From: Mohamad Chaarawi (mschaara_at_[hidden])
Date: 2007-09-21 14:34:12
Attached..
something to do with libumad i guess..
interesting enough, if i run mtt driectly from the head node (before i
was submitting it as a batch job), the C test passes, but the configure
is picking up g77 instead gfortran, which fails the f77 tests since
gcc-4.2.0 doesn't have g77..
Jeff Squyres wrote:
> Yoinks. :-(
>
> What does the corresponding config.log say? It should contain the
> exact error that occurred.
>
> This configure test is simply checking to see if the C compiler
> works. IIRC, it's trying to compile, link, and run a trivial C
> application (something akin to "hello world").
>
>
> On Sep 21, 2007, at 1:30 PM, Mohamad Chaarawi wrote:
>
>
>> Hey all,
>>
>> I'm trying to execute the collective bakeoff tests for OMPI,
>> MPICH2, and
>> MVAPICH2. OMPI and MPICH2 are working out fine, However when
>> MVAPICH2 is
>> configuring, it gives an error with the C compiler, pasted at the
>> end..
>>
>> Note that I get the error when im running the mtt client. When i go in
>> the scratch directory to the MVAPICH2 sources and configure it myself,
>> with the same configure arguments that it did from config.log, it
>> works
>> out fine..
>>
>> Ive been banging my head a while now to figure this out, but i got
>> nowhere. Probably it's some environment settings being messed up
>> somewhere, but i don't know..
>> If anyone has stumbled upon this before, let me know..
>> I attached my ini file..
>>
>>
>>
>>
>>
>> OUT:Configuring MVAPICH2...
>> OUT:Configuring MPICH2 version MVAPICH2-0.9.8 with
>> --prefix=/home/mschaara/mtt-testing/scratch-coll/installs/NhjQ/
>> install
>> --with-device=osu_ch3:mrail --with-rdma=gen2 --with-pm=mpd
>> --disable-romio --without-mpe
>> OUT:sourcing
>> /home/mschaara/mtt-testing/scratch-coll/installs/NhjQ/src/
>> mvapich2-0.9.8
>> p3/src/pm/mpd/setup_pm
>> OUT:checking for gcc... OUT:gcc
>> OUT:checking for C compiler default output file name... OUT:configure:
>> error: C compiler cannot create executables
>> See `config.log' for more details.
>> OUT:Configuring MPICH2 version MVAPICH2-0.9.8 with
>> --prefix=/home/mschaara/mtt-testing/scratch-coll/installs/NhjQ/
>> install
>> --with-device=osu_ch3:mrail --with-rdma=gen2 --with-pm=mpd
>> --disable-romio --without-mpe
>> sourcing
>> /home/mschaara/mtt-testing/scratch-coll/installs/NhjQ/src/
>> mvapich2-0.9.8
>> p3/src/pm/mpd/setup_pm
>> checking for gcc... gcc
>> checking for C compiler default output file name... configure:
>> error: C
>> compiler cannot create executables
>> See `config.log' for more details.
>> OUT:Failure in configuration.
>> Please file an error report to mvapich-discuss_at_cse.ohio-
>> state.edu with
>> all your log files.
>> Command complete, exit status: 1
>>
>>
>> --
>> Mohamad Chaarawi
>> Instructional Assistant http://www.cs.uh.edu/~mschaara
>> Department of Computer Science University of Houston
>> 4800 Calhoun, PGH Room 526 Houston, TX 77204, USA
>> #=====================================================================
>> =
>> # Generic OMPI core performance testing template configuration
>> #=====================================================================
>> =
>>
>> [MTT]
>> # Leave this string so that we can identify this data subset in the
>> # database
>> # OMPI Core: Use a "test" label until we're ready to run real results
>> description = [testbake]
>> #description = [2007 collective performance bakeoff]
>> # OMPI Core: Use the "trial" flag until we're ready to run real
>> results
>> trial = 1
>>
>> # Put other values here as relevant to your environment.
>>
>> #---------------------------------------------------------------------
>> -
>>
>> [Lock]
>> # Put values here as relevant to your environment.
>>
>> #=====================================================================
>> =
>> # MPI get phase
>> #=====================================================================
>> =
>>
>> [MPI get: MVAPICH2]
>> mpi_details = MVAPICH2
>>
>> module = Download
>> download_url = http://mvapich.cse.ohio-state.edu/download/mvapich2/
>> mvapich2-0.9.8p3.tar.gz
>>
>> #=====================================================================
>> =
>> # Install MPI phase
>> #=====================================================================
>> =
>>
>> [MPI install: MVAPICH2]
>> mpi_get = mvapich2
>> save_stdout_on_success = 1
>> merge_stdout_stderr = 0
>> # Adjust this for your site (this is what works at Cisco). Needed to
>> # launch in SLURM; adding this to LD_LIBRARY_PATH here propagates this
>> # all the way through the test run phases that use this MPI install,
>> # where the test executables will need to have this set.
>> prepend_path = LD_LIBRARY_PATH /opt/SLURM/lib
>>
>> module = MVAPICH2
>> # Adjust this to be where your OFED is installed
>> mvapich2_setenv = OPEN_IB_HOME /usr/local/ofed
>> mvapich2_build_script = make.mvapich2.ofa
>> mvapich2_compiler_name = gnu
>> mvapich2_compiler_version = &get_gcc_version()
>> # These are needed to launch through SLURM; adjust as appropriate.
>> mvapich2_additional_wrapper_ldflags = -L/opt/SLURM/lib
>> mvapich2_additional_wrapper_libs = -lpmi
>>
>> #=====================================================================
>> =
>> # MPI run details
>> #=====================================================================
>> =
>>
>> [MPI Details: MVAPICH2]
>>
>> # Launching through SLURM. If you use mpdboot instead, you need to
>> # ensure that multiple mpd's on the same node don't conflict (or never
>> # happen).
>> exec = srun @alloc@ -n &test_np() &test_executable() &test_argv()
>>
>> # If not using SLURM, you'll need something like this (not tested).
>> # You may need different hostfiles for running by slot/by node.
>> #exec = mpiexec -np &test_np() --host &hostlist() &test_executable()
>>
>> network = loopback,verbs,shmem
>>
>> # In this example, each node has 4 CPUs, so to launch "by node", just
>> # specify that each MPI process will use 4 CPUs.
>> alloc = &if(&eq(&test_alloc(), "node"), "-c 2", "")
>>
>> #=====================================================================
>> =
>> # Test get phase
>> #=====================================================================
>> =
>>
>> [Test get: skampi]
>> module = SVN
>> svn_url = https://svn.open-mpi.org/svn/ompi-tests/trunk/skampi-5.0.1
>>
>> #=====================================================================
>> =
>> # Test build phase
>> #=====================================================================
>> =
>>
>> [Test build: skampi]
>> test_get = skampi
>> save_stdout_on_success = 1
>> merge_stdout_stderr = 1
>> stderr_save_lines = 100
>>
>> module = Shell
>> # Set EVERYONE_CAN_MPI_IO for HP MPI
>> shell_build_command = <<EOT
>> make CFLAGS="-O2 -DPRODUCE_SPARSE_OUTPUT -DEVERYONE_CAN_MPI_IO"
>> EOT
>>
>> #=====================================================================
>> =
>> # Test Run phase
>> #=====================================================================
>> =
>>
>> [Test run: skampi]
>> test_build = skampi
>> pass = &and(&cmd_wifexited(), &eq(&cmd_wexitstatus(), 0))
>> # Timeout hueristic: 10 minutes
>> timeout = 10:00
>> save_stdout_on_pass = 1
>> # Ensure to leave this value as "-1", or performance results could
>> be lost!
>> stdout_save_lines = -1
>> merge_stdout_stderr = 1
>> np = &env_max_procs()
>>
>> argv = -i &find("mtt_.+.ski", "input_files_bakeoff")
>>
>> specify_module = Simple
>> analyze_module = SKaMPI
>>
>> simple_pass:tests = skampi
>>
>> #=====================================================================
>> =
>> # Reporter phase
>> #=====================================================================
>> =
>>
>> [Reporter: IU database]
>> module = MTTDatabase
>>
>> mttdatabase_realm = OMPI
>> mttdatabase_url = https://www.open-mpi.org/mtt/submit/
>> # Change this to be the username and password for your submit user.
>> # Get this from the OMPI MTT administrator.
>> mttdatabase_username = uh
>> mttdatabase_password = &stringify(&cat("/home/mschaara/mtt-testing/
>> mtt-db-password.txt"))
>> # Change this to be some short string identifying your cluster.
>> mttdatabase_platform = shark
>>
>> mttdatabase_debug_filename = mttdb_debug_file_perf
>> mttdatabase_keep_debug_files = 1
>>
>> #---------------------------------------------------------------------
>> -
>>
>> # This is a backup reporter; it also writes results to a local text
>> # file
>>
>> [Reporter: text file backup]
>> module = TextFile
>>
>> textfile_filename = $phase-$section-$mpi_name-$mpi_version.txt
>>
>> textfile_summary_header = <<EOT
>> Hostname: &shell("hostname")
>> uname: &shell("uname -a")
>> Username: &shell("who am i")
>> EOT
>>
>> textfile_summary_footer =
>> textfile_detail_header =
>> textfile_detail_footer =
>>
>> textfile_textwrap = 78
>> _______________________________________________
>> mtt-users mailing list
>> mtt-users_at_[hidden]
>> http://www.open-mpi.org/mailman/listinfo.cgi/mtt-users
>>
>
>
>
This file contains any messages produced by compilers while
running configure, to aid debugging if configure makes a mistake.
It was created by configure, which was
generated by GNU Autoconf 2.59. Invocation command line was
$ ./configure --prefix=/home/mschaara/mtt-testing/scratch-coll/installs/UvUA/install --with-device=osu_ch3:mrail --with-rdma=gen2 --with-pm=mpd --disable-romio --without-mpe
## --------- ##
## Platform. ##
## --------- ##
hostname = shark01
uname -m = x86_64
uname -r = 2.6.16.21-smp
uname -s = Linux
uname -v = #2 SMP Thu Mar 1 10:09:02 CST 2007
/usr/bin/uname -p = unknown
/bin/uname -X = unknown
/bin/arch = x86_64
/usr/bin/arch -k = unknown
/usr/convex/getsysinfo = unknown
hostinfo = unknown
/bin/machine = unknown
/usr/bin/oslevel = unknown
/bin/universe = unknown
PATH: /opt/papi-3.5.0/bin
PATH: /home/mschaara/OpenMPI/bin
PATH: /opt/gcc-4.2.0/bin
PATH: /opt/SLURM/bin
PATH: /opt/papi-3.5.0/bin
PATH: /home/mschaara/OpenMPI/bin
PATH: /opt/gcc-4.2.0/bin
PATH: /opt/SLURM/bin
PATH: /opt/papi-3.5.0/bin
PATH: /home/mschaara/OpenMPI/bin
PATH: /opt/gcc-4.2.0/bin
PATH: /opt/SLURM/bin
PATH: /home/mschaara/bin
PATH: /usr/local/bin
PATH: /usr/bin
PATH: /usr/X11R6/bin
PATH: /bin
PATH: /usr/games
PATH: /opt/bin
PATH: /opt/gnome/bin
PATH: /opt/kde3/bin
PATH: /usr/lib64/jvm/jre/bin
PATH: /opt/c3-4/
PATH: /usr/local/ofed/bin
PATH: /usr/lib/mit/bin
PATH: /usr/lib/mit/sbin
PATH: /usr/local/ofed/sbin
## ----------- ##
## Core tests. ##
## ----------- ##
configure:2720: checking for gcc
configure:2746: result: gcc
configure:2990: checking for C compiler version
configure:2993: gcc --version </dev/null >&5
gcc (GCC) 4.2.0
Copyright (C) 2007 Free Software Foundation, Inc.
This is free software; see the source for copying conditions. There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
configure:2996: $? = 0
configure:2998: gcc -v </dev/null >&5
Using built-in specs.
Target: x86_64-unknown-linux-gnu
Configured with: ../gcc-4.2.0/configure --prefix=/opt/gcc-4.2.0/ --disable-multilib --enable-languages=c,c++,fortran,java
Thread model: posix
gcc version 4.2.0
configure:3001: $? = 0
configure:3003: gcc -V </dev/null >&5
gcc: '-V' option must have argument
configure:3006: $? = 1
configure:3029: checking for C compiler default output file name
configure:3032: gcc -D_X86_64_ -D_SMP_ -DUSE_HEADER_CACHING -DONE_SIDED -DMPID_USE_SEQUENCE_NUMBERS -D_SHMEM_COLL_ -I/usr/local/ofed/include -O2 conftest.c -L/usr/local/ofed/lib64 -libverbs -libumad -lpthread >&5
/usr/bin/ld: cannot find -libumad
collect2: ld returned 1 exit status
configure:3035: $? = 1
configure: failed program was:
| /* confdefs.h. */
|
| #define PACKAGE_NAME ""
| #define PACKAGE_TARNAME ""
| #define PACKAGE_VERSION ""
| #define PACKAGE_STRING ""
| #define PACKAGE_BUGREPORT ""
| #define HAVE_ERROR_CHECKING MPID_ERROR_LEVEL_ALL
| #define MPICH_ERROR_MSG_LEVEL MPICH_ERROR_MSG_ALL
| #define USE_LOGGING MPID_LOGGING_NONE
| #define MPICH_SINGLE_THREADED 1
| #define MPICH_THREAD_LEVEL MPI_THREAD_FUNNELED
| #define USE_THREAD_IMPL MPICH_THREAD_IMPL_NONE
| /* end confdefs.h. */
|
| int
| main ()
| {
|
| ;
| return 0;
| }
configure:3074: error: C compiler cannot create executables
See `config.log' for more details.
## ---------------- ##
## Cache variables. ##
## ---------------- ##
ac_cv_env_CC_set=set
ac_cv_env_CC_value=gcc
ac_cv_env_CFLAGS_set=set
ac_cv_env_CFLAGS_value='-D_X86_64_ -D_SMP_ -DUSE_HEADER_CACHING -DONE_SIDED -DMPID_USE_SEQUENCE_NUMBERS -D_SHMEM_COLL_ -I/usr/local/ofed/include -O2'
ac_cv_env_CPPFLAGS_set=
ac_cv_env_CPPFLAGS_value=
ac_cv_env_CPP_set=
ac_cv_env_CPP_value=
ac_cv_env_CXXFLAGS_set=
ac_cv_env_CXXFLAGS_value=
ac_cv_env_CXX_set=set
ac_cv_env_CXX_value=g++
ac_cv_env_F77_set=set
ac_cv_env_F77_value=g77
ac_cv_env_F90FLAGS_set=
ac_cv_env_F90FLAGS_value=
ac_cv_env_F90_set=set
ac_cv_env_F90_value=
ac_cv_env_FFLAGS_set=set
ac_cv_env_FFLAGS_value=-L/usr/local/ofed/lib64
ac_cv_env_LDFLAGS_set=
ac_cv_env_LDFLAGS_value=
ac_cv_env_build_alias_set=
ac_cv_env_build_alias_value=
ac_cv_env_host_alias_set=
ac_cv_env_host_alias_value=
ac_cv_env_target_alias_set=
ac_cv_env_target_alias_value=
ac_cv_prog_ac_ct_CC=gcc
pac_cv_my_conf_dir=/home/mschaara/mtt-testing/scratch-coll/installs/UvUA/src/mvapich2-0.9.8p3
## ----------------- ##
## Output variables. ##
## ----------------- ##
ADDRESS_KIND=''
ALLOCA=''
AR=''
BSEND_OVERHEAD=''
BUILD_TVDLL=''
CC='gcc'
CC_SHL=''
CC_SHL_DBG=''
CFLAGS='-D_X86_64_ -D_SMP_ -DUSE_HEADER_CACHING -DONE_SIDED -DMPID_USE_SEQUENCE_NUMBERS -D_SHMEM_COLL_ -I/usr/local/ofed/include -O2'
CONFIGURE_ARGUMENTS='--prefix=/home/mschaara/mtt-testing/scratch-coll/installs/UvUA/install --with-device=osu_ch3:mrail --with-rdma=gen2 --with-pm=mpd --disable-romio --without-mpe'
CPP=''
CPPFLAGS=''
CREATESHLIB=''
CXX='g++'
CXXFLAGS=''
CXX_LINKPATH_SHL=''
CXX_SHL=''
C_LINKPATH_SHL=''
C_LINK_SHL=''
C_LINK_SHL_DBG=''
DEFS=''
DEVICE='osu_ch3:mrail'
DLLIMPORT=''
DOCTEXT=''
DOCTEXTSTYLE=''
ECHO_C=''
ECHO_N='-n'
ECHO_T=''
EGREP=''
ENABLE_SHLIB=''
ETAGS=''
ETAGSADD=''
EXAMPLE_LIBS=''
EXEEXT=''
EXTERNAL_SRC_DIRS=''
EXTRA_STATUS_DECL=''
F77='g77'
F77CPP=''
F77_COMPLEX16=''
F77_COMPLEX32=''
F77_COMPLEX8=''
F77_INCDIR=''
F77_INTEGER16=''
F77_INTEGER1=''
F77_INTEGER2=''
F77_INTEGER4=''
F77_INTEGER8=''
F77_IN_C_LIBS=''
F77_LIBDIR_LEADER=''
F77_NAME_MANGLE=''
F77_REAL16=''
F77_REAL4=''
F77_REAL8=''
F90=''
F90CPP=''
F90EXT=''
F90FLAGS=''
F90INC=''
F90INCFLAG=''
F90MODEXT=''
F90MODINCFLAG=''
F90MODINCSPEC=''
F90_LINKPATH_SHL=''
F90_SHL=''
F90_WORK_FILES_ARG=''
FC=''
FC_LINKPATH_SHL=''
FC_SHL=''
FFLAGS='-L/usr/local/ofed/lib64'
FINCLUDES=''
FLIBS=''
FWRAPNAME='fmpich'
GCC=''
HAVE_CXX_EXCEPTIONS=''
HAVE_ROMIO=''
INCLUDE_MPICXX_H=''
INSTALL_DATA=''
INSTALL_PROGRAM=''
INSTALL_SCRIPT=''
INT16_T=''
INT32_T=''
INT64_T=''
LDFLAGS=''
LIBOBJS=''
LIBS='-L/usr/local/ofed/lib64 -libverbs -libumad -lpthread'
LIBTOOL=''
LTLIBOBJS=''
MAKE=''
MAKE_DEPEND_C=''
MANY_PM='no'
MKDIR_P=''
MPE_THREAD_LIB_NAME=''
MPICC=''
MPICH_TIMER_KIND=''
MPICVSHOME=''
MPICXX=''
MPICXXLIBNAME='mpichcxx'
MPID_TIMER_TYPE=''
MPIF77=''
MPIF90=''
MPIFLIBNAME='mpich'
MPIFPMPI=''
MPILIBNAME='mpich'
MPIMODNAME=''
MPIU_DLL_SPEC_DEF=''
MPI_2COMPLEX=''
MPI_2DOUBLE_COMPLEX=''
MPI_2DOUBLE_PRECISION=''
MPI_2INT=''
MPI_2INTEGER=''
MPI_2REAL=''
MPI_AINT=''
MPI_BYTE=''
MPI_CFLAGS=''
MPI_CHAR=''
MPI_CHARACTER=''
MPI_COMPLEX16=''
MPI_COMPLEX32=''
MPI_COMPLEX8=''
MPI_COMPLEX=''
MPI_CXXFLAGS=''
MPI_DOUBLE=''
MPI_DOUBLE_COMPLEX=''
MPI_DOUBLE_INT=''
MPI_DOUBLE_PRECISION=''
MPI_F77_BYTE=''
MPI_F77_LB=''
MPI_F77_PACKED=''
MPI_F77_UB=''
MPI_F90FLAGS='-O2'
MPI_FFLAGS=''
MPI_FINT=''
MPI_FLOAT=''
MPI_FLOAT_INT=''
MPI_INT=''
MPI_INTEGER16=''
MPI_INTEGER1=''
MPI_INTEGER2=''
MPI_INTEGER4=''
MPI_INTEGER8=''
MPI_INTEGER=''
MPI_LB=''
MPI_LDFLAGS=''
MPI_LOGICAL=''
MPI_LONG=''
MPI_LONG_DOUBLE=''
MPI_LONG_DOUBLE_INT=''
MPI_LONG_INT=''
MPI_LONG_LONG=''
MPI_MAX_PROCESSOR_NAME=''
MPI_OFFSET=''
MPI_OFFSET_TYPEDEF=''
MPI_PACKED=''
MPI_REAL16=''
MPI_REAL4=''
MPI_REAL8=''
MPI_REAL=''
MPI_SHORT=''
MPI_SHORT_INT=''
MPI_SIGNED_CHAR=''
MPI_STATUS_SIZE=''
MPI_UB=''
MPI_UNSIGNED_CHAR=''
MPI_UNSIGNED_INT=''
MPI_UNSIGNED_LONG=''
MPI_UNSIGNED_LONG_LONG=''
MPI_UNSIGNED_SHORT=''
MPI_WCHAR=''
NEEDSPLIB=''
NO_WEAK_SYM=''
NO_WEAK_SYM_TARGET=''
OBJEXT=''
OFFSET_KIND=''
PACKAGE_BUGREPORT='mpich2-maint_at_[hidden]'
PACKAGE_NAME='MPICH2'
PACKAGE_STRING=''
PACKAGE_TARNAME='mpich2-MVAPICH2-0.9.8'
PACKAGE_VERSION='MVAPICH2-0.9.8'
PATH_SEPARATOR=':'
PERL5=''
PERL=''
PMPIFLIBNAME='pmpich'
PMPILIBNAME='pmpich'
PROFILE_DEF_MPI=''
RANLIB=''
RANLIB_AFTER_INSTALL=''
SET_CFLAGS=''
SET_MAKE=''
SHELL='/bin/sh'
SHLIB_EXT=''
SHLIB_FROM_LO=''
SHLIB_INSTALL=''
SIZEOF_MPI_STATUS=''
TESTCPP=''
THR_CFLAGS=''
THR_CPPFLAGS=''
THR_DEFS=''
THR_LDFLAGS=''
THR_LIBS=''
VERSION='MVAPICH2-0.9.8'
VPATH=''
ac_ct_CC='gcc'
ac_ct_CXX=''
ac_ct_F77=''
ac_ct_F90=''
ac_ct_RANLIB=''
bindings=''
bindings_dirs=''
bindir='${exec_prefix}/bin'
build_alias=''
datadir='${prefix}/share'
debugger_dir=''
device_name='osu_ch3'
docdir='${prefix}/doc'
exec_prefix='NONE'
host_alias=''
htmldir='${prefix}/www'
includedir='${prefix}/include'
infodir='${prefix}/info'
libdir='${exec_prefix}/lib'
libexecdir='${exec_prefix}/libexec'
localstatedir='${prefix}/var'
logging_dir=''
logging_name='none'
logging_subdirs=''
mandir='${prefix}/man'
master_top_builddir='/home/mschaara/mtt-testing/scratch-coll/installs/UvUA/src/mvapich2-0.9.8p3'
master_top_srcdir='/home/mschaara/mtt-testing/scratch-coll/installs/UvUA/src/mvapich2-0.9.8p3'
modincdir=''
mpe_dir=''
nameserv_name=''
oldincludedir='/usr/include'
other_install_dirs=' src/pm/mpd'
other_pm_names=''
pac_prog=''
pm_name='mpd'
pmi_name='simple'
prefix='/home/mschaara/mtt-testing/scratch-coll/installs/UvUA/install'
program_transform_name='s,x,x,'
romio_dir=''
sbindir='${exec_prefix}/sbin'
sharedstatedir='${prefix}/com'
subdirs=''
subsystems=' src/pmi/simple src/pm/mpd'
sysconfdir='${prefix}/etc'
target_alias=''
## ------------- ##
## Output files. ##
## ------------- ##
MPE_THREAD_FUNCS=''
MPE_THREAD_TYPEDEFS=''
## ----------- ##
## confdefs.h. ##
## ----------- ##
#define HAVE_ERROR_CHECKING MPID_ERROR_LEVEL_ALL
#define MPICH_ERROR_MSG_LEVEL MPICH_ERROR_MSG_ALL
#define MPICH_SINGLE_THREADED 1
#define MPICH_THREAD_LEVEL MPI_THREAD_FUNNELED
#define PACKAGE_BUGREPORT ""
#define PACKAGE_NAME ""
#define PACKAGE_STRING ""
#define PACKAGE_TARNAME ""
#define PACKAGE_VERSION ""
#define USE_LOGGING MPID_LOGGING_NONE
#define USE_THREAD_IMPL MPICH_THREAD_IMPL_NONE
configure: exit 77