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Subject: Re: [OMPI users] Segmentation fault with HPCC benchmark
From: Gus Correa (gus_at_[hidden])
Date: 2013-04-03 10:44:49


Hi Reza

Check the system stacksize first ('limit stacksize' or 'ulimit -s').
If it is small, you can try to increase it
before you run the program.
Say (tcsh):

limit stacksize unlimited

or (bash):

ulimit -s unlimited

I hope this helps,
Gus Correa

On 04/03/2013 10:29 AM, Ralph Castain wrote:
> Could you perhaps share the stacktrace from the segfault? It's
> impossible to advise you on the problem without seeing it.
>
>
> On Apr 3, 2013, at 5:28 AM, Reza Bakhshayeshi <reza.b2008_at_[hidden]
> <mailto:reza.b2008_at_[hidden]>> wrote:
>
>> ​Hi
>> ​​I have installed HPCC benchmark suite and openmpi on a private cloud
>> instances.
>> Unfortunately I get Segmentation fault error mostly when I want to run
>> it simultaneously on two or more instances with:
>> mpirun -np 2 --hostfile ./myhosts hpcc
>>
>> Everything is on Ubuntu server 12.04 (updated)
>> and this is my make.intel64 file:
>>
>> shell --------------------------------------------------------------
>> # ----------------------------------------------------------------------
>> #
>> SHELL = /bin/sh
>> #
>> CD = cd
>> CP = cp
>> LN_S = ln -s
>> MKDIR = mkdir
>> RM = /bin/rm -f
>> TOUCH = touch
>> #
>> # ----------------------------------------------------------------------
>> # - Platform identifier ------------------------------------------------
>> # ----------------------------------------------------------------------
>> #
>> ARCH = intel64
>> #
>> # ----------------------------------------------------------------------
>> # - HPL Directory Structure / HPL library ------------------------------
>> # ----------------------------------------------------------------------
>> #
>> TOPdir = ../../..
>> INCdir = $(TOPdir)/include
>> BINdir = $(TOPdir)/bin/$(ARCH)
>> LIBdir = $(TOPdir)/lib/$(ARCH)
>> #
>> HPLlib = $(LIBdir)/libhpl.a
>> #
>> # ----------------------------------------------------------------------
>> # - Message Passing library (MPI) --------------------------------------
>> # ----------------------------------------------------------------------
>> # MPinc tells the C compiler where to find the Message Passing library
>> # header files, MPlib is defined to be the name of the library to be
>> # used. The variable MPdir is only used for defining MPinc and MPlib.
>> #
>> MPdir = /usr/lib/openmpi
>> MPinc = -I$(MPdir)/include
>> MPlib = $(MPdir)/lib/libmpi.so
>> #
>> # ----------------------------------------------------------------------
>> # - Linear Algebra library (BLAS or VSIPL) -----------------------------
>> # ----------------------------------------------------------------------
>> # LAinc tells the C compiler where to find the Linear Algebra library
>> # header files, LAlib is defined to be the name of the library to be
>> # used. The variable LAdir is only used for defining LAinc and LAlib.
>> #
>> LAdir = /usr/local/ATLAS/obj64
>> LAinc = -I$(LAdir)/include
>> LAlib = $(LAdir)/lib/libcblas.a $(LAdir)/lib/libatlas.a
>> #
>> # ----------------------------------------------------------------------
>> # - F77 / C interface --------------------------------------------------
>> # ----------------------------------------------------------------------
>> # You can skip this section if and only if you are not planning to use
>> # a BLAS library featuring a Fortran 77 interface. Otherwise, it is
>> # necessary to fill out the F2CDEFS variable with the appropriate
>> # options. **One and only one** option should be chosen in **each** of
>> # the 3 following categories:
>> #
>> # 1) name space (How C calls a Fortran 77 routine)
>> #
>> # -DAdd_ : all lower case and a suffixed underscore (Suns,
>> # Intel, ...), [default]
>> # -DNoChange : all lower case (IBM RS6000),
>> # -DUpCase : all upper case (Cray),
>> # -DAdd__ : the FORTRAN compiler in use is f2c.
>> #
>> # 2) C and Fortran 77 integer mapping
>> #
>> # -DF77_INTEGER=int : Fortran 77 INTEGER is a C int, [default]
>> # -DF77_INTEGER=long : Fortran 77 INTEGER is a C long,
>> # -DF77_INTEGER=short : Fortran 77 INTEGER is a C short.
>> #
>> # 3) Fortran 77 string handling
>> #
>> # -DStringSunStyle : The string address is passed at the string loca-
>> # tion on the stack, and the string length is then
>> # passed as an F77_INTEGER after all explicit
>> # stack arguments, [default]
>> # -DStringStructPtr : The address of a structure is passed by a
>> # Fortran 77 string, and the structure is of the
>> # form: struct {char *cp; F77_INTEGER len;},
>> # -DStringStructVal : A structure is passed by value for each Fortran
>> # 77 string, and the structure is of the form:
>> # struct {char *cp; F77_INTEGER len;},
>> # -DStringCrayStyle : Special option for Cray machines, which uses
>> # Cray fcd (fortran character descriptor) for
>> # interoperation.
>> #
>> F2CDEFS =
>> #
>> # ----------------------------------------------------------------------
>> # - HPL includes / libraries / specifics -------------------------------
>> # ----------------------------------------------------------------------
>> #
>> HPL_INCLUDES = -I$(INCdir) -I$(INCdir)/$(ARCH) $(LAinc) $(MPinc)
>> HPL_LIBS = $(HPLlib) $(LAlib) $(MPlib) -lm
>> #
>> # - Compile time options -----------------------------------------------
>> #
>> # -DHPL_COPY_L force the copy of the panel L before bcast;
>> # -DHPL_CALL_CBLAS call the cblas interface;
>> # -DHPL_CALL_VSIPL call the vsip library;
>> # -DHPL_DETAILED_TIMING enable detailed timers;
>> #
>> # By default HPL will:
>> # *) not copy L before broadcast,
>> # *) call the BLAS Fortran 77 interface,
>> # *) not display detailed timing information.
>> #
>> HPL_OPTS = -DHPL_CALL_CBLAS
>> #
>> # ----------------------------------------------------------------------
>> #
>> HPL_DEFS = $(F2CDEFS) $(HPL_OPTS) $(HPL_INCLUDES)
>> #
>> # ----------------------------------------------------------------------
>> # - Compilers / linkers - Optimization flags ---------------------------
>> # ----------------------------------------------------------------------
>> #
>> CC = /usr/bin/mpicc
>> CCNOOPT = $(HPL_DEFS)
>> CCFLAGS = $(HPL_DEFS) -fomit-frame-pointer -O3 -funroll-loops
>> #CCFLAGS = $(HPL_DEFS)
>> #
>> # On some platforms, it is necessary to use the Fortran linker to find
>> # the Fortran internals used in the BLAS library.
>> #
>> LINKER = /usr/bin/mpif90
>> LINKFLAGS = $(CCFLAGS)
>> #
>> ARCHIVER = ar
>> ARFLAGS = r
>> RANLIB = echo
>> #
>> # ----------------------------------------------------------------------
>>
>> Would you mind please help me figure this problem out?
>>
>> Regards,
>> Reza
>> _______________________________________________
>> users mailing list
>> users_at_[hidden] <mailto:users_at_[hidden]>
>> http://www.open-mpi.org/mailman/listinfo.cgi/users
>
>
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