in file
orterun.c at line 543
What can i do with this?
Thx,
Markus
On 11/25/2011 03:42 AM, Ralph Castain wrote:
Hi Markus
You have some major problems with confused installations of MPIs. First, you
cannot compile an application against MPICH and expect to run it with OMPI -
the two are not binary compatible. You need to compile against the MPI
installation you intend to run against.
Second, your errors appear to be because you are not pointing your library path
at the OMPI installation, and so the libraries are not being found. You need to
set LD_LIBRARY_PATH to include the path to where you installed OMPI. Based on
the configure line you give, that would mean ensuring that /opt/mpirun/lib was
in that envar. Likewise, /opt/mpirun/bin needs to be in your PATH.
Once you have those correctly set, and build your app against the appropriate
mpicc, you should be able to run.
BTW: your last message indicates that you built against an old LAM MPI, so you
appear to have some pretty old software laying around. Perhaps cleaning out
some of the old MPI installations would help.
On Nov 24, 2011, at 4:32 PM, Markus Stiller wrote:
On 11/24/2011 10:08 PM, MM wrote:
Hi
I get the same error while linking against home built 1.5.4 openmpi libs on
win32.
I didn't get this error against the prebuilt libs.
I see you use Suse. There probably is a openmpi.rpm or openmpi.dpkg already
available for Suse which contains the libraries and you could link against
those and that may work
MM
-----Original Message-----
From:users-boun...@open-mpi.org [mailto:users-boun...@open-mpi.org] On
Behalf Of Markus Stiller
Sent: 24 November 2011 20:41
To:us...@open-mpi.org
Subject: [OMPI users] open-mpi error
Hello,
i have some problem with mpi, i looked in the FAQ and google already but i
couldnt find a solution.
To build mpi i used this:
shell$ ./configure --prefix=/opt/mpirun
<...lots of output...>
shell$ make all install
Worked fine so far. I am using dlpoly, and this makefile:
$(MAKE) LD="mpif90 -o" LDFLAGS="-O3" \
FC="mpif90 -c" FCFLAGS="-O3" \
EX=$(EX) BINROOT=$(BINROOT) $(TYPE)
This worked fine too,
the problem occurs when i want to run a job with
mpiexec -n 4 ./DLPOLY.Z or
mpirun -n 4 ./DLPOLY.z
I get this error:
--------------------------------------------------------------------------
[linux-6wa6:02927] [[INVALID],INVALID] ORTE_ERROR_LOG: Not found in file
orterun.c at line 543 markus@linux-6wa6:/media/808CCB178CCB069E/MD
Simulations/Test Simu1> sudo mpiexec -n 4 ./DLPOLY.Z [linux-6wa6:03731]
[[INVALID],INVALID] ORTE_ERROR_LOG: Not found in file runtime/orte_init.c at
line 125
--------------------------------------------------------------------------
It looks like orte_init failed for some reason; your parallel process is
likely to abort. There are many reasons that a parallel process can fail
during orte_init; some of which are due to configuration or environment
problems. This failure appears to be an internal failure; here's some
additional information (which may only be relevant to an Open MPI
developer):
orte_ess_base_select failed
--> Returned value Not found (-13) instead of ORTE_SUCCESS
--------------------------------------------------------------------------
[linux-6wa6:03731] [[INVALID],INVALID] ORTE_ERROR_LOG: Not found in file
orterun.c at line 543
Some Informations:
I use Open MPI 1.4.4, Suse 64bit, AMD quadcore
make check gives:
make: *** No rule to make target `check'. Stop.
I attached the ompi_info.
Thx alot for your help,
regards,
Markus
_______________________________________________
users mailing list
us...@open-mpi.org
http://www.open-mpi.org/mailman/listinfo.cgi/users
Now i made open mpi new, but now im ggetting stuff like this:
..................
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `lam_ssi_base_param_find'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `asc_parse'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `lam_ssi_base_param_register_string'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `lam_ssi_base_param_register_int'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `lampanic'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `lam_thread_self'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `lam_debug_close'
/usr/local/lib64/libmpi_f77.so: undefined reference to `MPI_CONVERSION_FN_NULL'
/usr/local/lib64/libmpi_f77.so: undefined reference to `MPI_File_read_at_all'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `sfh_sock_set_buf_size'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `blktype'
/usr/local/lib64/libmpi_f77.so: undefined reference to `MPI_File_preallocate'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `ao_init'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `lam_mutex_destroy'
/usr/local/lib64/libmpi_f77.so: undefined reference to `MPI_File_iread_shared'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `al_init'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `stoi'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `lam_ssi_base_hostmap'
/usr/local/lib64/libmpi_f77.so: undefined reference to
`MPI_FORTRAN_ERRCODES_IGNORE'
/usr/local/lib64/libmpi_f77.so: undefined reference to `MPI_File_close'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `al_next'
/usr/local/lib64/libmpi_f77.so: undefined reference to `MPI_Register_datarep'
/usr/local/lib64/libmpi_f77.so: undefined reference to
`MPI_FORTRAN_STATUSES_IGNORE'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `nid_parse'
/usr/local/lib64/libmpi_f77.so: undefined reference to `mpi_fortran_bottom__'
/usr/local/lib64/libmpi_f77.so: undefined reference to `MPI_File_write_at'
/usr/local/lib64/libmpi_f77.so: undefined reference to `MPI_File_set_size'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `al_append'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `nid_free'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `terror'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `lam_perror'
/usr/local/lib64/libmpi_f77.so: undefined reference to
`MPI_Type_create_f90_real'
/usr/local/lib64/libmpi_f77.so: undefined reference to `MPI_File_write_shared'
/usr/local/lib64/libmpi_f77.so: undefined reference to
`ompi_attr_set_fortran_mpi1'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `lam_register_objects'
/usr/local/lib64/libmpi_f77.so: undefined reference to `MPI_File_write'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `lam_ssi_base_param_lookup_string'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `next_prime'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `show_help'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `lt_dlclose'
/usr/local/lib64/libmpi_f77.so: undefined reference to
`MPI_File_write_ordered_end'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `lam_rtrnamepub'
/usr/local/lib64/libmpi_f77.so: undefined reference to `ompi_mpi_datatype_null'
/usr/local/lib64/libmpi_f77.so: undefined reference to `MPI_File_get_info'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `ah_expand'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `lam_ssi_cr_verbose'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `lam_arr_find'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `bfiselect'
/usr/local/lib64/libmpi_f77.so: undefined reference to `MPI_File_set_view'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `lam_rtrnamedel'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `lam_mutex_lock'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `bfiprobe'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `lam_gethostname'
/usr/local/lib64/libmpi_f77.so: undefined reference to `MPI_Win_lock'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `lam_mkcoll'
/usr/local/lib64/libmpi_f77.so: undefined reference to `MPI_Request_get_status'
/usr/local/lib64/libmpi_f77.so: undefined reference to `mpi_fortran_argv_null'
/usr/local/lib64/libmpi_f77.so: undefined reference to
`mpi_conversion_fn_null__'
/usr/local/lib64/libmpi_f77.so: undefined reference to
`ompi_attr_create_keyval_fint'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `ah_init'
/usr/local/lib64/libmpi_f77.so: undefined reference to `MPI_File_read_all_end'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `_kio'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `asc_environment'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `lam_mkpt'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `lam_mp_finalize'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `lam_ssi_base_module_find'
/usr/local/lib64/libmpi_f77.so: undefined reference to
`MPI_File_call_errhandler'
/usr/local/lib64/libmpi_f77.so: undefined reference to `MPI_Add_error_string'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `lam_kexit'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `lam_arr_size'
/usr/local/lib64/libmpi_f77.so: undefined reference to `ompi_errcodes_intern'
/usr/local/lib64/libmpi_f77.so: undefined reference to `MPI_File_get_position'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `kexit'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `show_help_file'
/usr/local/lib64/libmpi_f77.so: undefined reference to `MPI_File_get_size'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `kpause'
/usr/local/lib64/libmpi_f77.so: undefined reference to `MPI_File_write_all'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `lam_trpoint'
/usr/local/lib64/libmpi_f77.so: undefined reference to
`MPI_File_get_byte_offset'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `lam_mutex_init'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `lam_getpid'
/usr/local/lib64/libmpi_f77.so: undefined reference to `ompi_ddt_match_size'
/usr/local/lib64/libmpi_f77.so: undefined reference to `MPI_FORTRAN_ARGVS_NULL'
/usr/local/lib64/libmpi_f77.so: undefined reference to
`MPI_Comm_call_errhandler'
/usr/local/lib64/libmpi_f77.so: undefined reference to `ompi_mpi_comm_world'
/usr/local/lib64/libmpi_f77.so: undefined reference to `mpi_fortran_argvs_null'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `lam_arr_remove'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `lam_ssi_did'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `mrev4'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `rpdoom'
/usr/local/lib64/libmpi_f77.so: undefined reference to
`MPI_File_get_position_shared'
/usr/local/lib64/libmpi_f77.so: undefined reference to
`ompi_mpi_errors_are_fatal_comm_handler'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `_lam_signal'
/usr/local/lib64/libmpi_f77.so: undefined reference to `ompi_fortran_string_c2f'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `lam_reset_pid_cache'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `bfselect'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `lam_ssi_base_open'
/usr/local/lib64/libmpi_f77.so: undefined reference to
`MPI_File_write_at_all_end'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `lam_ssi_base_close'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `lt_dlsym'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `lam_ssi_base_set_verbose'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `lam_arr_init'
/usr/local/lib64/libmpi_f77.so: undefined reference to
`MPI_Type_create_f90_integer'
/usr/local/lib64/libmpi_f77.so: undefined reference to
`ompi_registered_datareps'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `rw'
/usr/local/lib64/libmpi_f77.so: undefined reference to
`MPI_Type_create_f90_complex'
/usr/local/lib64/libmpi_f77.so: undefined reference to
`MPI_Status_set_cancelled'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `getroute'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `lam_deregister_object'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `ldogetlinks'
/usr/local/lib64/libmpi_f77.so: undefined reference to `MPI_Win_call_errhandler'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `lam_strncpy'
/usr/local/lib64/libmpi_f77.so: undefined reference to `MPI_Add_error_code'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `microsleep'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `asc_run'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `lam_mutex_unlock'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `ah_free'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `kinit'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `lam_thread_create'
/usr/local/lib64/libmpi_f77.so: undefined reference to `MPI_Grequest_start'
/usr/local/lib64/libmpi_f77.so: undefined reference to
`mpi_fortran_status_ignore__'
/usr/lib64/gcc/x86_64-suse-linux/4.6/../../../../lib64/libmpi.so: undefined
reference to `kenter'
collect2: ld returned 1 exit status
make[1]: *** [master] Error 1
make[1]: Leaving directory `/home/markus/Downloads/dl_poly_4.02/source'
make: *** [hpc] Error 2
Whats wrong here?
How can i tell this where to find these things?
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users mailing list
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