[mvapich-discuss] Configure error confdefs.h

Jonathan Perkins perkinjo at cse.ohio-state.edu
Mon Jun 6 17:39:09 EDT 2011 

No problem, let us know if you encounter any more issues.

On Mon, Jun 6, 2011 at 5:34 PM, Hoot Thompson <hoot at ptpnow.com> wrote:
> 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
>>>>>>
>>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>
>>>>
>>>
>>>
>>>
>>>
>>
>>
>
>
>
>



-- 
Jonathan Perkins
http://www.cse.ohio-state.edu/~perkinjo

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