[mpich-discuss] Problem using selection pm slurm

[Fernando Luz]

Hi Chan,

I try configure mpich2 without "--host" option, but I received the
follow error message

checking whether the C compiler works... configure: error: in
`/home/fernando_luz/software/mpich2-1.2.1p1/src/mpe2':
configure: error: cannot run C compiled programs.
If you meant to cross compile, use `--host'.
See `config.log' for more details.
configure: error: Configure of src/mpe2 failed!

I attached the config.log and c.txt made in this process.

thanks for the reply

Fernando Luz


On Mon, 2010-06-07 at 11:26 -0500, chan at mcs.anl.gov wrote:
> Your c.txt shows that you configured mpich2 with these options:
> 
> '--prefix=/home/fernando_luz/mpich2-install' 'CC=/opt/software/intel/Compiler/11.1/059/bin/intel64/icc'
> '--host' '--disable-f90' '--enable-cxx' '--with-pm=no' 
> '--with-pmi=slurm' '--with-slurm=/opt/software/slurm' 'host_alias=--disable-f90'
> 
> Notice you had '--host' and 'host_alias=--disable-f90' which causes
> configure to do cross-compilation.  I think it is probably a typo
> somewhere in your configure comamnd, remove "--host" and "host_alias="
> but keep --disable-f90.
> 
> A.Chan
> 
> ----- "Fernando Luz" <fernando_luz at tpn.usp.br> wrote:
> 
> > Hi people,
> > 
> > I try configure mpich2 using the follow options 
> > 
> > ./configure --prefix=/home/fernando_luz/mpich2-install
> > CC=/opt/software/intel/Compiler/11.1/059/bin/intel64/icc
> > --disable-f90
> > --enable-cxx --with-pm=no --with-pmi=slurm
> > --with-slurm=/opt/software/slurm  2>&1 | tee c.txt
> > 
> > And I obtain the follow error message
> > 
> > checking whether the C compiler works... configure: error: in
> > `/home/fernando_luz/software/mpich2-1.2.1p1/src/mpe2':
> > configure: error: cannot run C compiled programs.
> > If you meant to cross compile, use `--host'.
> > See `config.log' for more details.
> > configure: error: Configure of src/mpe2 failed!
> > 
> > Using --host option I received
> > 
> > checking host system type... configure:
> > error: /bin/sh ./../../config.sub --disable-f90 failed
> > configure: WARNING: cache variable ac_cv_host contains a newline
> > configure: error: ./configure failed for src/misc
> > configure: error: Configure of src/mpe2 failed!
> > 
> > Without the slurm option, I dont have any problems to configure
> > mpich2.
> > I attached the c.txt and config.log.
> > 
> > Thanks in advanced
> > 
> > Fernando Luz
> > 
> > _______________________________________________
> > mpich-discuss mailing list
> > mpich-discuss at mcs.anl.gov
> > https://lists.mcs.anl.gov/mailman/listinfo/mpich-discuss
> _______________________________________________
> mpich-discuss mailing list
> mpich-discuss at mcs.anl.gov
> https://lists.mcs.anl.gov/mailman/listinfo/mpich-discuss
-------------- next part --------------
Configuring MPICH2 version 1.2.1p1 with  '--prefix=/home/fernando_luz/mpich2-install' 'CC=/opt/software/intel/Compiler/11.1/059/bin/intel64/icc' '--disable-f90' '--enable-cxx' '--with-pm=no' '--with-pmi=slurm' '--with-slurm=/opt/software/slurm'
Running on system: Linux masternode1 2.6.18-128.1.14.el5 #1 SMP Wed Jun 17 06:38:05 EDT 2009 x86_64 x86_64 x86_64 GNU/Linux
Executing mpich2prereq in /home/fernando_luz/software/mpich2-1.2.1p1/src/mpid/ch3 with 
Executing mpich2prereq in /home/fernando_luz/software/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis
checking for gcc... /opt/software/intel/Compiler/11.1/059/bin/intel64/icc
checking for C compiler default output file name... a.out
checking whether the C compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables... 
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether /opt/software/intel/Compiler/11.1/059/bin/intel64/icc accepts -g... yes
checking for /opt/software/intel/Compiler/11.1/059/bin/intel64/icc option to accept ISO C89... none needed
checking how to run the C preprocessor... /opt/software/intel/Compiler/11.1/059/bin/intel64/icc -E
checking whether the compiler defines __func__... yes
checking whether the compiler defines __FUNC__... no
checking whether the compiler sets __FUNCTION__... yes
checking whether C compiler accepts option -O2... yes
checking whether routines compiled with -O2 can be linked with ones compiled without -O2... yes
checking for type of weak symbol alias support... pragma weak
checking whether __attribute__ ((weak)) allowed... yes
checking whether __attribute ((weak_import)) allowed... yes
checking for multiple weak symbol support... yes
checking for g77... no
checking for xlf... no
checking for f77... no
checking for frt... no
checking for pgf77... no
checking for cf77... no
checking for fort77... no
checking for fl32... no
checking for af77... no
checking for xlf90... no
checking for f90... no
checking for pgf90... no
checking for pghpf... no
checking for epcf90... no
checking for gfortran... gfortran
checking whether we are using the GNU Fortran 77 compiler... yes
checking whether gfortran accepts -g... yes
checking whether Fortran 77 compiler accepts option -O2... yes
checking whether routines compiled with -O2 can be linked with ones compiled without -O2... yes
checking how to get verbose linking output from gfortran... -v
checking for Fortran 77 libraries of gfortran...  -L/opt/software/intel/ipp/em64t/lib -L/opt/software/intel/tbb/intel64/cc4.1.0_libc2.4_kernel2.6.16.21/lib -L/opt/software/intel/mkl/10.2.2.025/lib/em64t -L/opt/software/intel/Compiler/11.1/059/lib/intel64 -L/usr/lib/gcc/x86_64-redhat-linux/4.1.2 -L/usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -lgfortranbegin -lgfortran -lm
checking whether gfortran accepts the FLIBS found by autoconf... yes
checking whether C can link with  -L/opt/software/intel/ipp/em64t/lib -L/opt/software/intel/tbb/intel64/cc4.1.0_libc2.4_kernel2.6.16.21/lib -L/opt/software/intel/mkl/10.2.2.025/lib/em64t -L/opt/software/intel/Compiler/11.1/059/lib/intel64 -L/usr/lib/gcc/x86_64-redhat-linux/4.1.2 -L/usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -lgfortranbegin -lgfortran -lm... yes
checking for linker for Fortran main programs... Use Fortran to link programs
checking whether Fortran 77 and C objects are compatible... yes
checking for Fortran 77 name mangling... lower underscore
checking what libraries are needed to link Fortran programs with C routines that use stdio... none
checking whether Fortran init will work with C... yes
checking whether Fortran accepts ! for comments... yes
checking for include directory flag for Fortran... -I
checking for Fortran 77 flag for library directories... -L
checking for which Fortran libraries are needed to link C with Fortran... none
checking whether Fortran compiler processes .F files with C preprocessor... yes
checking for g++... g++
checking whether we are using the GNU C++ compiler... yes
checking whether g++ accepts -g... yes
checking whether the C++ compiler g++ can build an executable... yes
checking whether C++ compiler works with string... yes
checking whether the compiler supports exceptions... yes
checking whether the compiler recognizes bool as a built-in type... yes
checking whether the compiler implements namespaces... yes
checking whether <iostream> available... yes
checking whether the compiler implements the namespace std... yes
checking whether <math> available... no
checking for GNU g++ version... 4 . 1
checking whether C++ compiler accepts option -O2... yes
checking whether routines compiled with -O2 can be linked with ones compiled without -O2... yes
checking for perl... /usr/bin/perl
checking for ar... ar
checking for ranlib... ranlib
checking for killall... killall
checking for a BSD-compatible install... /usr/bin/install -c
checking whether install works... yes
checking whether install breaks libraries... no
checking whether mkdir -p works... yes
checking for make... make
checking whether clock skew breaks make... no
checking whether make supports include... yes
checking whether make allows comments in actions... yes
checking for virtual path format... VPATH
checking whether make sets CFLAGS... no
checking for bash... /bin/bash
checking whether /bin/bash supports arrays... yes
checking for doctext... false
checking for location of doctext style files... unavailable
checking for an ANSI C-conforming const... yes
checking for working volatile... yes
checking for C/C++ restrict keyword... __restrict
checking for inline... inline
checking whether __attribute__ allowed... yes
checking whether __attribute__((format)) allowed... yes
checking whether byte ordering is bigendian... no
checking whether C compiler allows unaligned doubles... yes
checking whether /opt/software/intel/Compiler/11.1/059/bin/intel64/icc supports __func__... yes
Using gcc to determine dependencies
checking whether long double is supported... yes
checking whether long long is supported... yes
checking for max C struct integer alignment... eight
checking for max C struct floating point alignment... sixteen
checking for max C struct alignment of structs with doubles... eight
checking for max C struct floating point alignment with long doubles... sixteen
configure: WARNING: Structures containing long doubles may be aligned differently from structures with floats or longs.  MPICH2 does not handle this case automatically and you should avoid assumed extents for structures containing float types.
checking if alignment of structs with doubles is based on position... no
checking if alignment of structs with long long ints is based on position... no
checking if double alignment breaks rules, find actual alignment... no
checking for alignment restrictions on pointers... int or better
checking size of char... 1
checking size of unsigned char... 1
checking size of short... 2
checking size of unsigned short... 2
checking size of int... 4
checking size of unsigned int... 4
checking size of long... 8
checking size of unsigned long... 8
checking size of long long... 8
checking size of unsigned long long... 8
checking size of float... 4
checking size of double... 8
checking size of long double... 16
checking size of void *... 8
checking for ANSI C header files... no
checking stddef.h usability... yes
checking stddef.h presence... yes
checking for stddef.h... yes
checking size of wchar_t... 4
checking size of float_int... 8
checking size of double_int... 16
checking size of long_int... 16
checking size of short_int... 8
checking size of two_int... 8
checking size of long_double_int... 32
checking sys/bitypes.h usability... yes
checking sys/bitypes.h presence... yes
checking for sys/bitypes.h... yes
checking inttypes.h usability... yes
checking inttypes.h presence... yes
checking for inttypes.h... yes
checking stdint.h usability... yes
checking stdint.h presence... yes
checking for stdint.h... yes
checking for int8_t... yes
checking for int16_t... yes
checking for int32_t... yes
checking for int64_t... yes
checking for uint8_t... yes
checking for uint16_t... yes
checking for uint32_t... yes
checking for uint64_t... yes
checking size of _Bool... 1
checking size of float _Complex... 8
checking size of double _Complex... 16
checking size of long double _Complex... 32
checking for _Bool... yes
checking for float _Complex... yes
checking for double _Complex... yes
checking for long double _Complex... yes
checking for size of Fortran type integer... 4
checking for size of Fortran type real... 4
checking for size of Fortran type double precision... 8
checking whether integer*1 is supported... yes
checking whether integer*2 is supported... yes
checking whether integer*4 is supported... yes
checking whether integer*8 is supported... yes
checking whether integer*16 is supported... yes
checking whether real*4 is supported... yes
checking whether real*8 is supported... yes
checking whether real*16 is supported... no
checking for C type matching Fortran integer... int
checking for size of MPI_Status... 20
checking for values of Fortran logicals... True is 1 and False is 0
checking whether Fortran compiler is a Fortran 90 compiler... yes
checking for Fortran 90 integer kind for 8-byte integers... 8
checking whether real*8 is supported in Fortran 90... yes
checking size of bool... 1
checking how to run the C++ preprocessor... g++ -E
checking complex usability... yes
checking complex presence... yes
checking for complex... yes
checking size of Complex... 8
checking size of DoubleComplex... 16
checking size of LongDoubleComplex... 32
checking if char * pointers use byte addresses... yes
checking for alignment restrictions on ... no
checking for alignment restrictions on int32_t... no
checking size of MPIR_Bsend_data_t... 88
checking for gcc __asm__ and pentium cmpxchgl instruction... no
checking for gcc __asm__ and AMD x86_64 cmpxchgq instruction... yes
checking for gcc __asm__ and IA64 xchg4 instruction... no
checking for ANSI C header files... (cached) no
checking stdlib.h usability... yes
checking stdlib.h presence... yes
checking for stdlib.h... yes
checking stdarg.h usability... yes
checking stdarg.h presence... yes
checking for stdarg.h... yes
checking sys/types.h usability... yes
checking sys/types.h presence... yes
checking for sys/types.h... yes
checking string.h usability... yes
checking string.h presence... yes
checking for string.h... yes
checking for inttypes.h... (cached) yes
checking limits.h usability... yes
checking limits.h presence... yes
checking for limits.h... yes
checking for stddef.h... (cached) yes
checking errno.h usability... yes
checking errno.h presence... yes
checking for errno.h... yes
checking sys/socket.h usability... yes
checking sys/socket.h presence... yes
checking for sys/socket.h... yes
checking sys/time.h usability... yes
checking sys/time.h presence... yes
checking for sys/time.h... yes
checking unistd.h usability... yes
checking unistd.h presence... yes
checking for unistd.h... yes
checking endian.h usability... yes
checking endian.h presence... yes
checking for endian.h... yes
checking assert.h usability... yes
checking assert.h presence... yes
checking for assert.h... yes
checking sys/param.h usability... yes
checking sys/param.h presence... yes
checking for sys/param.h... yes
checking for sys/uio.h... yes
checking for size_t... yes
checking for setitimer... yes
checking for alarm... yes
checking for vsnprintf... yes
checking for vsprintf... yes
checking whether vsnprintf needs a declaration... yes
checking for strerror... yes
checking for strncasecmp... yes
checking for snprintf... yes
checking whether snprintf needs a declaration... yes
checking for va_copy... yes
checking for variable argument list macro functionality... yes
checking valgrind.h usability... no
checking valgrind.h presence... no
checking for valgrind.h... no
checking memcheck.h usability... no
checking memcheck.h presence... no
checking for memcheck.h... no
checking valgrind/valgrind.h usability... no
checking valgrind/valgrind.h presence... no
checking for valgrind/valgrind.h... no
checking valgrind/memcheck.h usability... no
checking valgrind/memcheck.h presence... no
checking for valgrind/memcheck.h... no
checking for working alloca.h... yes
checking for alloca... yes
checking for strdup... yes
checking whether strdup needs a declaration... yes
checking for mkstemp... yes
checking whether mkstemp needs a declaration... yes
checking for fdopen... yes
checking whether fdopen needs a declaration... yes
checking for putenv... yes
checking whether putenv needs a declaration... yes
checking for clock_gettime... no
checking for clock_getres... no
checking for gethrtime... no
checking for gettimeofday... yes
sourcing /home/fernando_luz/software/mpich2-1.2.1p1/src/mpid/ch3/setup_device
RUNNING SETUP_DEVICE FOR THE CH3 DEVICE
sourcing /home/fernando_luz/software/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/setup_channel
RUNNING SETUP_CHANNEL FOR THE NEMESIS CHANNEL
sourcing /home/fernando_luz/software/mpich2-1.2.1p1/src/mpid/common/locks/setup
RUNNING SETUP FOR THE PROCESS LOCKS MODULE
SPARC V9 inline spin locks supported...no
SPARC V8 inline spin locks supported...no
checking pthread.h usability... yes
checking pthread.h presence... yes
checking for pthread.h... yes
checking for fgrep... /bin/fgrep
checking for pthread_key_create in -lpthread... yes
checking for pthread_yield... yes
checking for pthread_key_create... yes
checking for pthread_cleanup_push... no
checking whether pthread_cleanup_push is available (may be a macro in pthread.h)... no
checking whether pthread.h defines PTHREAD_MUTEX_RECURSIVE_NP... yes
checking whether pthread.h defines PTHREAD_MUTEX_RECURSIVE... no
checking whether pthread.h defines PTHREAD_MUTEX_ERRORCHECK_NP... yes
checking whether pthread.h defines PTHREAD_MUTEX_ERRORCHECK... no
checking for sched_yield... yes
checking for yield... no
checking for usleep... yes
checking for sleep... yes
checking for select... yes
checking for getpid... yes
checking for sched_setaffinity... yes
checking for sched_getaffinity... yes
checking for bindprocessor... no
checking for thread_policy_set... no
checking whether cpu_set_t available... yes
checking whether the CPU_SET and CPU_ZERO macros are defined... no
configure: configuring subsystem in src/openpa
configure: WARNING: unrecognized options: --disable-f90, --enable-cxx, --with-pm, --with-pmi, --with-slurm
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for a thread-safe mkdir -p... mkdir -p
checking for gawk... gawk
checking whether make sets $(MAKE)... yes
checking for gcc... /opt/software/intel/Compiler/11.1/059/bin/intel64/icc
checking for C compiler default output file name... a.out
checking whether the C compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables... 
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether /opt/software/intel/Compiler/11.1/059/bin/intel64/icc accepts -g... yes
checking for /opt/software/intel/Compiler/11.1/059/bin/intel64/icc option to accept ISO C89... none needed
checking for style of include used by make... GNU
checking dependency style of /opt/software/intel/Compiler/11.1/059/bin/intel64/icc... gcc3
checking for ranlib... ranlib
checking whether to enable assertions... yes
checking how to run the C preprocessor... /opt/software/intel/Compiler/11.1/059/bin/intel64/icc -E
checking for grep that handles long lines and -e... /bin/grep
checking for egrep... /bin/grep -E
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking pthread.h usability... yes
checking pthread.h presence... yes
checking for pthread.h... yes
checking atomic.h usability... no
checking atomic.h presence... no
checking for atomic.h... no
checking intrin.h usability... no
checking intrin.h presence... no
checking for intrin.h... no
checking for inttypes.h... (cached) yes
checking for stdint.h... (cached) yes
checking for C/C++ restrict keyword... __restrict
checking for inline... inline
checking for an ANSI C-conforming const... yes
checking for pthread_create in -lpthread... yes
checking for pthread_yield... yes
checking if 100 threads can be run at once... yes
checking size of void *... 8
checking size of int... 4
checking whether __attribute__ allowed... yes
checking whether __attribute__((format)) allowed... yes
checking if compiler rejects bogus asm statements... yes
checking for support for gcc x86/x86_64 bit primitives... yes
checking for support for gcc x86 bit primitives for pre-Pentium 4... yes
checking for support for gcc ia64 primitives... no
checking for support for gcc PowerPC atomics... no
checking for support for gcc SiCortex atomics... no
checking for support for gcc atomic intrinsics... yes
checking for support for Windows NT atomic intrinsics... no
checking for support for Sun atomic operations library... no
checking whether to enable strict fairness checks... no
configure: creating ./config.status
config.status: creating Makefile
config.status: creating src/Makefile
config.status: creating test/Makefile
config.status: creating openpa.pc
config.status: creating src/config.h
config.status: executing src/opa_config.h commands
config.status: creating src/opa_config.h - prefix OPA for src/config.h defines
config.status: executing depfiles commands
configure: WARNING: unrecognized options: --disable-f90, --enable-cxx, --with-pm, --with-pmi, --with-slurm
configure: configuring subsystem in src/mpid/ch3
RUNNING CONFIGURE FOR CH3 DEVICE
checking for make... make
checking whether clock skew breaks make... no
checking whether make supports include... yes
checking whether make allows comments in actions... yes
checking for virtual path format... VPATH
checking whether make sets CFLAGS... yes
checking for gcc... /opt/software/intel/Compiler/11.1/059/bin/intel64/icc
checking for C compiler default output file name... a.out
checking whether the C compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables... 
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether /opt/software/intel/Compiler/11.1/059/bin/intel64/icc accepts -g... yes
checking for /opt/software/intel/Compiler/11.1/059/bin/intel64/icc option to accept ISO C89... none needed
checking how to run the C preprocessor... /opt/software/intel/Compiler/11.1/059/bin/intel64/icc -E
checking for grep that handles long lines and -e... /bin/grep
checking for egrep... /bin/grep -E
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
16
checking assert.h usability... yes
checking assert.h presence... yes
checking for assert.h... yes
checking limits.h usability... yes
checking limits.h presence... yes
checking for limits.h... yes
checking for string.h... (cached) yes
checking for sys/types.h... (cached) yes
checking sys/uio.h usability... yes
checking sys/uio.h presence... yes
checking for sys/uio.h... yes
checking uuid/uuid.h usability... yes
checking uuid/uuid.h presence... yes
checking for uuid/uuid.h... yes
checking time.h usability... yes
checking time.h presence... yes
checking for time.h... yes
checking ctype.h usability... yes
checking ctype.h presence... yes
checking for ctype.h... yes
checking for unistd.h... (cached) yes
checking arpa/inet.h usability... yes
checking arpa/inet.h presence... yes
checking for arpa/inet.h... yes
checking sys/socket.h usability... yes
checking sys/socket.h presence... yes
checking for sys/socket.h... yes
checking for net/if.h... yes
checking for pid_t... yes
checking for inet_pton... yes
checking for gethostname... yes
checking whether gethostname needs a declaration... yes
checking for CFUUIDCreate... no
checking for uuid_generate... no
checking for time... yes
checking whether CPP accepts variable length argument lists... yes
checking whether byte ordering is bigendian... no
checking whether we can use struct ifconf... yes
checking size of int... 4
checking size of long... 8
checking size of long long... 8
checking size of void *... 8
configure: creating ./config.status
config.status: creating Makefile
config.status: creating src/Makefile
config.status: creating util/Makefile
config.status: creating util/shm/Makefile
config.status: creating util/shmbase/Makefile
config.status: creating channels/Makefile
config.status: creating util/ftb/Makefile
config.status: creating localdefs
config.status: creating include/mpid_thread.h
config.status: creating include/mpidi_ch3_conf.h
config.status: include/mpidi_ch3_conf.h is unchanged
config.status: executing default-1 commands
copying ./../common/thread/mpid_thread_mpe.c to src/mpid_thread.c
=== configuring in channels/nemesis (/home/fernando_luz/software/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis)
configure: running /bin/sh ./configure --disable-option-checking '--prefix=/home/fernando_luz/mpich2-install'  'CC=/opt/software/intel/Compiler/11.1/059/bin/intel64/icc' '--disable-f90' '--enable-cxx' '--with-pm=no' '--with-pmi=slurm' '--with-slurm=/opt/software/slurm' '--with-atomic-primitives=auto_allow_emulation' 'CFLAGS= -O2' 'LIBS= -lpthread' 'CPPFLAGS= -I/home/fernando_luz/software/mpich2-1.2.1p1/src/openpa/src -I/home/fernando_luz/software/mpich2-1.2.1p1/src/openpa/src -DUSE_PROCESS_LOCKS' --cache-file=/dev/null --srcdir=.
RUNNING CONFIGURE FOR THE NEMESIS CHANNEL
checking for make... make
checking whether clock skew breaks make... no
checking whether make supports include... yes
checking whether make allows comments in actions... yes
checking for virtual path format... VPATH
checking whether make sets CFLAGS... yes
checking for gcc... /opt/software/intel/Compiler/11.1/059/bin/intel64/icc
checking for C compiler default output file name... a.out
checking whether the C compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables... 
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether /opt/software/intel/Compiler/11.1/059/bin/intel64/icc accepts -g... yes
checking for /opt/software/intel/Compiler/11.1/059/bin/intel64/icc option to accept ISO C89... none needed
checking for inline... inline
checking how to run the C preprocessor... /opt/software/intel/Compiler/11.1/059/bin/intel64/icc -E
checking for grep that handles long lines and -e... /bin/grep
checking for egrep... /bin/grep -E
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking for pid_t... yes
checking for net/if.h... yes
checking assert.h usability... yes
checking assert.h presence... yes
checking for assert.h... yes
checking netdb.h usability... yes
checking netdb.h presence... yes
checking for netdb.h... yes
checking for unistd.h... (cached) yes
checking sched.h usability... yes
checking sched.h presence... yes
checking for sched.h... yes
checking sys/mman.h usability... yes
checking sys/mman.h presence... yes
checking for sys/mman.h... yes
checking sys/ioctl.h usability... yes
checking sys/ioctl.h presence... yes
checking for sys/ioctl.h... yes
checking sys/socket.h usability... yes
checking sys/socket.h presence... yes
checking for sys/socket.h... yes
checking sys/sockio.h usability... no
checking sys/sockio.h presence... no
checking for sys/sockio.h... no
checking for sys/types.h... (cached) yes
checking errno.h usability... yes
checking errno.h presence... yes
checking for errno.h... yes
checking sys/ipc.h usability... yes
checking sys/ipc.h presence... yes
checking for sys/ipc.h... yes
checking sys/shm.h usability... yes
checking sys/shm.h presence... yes
checking for sys/shm.h... yes
checking for netinet/in.h... yes
checking for mkstemp... yes
checking for rand... yes
checking for srand... yes
checking for OpenPA atomic primitive availability... yes
checking for mmap... yes
checking for munmap... yes
configure: Using a memory-mapped file for shared memory
checking whether struct hostent contains h_addr_list... yes
checking whether we can use struct ifconf... yes
checking knem_io.h usability... no
checking knem_io.h presence... no
checking for knem_io.h... no
configure: creating ./config.status
config.status: creating Makefile
config.status: creating src/Makefile
config.status: creating nemesis/Makefile
config.status: creating nemesis/src/Makefile
config.status: creating nemesis/utils/Makefile
config.status: creating nemesis/utils/replacements/Makefile
config.status: creating nemesis/utils/monitor/Makefile
config.status: creating nemesis/netmod/Makefile
config.status: creating nemesis/netmod/elan/Makefile
config.status: creating nemesis/netmod/gm/Makefile
config.status: creating nemesis/netmod/mx/Makefile
config.status: creating nemesis/netmod/tcp/Makefile
config.status: creating nemesis/netmod/ib/Makefile
config.status: creating nemesis/netmod/psm/Makefile
config.status: creating nemesis/netmod/newmad/Makefile
config.status: creating nemesis/netmod/none/Makefile
config.status: creating localdefs
config.status: creating nemesis/include/mpid_nem_net_module_defs.h
config.status: creating nemesis/src/mpid_nem_net_array.c
config.status: creating include/mpidi_ch3i_nemesis_conf.h
config.status: include/mpidi_ch3i_nemesis_conf.h is unchanged
configure: configuring subsystem in src/mpid/common/locks
configure: WARNING: unrecognized options: --disable-f90, --enable-cxx, --with-pm, --with-pmi, --with-slurm, --with-atomic-primitives
RUNNING CONFIGURE FOR LOCKS
checking for make... make
checking whether clock skew breaks make... no
checking whether make supports include... yes
checking whether make allows comments in actions... yes
checking for virtual path format... VPATH
checking whether make sets CFLAGS... yes
checking for ar... ar
checking for ranlib... ranlib
checking for gcc... /opt/software/intel/Compiler/11.1/059/bin/intel64/icc
checking for C compiler default output file name... a.out
checking whether the C compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables... 
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether /opt/software/intel/Compiler/11.1/059/bin/intel64/icc accepts -g... yes
checking for /opt/software/intel/Compiler/11.1/059/bin/intel64/icc option to accept ISO C89... none needed
checking for yield... no
checking for sched_yield... yes
checking for usleep... yes
checking for sleep... yes
checking for select... yes
checking for mutex_init... no
checking for compare_and_swap... no
checking for pthread_mutexattr_init... yes
checking for pthread_mutexattr_setpshared... yes
checking how to run the C preprocessor... /opt/software/intel/Compiler/11.1/059/bin/intel64/icc -E
checking for grep that handles long lines and -e... /bin/grep
checking for egrep... /bin/grep -E
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking pthread.h usability... yes
checking pthread.h presence... yes
checking for pthread.h... yes
checking sched.h usability... yes
checking sched.h presence... yes
checking for sched.h... yes
checking for inline... inline
checking for working volatile... yes
checking for an ANSI C-conforming const... yes
configure: creating ./config.status
config.status: creating Makefile
config.status: creating mpid_locksconf.h
config.status: mpid_locksconf.h is unchanged
configure: WARNING: unrecognized options: --disable-f90, --enable-cxx, --with-pm, --with-pmi, --with-slurm, --with-atomic-primitives
configure: configuring subsystem in src/mpid/common/locks
configure: WARNING: unrecognized options: --disable-f90, --enable-cxx, --with-pm, --with-pmi, --with-slurm, --with-atomic-primitives
RUNNING CONFIGURE FOR LOCKS
checking for make... make
checking whether clock skew breaks make... no
checking whether make supports include... yes
checking whether make allows comments in actions... yes
checking for virtual path format... VPATH
checking whether make sets CFLAGS... yes
checking for ar... ar
checking for ranlib... ranlib
checking for gcc... /opt/software/intel/Compiler/11.1/059/bin/intel64/icc
checking for C compiler default output file name... a.out
checking whether the C compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables... 
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether /opt/software/intel/Compiler/11.1/059/bin/intel64/icc accepts -g... yes
checking for /opt/software/intel/Compiler/11.1/059/bin/intel64/icc option to accept ISO C89... none needed
checking for yield... no
checking for sched_yield... yes
checking for usleep... yes
checking for sleep... yes
checking for select... yes
checking for mutex_init... no
checking for compare_and_swap... no
checking for pthread_mutexattr_init... yes
checking for pthread_mutexattr_setpshared... yes
checking how to run the C preprocessor... /opt/software/intel/Compiler/11.1/059/bin/intel64/icc -E
checking for grep that handles long lines and -e... /bin/grep
checking for egrep... /bin/grep -E
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking pthread.h usability... yes
checking pthread.h presence... yes
checking for pthread.h... yes
checking sched.h usability... yes
checking sched.h presence... yes
checking for sched.h... yes
checking for inline... inline
checking for working volatile... yes
checking for an ANSI C-conforming const... yes
configure: creating ./config.status
config.status: creating Makefile
config.status: creating mpid_locksconf.h
config.status: mpid_locksconf.h is unchanged
configure: WARNING: unrecognized options: --disable-f90, --enable-cxx, --with-pm, --with-pmi, --with-slurm, --with-atomic-primitives
configure: configuring subsystem in src/mpi/romio
configure: WARNING: unrecognized options: --enable-cxx, --with-pm, --with-pmi, --with-slurm, --with-atomic-primitives
Configuring with args --prefix=/home/fernando_luz/mpich2-install CC=/opt/software/intel/Compiler/11.1/059/bin/intel64/icc --disable-f90 --enable-cxx --with-pm=no --with-pmi=slurm --with-slurm=/opt/software/slurm --with-atomic-primitives=auto_allow_emulation
checking for architecture... LINUX
ROMIO home directory is /home/fernando_luz/software/mpich2-1.2.1p1/src/mpi/romio
checking for gcc... /opt/software/intel/Compiler/11.1/059/bin/intel64/icc
checking for C compiler default output file name... a.out
checking whether the C compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables... 
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether /opt/software/intel/Compiler/11.1/059/bin/intel64/icc accepts -g... yes
checking for /opt/software/intel/Compiler/11.1/059/bin/intel64/icc option to accept ISO C89... none needed
checking whether we are using the GNU Fortran 77 compiler... yes
checking whether gfortran accepts -g... yes
checking how to run the C preprocessor... /opt/software/intel/Compiler/11.1/059/bin/intel64/icc -E
checking for memalign... yes
checking Fortran external names
Fortran externals have a trailing underscore and are lowercase
checking for inline... inline
checking how to run the C preprocessor... /opt/software/intel/Compiler/11.1/059/bin/intel64/icc -E
checking for grep that handles long lines and -e... /bin/grep
checking for egrep... /bin/grep -E
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking for unistd.h... (cached) yes
checking fcntl.h usability... yes
checking fcntl.h presence... yes
checking for fcntl.h... yes
checking malloc.h usability... yes
checking malloc.h presence... yes
checking for malloc.h... yes
checking stddef.h usability... yes
checking stddef.h presence... yes
checking for stddef.h... yes
checking for sys/types.h... (cached) yes
checking for u_char... yes
checking for u_short... yes
checking for u_int... yes
checking for u_long... yes
checking sys/attr.h usability... no
checking sys/attr.h presence... no
checking for sys/attr.h... no
checking size of int... 4
checking size of void *... 8
checking for int large enough for pointers... no
checking size of long long... 8
checking that we can use integer*8 to declare MPI_DISPLACMENT_CURRENT... yes
Overriding Array test for MPICH2
checking for weak symbol support... pragma weak
checking that weak symbols are visible to other files... yes
checking that the compiler correctly implements weak symbols... yes
checking whether struct flock compatible with MPI_Offset... yes
checking for pvfs2-config... notfound
checking configured file systems... testfs ufs nfs
configure: WARNING: File locks may not work with NFS.  See the Installation and
users manual for instructions on testing and if necessary fixing this
checking for library containing aio_write... -lrt
checking signal.h usability... yes
checking signal.h presence... yes
checking for signal.h... yes
checking if aio.h exists and can be compiled... yes
checking if sys/aio.h exists and can be compiled... no
checking whether aio routines can be used... yes
checking for obsolete two-argument aio_write... no
checking for obsolete two-argument aio_suspend... no
checking for aio_fildes member of aiocb structure... yes
checking for aio_whence member of aiocb structure... no
checking for aio_handle member of aiocb structure... no
checking for aio_reqprio member of aiocb structure... yes
checking for aio_sigevent member of aiocb structure... yes
checking sys/vfs.h usability... yes
checking sys/vfs.h presence... yes
checking for sys/vfs.h... yes
checking sys/param.h usability... yes
checking sys/param.h presence... yes
checking for sys/param.h... yes
checking sys/mount.h usability... yes
checking sys/mount.h presence... yes
checking for sys/mount.h... yes
checking sys/statvfs.h usability... yes
checking sys/statvfs.h presence... yes
checking for sys/statvfs.h... yes
checking whether struct statfs properly defined... yes
checking for f_fstypename member of statfs structure... no
checking for sys/stat.h... (cached) yes
checking for sys/types.h... (cached) yes
checking for unistd.h... (cached) yes
checking for stat... yes
checking for st_fstype member of stat structure... no
checking for sys/types.h... (cached) yes
checking for sys/statvfs.h... (cached) yes
checking for sys/vfs.h... (cached) yes
checking for statvfs... yes
checking for f_basetype member of statvfs structure... no
checking for unistd.h... (cached) yes
checking for large file defines... yes
checking whether off64_t is an scalar type... yes
checking for strerror... yes
checking for doctext... false
checking for strdup... yes
checking whether strdup needs a declaration... no
checking for snprintf... yes
checking whether snprintf needs a declaration... no
checking for lstat... yes
checking whether lstat needs a declaration... yes
checking for readlink... yes
checking whether readlink needs a declaration... no
checking for fsync... yes
checking whether fsync needs a declaration... no
checking for ftruncate... yes
checking whether ftruncate needs a declaration... no
checking for lseek64... yes
checking whether lseek64 needs a declaration... no
checking for unistd.h... (cached) yes
checking for large file defines... yes
setting SYSDEP_INC to 
checking for C/C++ restrict keyword... __restrict
checking whether __attribute__ allowed... yes
checking whether __attribute__((format)) allowed... yes
setting CC to /opt/software/intel/Compiler/11.1/059/bin/intel64/icc
setting F77 to gfortran
setting TEST_CC to /home/fernando_luz/software/mpich2-1.2.1p1/bin/mpicc
setting TEST_F77 to /home/fernando_luz/software/mpich2-1.2.1p1/bin/mpif77
setting CFLAGS to  -O2  -DFORTRANUNDERSCORE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -DHAVE_ROMIOCONF_H -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64
setting USER_CFLAGS to 
setting USER_FFLAGS to 
configure: creating ./config.status
config.status: creating Makefile
config.status: creating localdefs
config.status: creating mpi-io/Makefile
config.status: creating mpi2-other/info/Makefile
config.status: creating mpi2-other/array/Makefile
config.status: creating adio/common/Makefile
config.status: creating test/Makefile
config.status: creating test/misc.c
config.status: creating test/large_file.c
config.status: creating test/runtests
config.status: creating test-internal/Makefile
config.status: creating util/romioinstall
config.status: creating include/mpio.h
config.status: creating include/mpiof.h
config.status: creating adio/ad_nfs/Makefile
config.status: creating adio/ad_ufs/Makefile
config.status: creating adio/ad_bgl/Makefile
config.status: creating adio/ad_bglockless/Makefile
config.status: creating adio/ad_panfs/Makefile
config.status: creating adio/ad_xfs/Makefile
config.status: creating adio/ad_sfs/Makefile
config.status: creating adio/ad_pfs/Makefile
config.status: creating adio/ad_testfs/Makefile
config.status: creating adio/ad_pvfs/Makefile
config.status: creating adio/ad_pvfs2/Makefile
config.status: creating adio/ad_gridftp/Makefile
config.status: creating adio/ad_lustre/Makefile
config.status: creating adio/ad_zoidfs/Makefile
config.status: creating mpi-io/fortran/Makefile
config.status: creating mpi2-other/info/fortran/Makefile
config.status: creating mpi2-other/array/fortran/Makefile
config.status: creating test/fmisc.f
config.status: creating test/fcoll_test.f
config.status: creating test/pfcoll_test.f
config.status: creating test/fperf.f
config.status: creating mpi-io/glue/mpich2/Makefile
config.status: creating mpi-io/glue/mpich1/Makefile
config.status: creating mpi-io/glue/default/Makefile
config.status: creating common/dataloop/Makefile
config.status: creating adio/include/romioconf.h
config.status: executing default-1 commands
configure: WARNING: unrecognized options: --enable-cxx, --with-pm, --with-pmi, --with-slurm, --with-atomic-primitives
configure: configuring subsystem in src/pmi/slurm
configure: WARNING: unrecognized options: --disable-f90, --enable-cxx, --with-pm, --with-pmi, --with-atomic-primitives
RUNNING CONFIGURE FOR THE SLURM PMI
checking for make... make
checking whether clock skew breaks make... no
checking whether make supports include... yes
checking whether make allows comments in actions... yes
checking for virtual path format... VPATH
checking whether make sets CFLAGS... yes
checking for gcc... /opt/software/intel/Compiler/11.1/059/bin/intel64/icc
checking for C compiler default output file name... a.out
checking whether the C compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables... 
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether /opt/software/intel/Compiler/11.1/059/bin/intel64/icc accepts -g... yes
checking for /opt/software/intel/Compiler/11.1/059/bin/intel64/icc option to accept ISO C89... none needed
checking how to run the C preprocessor... /opt/software/intel/Compiler/11.1/059/bin/intel64/icc -E
checking for grep that handles long lines and -e... /bin/grep
checking for egrep... /bin/grep -E
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking slurm/pmi.h usability... yes
checking slurm/pmi.h presence... yes
checking for slurm/pmi.h... yes
checking for PMI_Init in -lpmi... yes
configure: creating ./config.status
config.status: creating localdefs
config.status: creating pmiconf.h
config.status: pmiconf.h is unchanged
configure: WARNING: unrecognized options: --disable-f90, --enable-cxx, --with-pm, --with-pmi, --with-atomic-primitives
configure: creating ./config.status
config.status: creating localdefs
config.status: creating Makefile
config.status: creating pmiconf.h
config.status: pmiconf.h is unchanged
configure: WARNING: unrecognized options: --disable-f90, --enable-cxx, --with-pm, --with-pmi, --with-atomic-primitives
configure: configuring subsystem in src/mpe2
Configuring MPE Profiling System with  '--prefix=/home/fernando_luz/mpich2-install' 'CC=/opt/software/intel/Compiler/11.1/059/bin/intel64/icc' '--disable-f90' '--enable-cxx' '--with-pm=no' '--with-pmi=slurm' '--with-slurm=/opt/software/slurm' '--with-atomic-primitives=auto_allow_emulation' 'MPI_CC=/home/fernando_luz/software/mpich2-1.2.1p1/bin/mpicc' 'MPI_F77=/home/fernando_luz/software/mpich2-1.2.1p1/bin/mpif77' 'CFLAGS= -O2' 'LDFLAGS=-L/opt/software/slurm/lib ' 'LIBS= -lpmi   -lpthread   -lrt ' 'CPPFLAGS=-I/opt/software/slurm/include  -I/home/fernando_luz/software/mpich2-1.2.1p1/src/openpa/src -I/home/fernando_luz/software/mpich2-1.2.1p1/src/openpa/src -DUSE_PROCESS_LOCKS' 'F77=gfortran' 'FFLAGS= -O2'
checking for current directory name... /home/fernando_luz/software/mpich2-1.2.1p1/src/mpe2
checking gnumake... yes using --no-print-directory
checking BSD 4.4 make... no - whew
checking OSF V3 make... no
checking for virtual path format... VPATH
This MPE build is part of the MPICH2 build
checking for leftover Makefiles in subpackages ... none 
checking for gcc... /opt/software/intel/Compiler/11.1/059/bin/intel64/icc
checking for C compiler default output file name... a.out
checking whether the C compiler works... configure: error: in `/home/fernando_luz/software/mpich2-1.2.1p1/src/mpe2':
configure: error: cannot run C compiled programs.
If you meant to cross compile, use `--host'.
See `config.log' for more details.
configure: error: Configure of src/mpe2 failed!
-------------- next part --------------
A non-text attachment was scrubbed...
Name: config.log
Type: text/x-log
Size: 281612 bytes
Desc: not available
URL: <http://lists.mcs.anl.gov/pipermail/mpich-discuss/attachments/20100607/a7b1bd1d/attachment-0001.bin>