[mvapich-discuss] Configure error confdefs.h

Hoot Thompson hoot at ptpnow.com
Mon Jun 6 17:34:01 EDT 2011 

Good stuff, thanks! I'm actually using the new Intel NICs that support
SR-IOV. My goal is to test base metal versus VMs.

Hoot


On 6/6/11 5:27 PM, "Jonathan Perkins" <perkinjo at cse.ohio-state.edu> wrote:

> If you just want to build and run the benchmarks against mpich2 you
> should be able to grab the benchmarks from
> http://mvapich.cse.ohio-state.edu/benchmarks/osu-micro-benchmarks-3.3.tar.gz
> and build with the following steps.
> 
> ./configure CC=/path/to/mpich2/mpicc
> make
> 
> You can also build mvapich2 for TCP (10GE) by using
> --with-device=ch3:nemesis:tcp.  Please note that you are able to use
> the default build of mvapich2 via iWARP if you are using 10GE cards
> that support RDMA (eg, Chelsio or NetEffect cards).
> 
> Please refer to the following links from our user guide for more
> information on this.
> 
> http://mvapich.cse.ohio-state.edu/support/user_guide_mvapich2-1.7_alpha2.html#
> x1-140004.5
> http://mvapich.cse.ohio-state.edu/support/user_guide_mvapich2-1.7_alpha2.html#
> x1-290005.2.6
> 
> On Mon, Jun 6, 2011 at 5:17 PM, Hoot Thompson <hoot at ptpnow.com> wrote:
>> My apologies for the confusion, yes am I just trying to compile the
>> benchmarks and run them using mpich2. I may be exposing my naivety but I'm
>> wanting to run the benchmarks over 10GE not IB. mpich2 is installed and
>> working. Is there a way to build mvapich2 without IB?
>> 
>> 
>> On 6/6/11 5:10 PM, "Jonathan Perkins" <perkinjo at cse.ohio-state.edu> wrote:
>> 
>>> This is the config.log for the osu micro benchmarks.  Did mvapich2
>>> configure and build successfully?  It looks like mvapich2 was built
>>> with checkpoint/restart support but ``libcr'' is not being found when
>>> trying to compile the benchmarks.
>>> 
>>> Please let me know what it is that you're compiling and the steps that
>>> you've used.  Thanks.
>>> 
>>> On Mon, Jun 6, 2011 at 5:05 PM, Hoot Thompson <hoot at ptpnow.com> wrote:
>>>> This file contains any messages produced by compilers while
>>>> running configure, to aid debugging if configure makes a mistake.
>>>> 
>>>> It was created by OSU-Micro-Benchmarks configure 3.3, which was
>>>> generated by GNU Autoconf 2.65.  Invocation command line was
>>>> 
>>>>   $ ./configure
>>>> 
>>>> ## --------- ##
>>>> ## Platform. ##
>>>> ## --------- ##
>>>> 
>>>> hostname = ubuntu-1
>>>> uname -m = x86_64
>>>> uname -r = 2.6.38-8-server
>>>> uname -s = Linux
>>>> uname -v = #42-Ubuntu SMP Mon Apr 11 03:49:04 UTC 2011
>>>> 
>>>> /usr/bin/uname -p = unknown
>>>> /bin/uname -X     = unknown
>>>> 
>>>> /bin/arch              = unknown
>>>> /usr/bin/arch -k       = unknown
>>>> /usr/convex/getsysinfo = unknown
>>>> /usr/bin/hostinfo      = unknown
>>>> /bin/machine           = unknown
>>>> /usr/bin/oslevel       = unknown
>>>> /bin/universe          = unknown
>>>> 
>>>> PATH: /usr/local/sbin
>>>> PATH: /usr/local/bin
>>>> PATH: /usr/sbin
>>>> PATH: /usr/bin
>>>> PATH: /sbin
>>>> PATH: /bin
>>>> PATH: /usr/games
>>>> 
>>>> 
>>>> ## ----------- ##
>>>> ## Core tests. ##
>>>> ## ----------- ##
>>>> 
>>>> configure:2154: checking for a BSD-compatible install
>>>> configure:2222: result: /usr/bin/install -c
>>>> configure:2233: checking whether build environment is sane
>>>> configure:2283: result: yes
>>>> configure:2424: checking for a thread-safe mkdir -p
>>>> configure:2463: result: /bin/mkdir -p
>>>> configure:2476: checking for gawk
>>>> configure:2506: result: no
>>>> configure:2476: checking for mawk
>>>> configure:2492: found /usr/bin/mawk
>>>> configure:2503: result: mawk
>>>> configure:2514: checking whether make sets $(MAKE)
>>>> configure:2536: result: yes
>>>> configure:2672: checking for mpicc
>>>> configure:2688: found /usr/bin/mpicc
>>>> configure:2699: result: mpicc
>>>> configure:2730: checking for C compiler version
>>>> configure:2739: mpicc --version >&5
>>>> gcc (Ubuntu/Linaro 4.5.2-8ubuntu4) 4.5.2
>>>> Copyright (C) 2010 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:2750: $? = 0
>>>> configure:2739: mpicc -v >&5
>>>> mpicc for MPICH2 version 1.3.1
>>>> Using built-in specs.
>>>> COLLECT_GCC=gcc
>>>> COLLECT_LTO_WRAPPER=/usr/lib/x86_64-linux-gnu/gcc/x86_64-linux-gnu/4.5.2/lt
>>>> o-
>>>> wrapper
>>>> Target: x86_64-linux-gnu
>>>> Configured with: ../src/configure -v --with-pkgversion='Ubuntu/Linaro
>>>> 4.5.2-8ubuntu4' --with-bugurl=file:///usr/share/doc/gcc-4.5/README.Bugs
>>>> --enable-languages=c,c++,fortran,objc,obj-c++ --prefix=/usr
>>>> --program-suffix=-4.5 --enable-shared --enable-multiarch
>>>> --with-multiarch-defaults=x86_64-linux-gnu --enable-linker-build-id
>>>> --with-system-zlib --libexecdir=/usr/lib/x86_64-linux-gnu
>>>> --without-included-gettext --enable-threads=posix
>>>> --with-gxx-include-dir=/usr/include/c++/4.5
>>>> --libdir=/usr/lib/x86_64-linux-gnu --enable-nls --with-sysroot=/
>>>> --enable-clocale=gnu --enable-libstdcxx-debug --enable-libstdcxx-time=yes
>>>> --enable-plugin --enable-gold --enable-ld=default --with-plugin-ld=ld.gold
>>>> --enable-objc-gc --disable-werror --with-arch-32=i686 --with-tune=generic
>>>> --enable-checking=release --build=x86_64-linux-gnu --host=x86_64-linux-gnu
>>>> --target=x86_64-linux-gnu
>>>> Thread model: posix
>>>> gcc version 4.5.2 (Ubuntu/Linaro 4.5.2-8ubuntu4)
>>>> configure:2750: $? = 0
>>>> configure:2739: mpicc -V >&5
>>>> gcc: '-V' must come at the start of the command line
>>>> configure:2750: $? = 1
>>>> configure:2739: mpicc -qversion >&5
>>>> gcc: unrecognized option '-qversion'
>>>> /usr/bin/ld: cannot find -lcr
>>>> collect2: ld returned 1 exit status
>>>> configure:2750: $? = 1
>>>> configure:2770: checking whether the C compiler works
>>>> configure:2792: mpicc    conftest.c  >&5
>>>> /usr/bin/ld: cannot find -lcr
>>>> collect2: ld returned 1 exit status
>>>> configure:2796: $? = 1
>>>> configure:2834: result: no
>>>> configure: failed program was:
>>>> | /* confdefs.h */
>>>> | #define PACKAGE_NAME "OSU-Micro-Benchmarks"
>>>> | #define PACKAGE_TARNAME "osu-micro-benchmarks"
>>>> | #define PACKAGE_VERSION "3.3"
>>>> | #define PACKAGE_STRING "OSU-Micro-Benchmarks 3.3"
>>>> | #define PACKAGE_BUGREPORT "mvapich-discuss at cse.ohio-state.edu"
>>>> | #define PACKAGE_URL ""
>>>> | #define PACKAGE "osu-micro-benchmarks"
>>>> | #define VERSION "3.3"
>>>> | /* end confdefs.h.  */
>>>> |
>>>> | int
>>>> | main ()
>>>> | {
>>>> |
>>>> |   ;
>>>> |   return 0;
>>>> | }
>>>> configure:2839: error: in
>>>> `/home/hoot/mpistuff/osu/osu-micro-benchmarks-3.3':
>>>> configure:2843: error: C compiler cannot create executables
>>>> See `config.log' for more details.
>>>> 
>>>> ## ---------------- ##
>>>> ## Cache variables. ##
>>>> ## ---------------- ##
>>>> 
>>>> ac_cv_env_CC_set=
>>>> ac_cv_env_CC_value=
>>>> ac_cv_env_CFLAGS_set=
>>>> ac_cv_env_CFLAGS_value=
>>>> ac_cv_env_CPPFLAGS_set=
>>>> ac_cv_env_CPPFLAGS_value=
>>>> ac_cv_env_CPP_set=
>>>> ac_cv_env_CPP_value=
>>>> ac_cv_env_LDFLAGS_set=
>>>> ac_cv_env_LDFLAGS_value=
>>>> ac_cv_env_LIBS_set=
>>>> ac_cv_env_LIBS_value=
>>>> ac_cv_env_build_alias_set=
>>>> ac_cv_env_build_alias_value=
>>>> ac_cv_env_host_alias_set=
>>>> ac_cv_env_host_alias_value=
>>>> ac_cv_env_target_alias_set=
>>>> ac_cv_env_target_alias_value=
>>>> ac_cv_path_install='/usr/bin/install -c'
>>>> ac_cv_path_mkdir=/bin/mkdir
>>>> ac_cv_prog_AWK=mawk
>>>> ac_cv_prog_ac_ct_CC=mpicc
>>>> ac_cv_prog_make_make_set=yes
>>>> 
>>>> ## ----------------- ##
>>>> ## Output variables. ##
>>>> ## ----------------- ##
>>>> 
>>>> ACLOCAL='${SHELL} /home/hoot/mpistuff/osu/osu-micro-benchmarks-3.3/missing
>>>> --run aclocal-1.11'
>>>> AMDEPBACKSLASH=''
>>>> AMDEP_FALSE=''
>>>> AMDEP_TRUE=''
>>>> AMTAR='${SHELL} /home/hoot/mpistuff/osu/osu-micro-benchmarks-3.3/missing
>>>> --run tar'
>>>> AUTOCONF='${SHELL} /home/hoot/mpistuff/osu/osu-micro-benchmarks-3.3/missing
>>>> --run autoconf'
>>>> AUTOHEADER='${SHELL}
>>>> /home/hoot/mpistuff/osu/osu-micro-benchmarks-3.3/missing --run autoheader'
>>>> AUTOMAKE='${SHELL} /home/hoot/mpistuff/osu/osu-micro-benchmarks-3.3/missing
>>>> --run automake-1.11'
>>>> AWK='mawk'
>>>> CC='mpicc'
>>>> CCDEPMODE=''
>>>> CFLAGS=''
>>>> CPP=''
>>>> CPPFLAGS=''
>>>> CYGPATH_W='echo'
>>>> DEFS=''
>>>> DEPDIR=''
>>>> ECHO_C=''
>>>> ECHO_N='-n'
>>>> ECHO_T=''
>>>> EGREP=''
>>>> EXEEXT=''
>>>> GREP=''
>>>> INSTALL_DATA='${INSTALL} -m 644'
>>>> INSTALL_PROGRAM='${INSTALL}'
>>>> INSTALL_SCRIPT='${INSTALL}'
>>>> INSTALL_STRIP_PROGRAM='$(install_sh) -c -s'
>>>> LDFLAGS=''
>>>> LIBOBJS=''
>>>> LIBS=''
>>>> LTLIBOBJS=''
>>>> MAKEINFO='${SHELL} /home/hoot/mpistuff/osu/osu-micro-benchmarks-3.3/missing
>>>> --run makeinfo'
>>>> MKDIR_P='/bin/mkdir -p'
>>>> MPI2_LIBRARY_FALSE=''
>>>> MPI2_LIBRARY_TRUE=''
>>>> OBJEXT=''
>>>> PACKAGE='osu-micro-benchmarks'
>>>> PACKAGE_BUGREPORT='mvapich-discuss at cse.ohio-state.edu'
>>>> PACKAGE_NAME='OSU-Micro-Benchmarks'
>>>> PACKAGE_STRING='OSU-Micro-Benchmarks 3.3'
>>>> PACKAGE_TARNAME='osu-micro-benchmarks'
>>>> PACKAGE_URL=''
>>>> PACKAGE_VERSION='3.3'
>>>> PATH_SEPARATOR=':'
>>>> SET_MAKE=''
>>>> SHELL='/bin/bash'
>>>> STRIP=''
>>>> VERSION='3.3'
>>>> ac_ct_CC='mpicc'
>>>> am__EXEEXT_FALSE=''
>>>> am__EXEEXT_TRUE=''
>>>> am__fastdepCC_FALSE=''
>>>> am__fastdepCC_TRUE=''
>>>> am__include=''
>>>> am__isrc=''
>>>> am__leading_dot='.'
>>>> am__quote=''
>>>> am__tar='${AMTAR} chof - "$$tardir"'
>>>> am__untar='${AMTAR} xf -'
>>>> bindir='${exec_prefix}/bin'
>>>> build_alias=''
>>>> datadir='${datarootdir}'
>>>> datarootdir='${prefix}/share'
>>>> docdir='${datarootdir}/doc/${PACKAGE_TARNAME}'
>>>> dvidir='${docdir}'
>>>> exec_prefix='NONE'
>>>> host_alias=''
>>>> htmldir='${docdir}'
>>>> includedir='${prefix}/include'
>>>> infodir='${datarootdir}/info'
>>>> install_sh='${SHELL}
>>>> /home/hoot/mpistuff/osu/osu-micro-benchmarks-3.3/install-sh'
>>>> libdir='${exec_prefix}/lib'
>>>> libexecdir='${exec_prefix}/libexec'
>>>> localedir='${datarootdir}/locale'
>>>> localstatedir='${prefix}/var'
>>>> mandir='${datarootdir}/man'
>>>> mkdir_p='/bin/mkdir -p'
>>>> oldincludedir='/usr/include'
>>>> pdfdir='${docdir}'
>>>> prefix='NONE'
>>>> program_transform_name='s,x,x,'
>>>> psdir='${docdir}'
>>>> sbindir='${exec_prefix}/sbin'
>>>> sharedstatedir='${prefix}/com'
>>>> sysconfdir='${prefix}/etc'
>>>> target_alias=''
>>>> 
>>>> ## ----------- ##
>>>> ## confdefs.h. ##
>>>> ## ----------- ##
>>>> 
>>>> /* confdefs.h */
>>>> #define PACKAGE_NAME "OSU-Micro-Benchmarks"
>>>> #define PACKAGE_TARNAME "osu-micro-benchmarks"
>>>> #define PACKAGE_VERSION "3.3"
>>>> #define PACKAGE_STRING "OSU-Micro-Benchmarks 3.3"
>>>> #define PACKAGE_BUGREPORT "mvapich-discuss at cse.ohio-state.edu"
>>>> #define PACKAGE_URL ""
>>>> #define PACKAGE "osu-micro-benchmarks"
>>>> #define VERSION "3.3"
>>>> 
>>>> configure: exit 77
>>>> 
>>>> 
>>>> 
>>>> 
>>>> 
>>>> 
>>>> 
>>>> 
>>>> 
>>>> 
>>>> 
>>>> 
>>>> 
>>>> 
>>>> 
>>>> 
>>>> -----Original Message-----
>>>> From: Jonathan Perkins <perkinjo at cse.ohio-state.edu>
>>>> To: Hoot Thompson <hoot at ptpnow.com>
>>>> Cc: mvapich-discuss at cse.ohio-state.edu
>>>> Subject: Re: [mvapich-discuss] Configure error confdefs.h
>>>> Date: Mon, 6 Jun 2011 17:00:23 -0400
>>>> 
>>>> Can you send me the config.log?
>>>> 
>>>> On Mon, Jun 6, 2011 at 4:40 PM, Hoot Thompson <hoot at ptpnow.com> wrote:
>>>>> Running Ubuntu 11.04 and I can't get past the configure step. I'm missing
>>>>> confdefs.h it appears even with seemingly all relevant packages installed.
>>>>> What Ubuntu (apt-get install) package installs confdefs.h?
>>>>> 
>>>>> 
>>>>> Thanks in advance...
>>>>> 
>>>>> 
>>>>> _______________________________________________
>>>>> mvapich-discuss mailing list
>>>>> mvapich-discuss at cse.ohio-state.edu
>>>>> http://mail.cse.ohio-state.edu/mailman/listinfo/mvapich-discuss
>>>>> 
>>>>> 
>>>> 
>>>> 
>>>> 
>>>> 
>>>> 
>>> 
>>> 
>> 
>> 
>> 
>> 
> 
>

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