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Subject: Re: [OMPI users] Help: OpenMPI Compilation in Raspberry Pi
From: Lee Eric (openlinuxsource_at_[hidden])
Date: 2013-01-19 23:55:07


Hi,

The above issue fixed w/ this patch I used:
https://raw.github.com/sebhtml/patches/master/openmpi/Raspberry-Pi-openmpi-1.6.2.patch

Is that possible OpenMPI can contain this patch in the future?

Thanks.

On Sun, Jan 20, 2013 at 3:13 AM, Lee Eric <openlinuxsource_at_[hidden]> wrote:
> Hi,
>
> I just use --disable-mpif77 and --disable-mpif90 to let configure run
> well. However, I know it's only tough workround. After configured
> well, I encounter following error when run make:
>
> Making all in config
> make[1]: Entering directory `/home/huli/Projects/openmpi-1.6.3/config'
> make[1]: Nothing to be done for `all'.
> make[1]: Leaving directory `/home/huli/Projects/openmpi-1.6.3/config'
> Making all in contrib
> make[1]: Entering directory `/home/huli/Projects/openmpi-1.6.3/contrib'
> make[1]: Nothing to be done for `all'.
> make[1]: Leaving directory `/home/huli/Projects/openmpi-1.6.3/contrib'
> Making all in opal
> make[1]: Entering directory `/home/huli/Projects/openmpi-1.6.3/opal'
> Making all in include
> make[2]: Entering directory `/home/huli/Projects/openmpi-1.6.3/opal/include'
> make all-am
> make[3]: Entering directory `/home/huli/Projects/openmpi-1.6.3/opal/include'
> make[3]: Leaving directory `/home/huli/Projects/openmpi-1.6.3/opal/include'
> make[2]: Leaving directory `/home/huli/Projects/openmpi-1.6.3/opal/include'
> Making all in libltdl
> make[2]: Entering directory `/home/huli/Projects/openmpi-1.6.3/opal/libltdl'
> make all-am
> make[3]: Entering directory `/home/huli/Projects/openmpi-1.6.3/opal/libltdl'
> /bin/sh ./libtool --tag=CC --mode=compile
> armv6-rpi-linux-gnueabi-gcc -DHAVE_CONFIG_H -I.
> -DLT_CONFIG_H='<config.h>' -DLTDL -I. -I. -Ilibltdl -I./libltdl
> -I./libltdl -I/home/huli/Projects/openmpi-1.6.3/opal/mca/hwloc/hwloc132/hwloc/include
> -I/usr/include/infiniband -I/usr/include/infiniband -Ofast
> -mfpu=vfp -mfloat-abi=hard -MT dlopen.lo -MD -MP -MF .deps/dlopen.Tpo
> -c -o dlopen.lo `test -f 'loaders/dlopen.c' || echo
> './'`loaders/dlopen.c
> /bin/sh ./libtool --tag=CC --mode=compile
> armv6-rpi-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -DLTDLOPEN=libltdlc
> -DLT_CONFIG_H='<config.h>' -DLTDL -I. -I. -Ilibltdl -I./libltdl
> -I./libltdl -I/home/huli/Projects/openmpi-1.6.3/opal/mca/hwloc/hwloc132/hwloc/include
> -I/usr/include/infiniband -I/usr/include/infiniband -Ofast
> -mfpu=vfp -mfloat-abi=hard -MT libltdlc_la-preopen.lo -MD -MP -MF
> .deps/libltdlc_la-preopen.Tpo -c -o libltdlc_la-preopen.lo `test -f
> 'loaders/preopen.c' || echo './'`loaders/preopen.c
> /bin/sh ./libtool --tag=CC --mode=compile
> armv6-rpi-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -DLTDLOPEN=libltdlc
> -DLT_CONFIG_H='<config.h>' -DLTDL -I. -I. -Ilibltdl -I./libltdl
> -I./libltdl -I/home/huli/Projects/openmpi-1.6.3/opal/mca/hwloc/hwloc132/hwloc/include
> -I/usr/include/infiniband -I/usr/include/infiniband -Ofast
> -mfpu=vfp -mfloat-abi=hard -MT libltdlc_la-lt__alloc.lo -MD -MP -MF
> .deps/libltdlc_la-lt__alloc.Tpo -c -o libltdlc_la-lt__alloc.lo `test
> -f 'lt__alloc.c' || echo './'`lt__alloc.c
> /bin/sh ./libtool --tag=CC --mode=compile
> armv6-rpi-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -DLTDLOPEN=libltdlc
> -DLT_CONFIG_H='<config.h>' -DLTDL -I. -I. -Ilibltdl -I./libltdl
> -I./libltdl -I/home/huli/Projects/openmpi-1.6.3/opal/mca/hwloc/hwloc132/hwloc/include
> -I/usr/include/infiniband -I/usr/include/infiniband -Ofast
> -mfpu=vfp -mfloat-abi=hard -MT libltdlc_la-lt_dlloader.lo -MD -MP -MF
> .deps/libltdlc_la-lt_dlloader.Tpo -c -o libltdlc_la-lt_dlloader.lo
> `test -f 'lt_dlloader.c' || echo './'`lt_dlloader.c
> /bin/sh ./libtool --tag=CC --mode=compile
> armv6-rpi-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -DLTDLOPEN=libltdlc
> -DLT_CONFIG_H='<config.h>' -DLTDL -I. -I. -Ilibltdl -I./libltdl
> -I./libltdl -I/home/huli/Projects/openmpi-1.6.3/opal/mca/hwloc/hwloc132/hwloc/include
> -I/usr/include/infiniband -I/usr/include/infiniband -Ofast
> -mfpu=vfp -mfloat-abi=hard -MT libltdlc_la-lt_error.lo -MD -MP -MF
> .deps/libltdlc_la-lt_error.Tpo -c -o libltdlc_la-lt_error.lo `test -f
> 'lt_error.c' || echo './'`lt_error.c
> /bin/sh ./libtool --tag=CC --mode=compile
> armv6-rpi-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -DLTDLOPEN=libltdlc
> -DLT_CONFIG_H='<config.h>' -DLTDL -I. -I. -Ilibltdl -I./libltdl
> -I./libltdl -I/home/huli/Projects/openmpi-1.6.3/opal/mca/hwloc/hwloc132/hwloc/include
> -I/usr/include/infiniband -I/usr/include/infiniband -Ofast
> -mfpu=vfp -mfloat-abi=hard -MT libltdlc_la-ltdl.lo -MD -MP -MF
> .deps/libltdlc_la-ltdl.Tpo -c -o libltdlc_la-ltdl.lo `test -f 'ltdl.c'
> || echo './'`ltdl.c
> /bin/sh ./libtool --tag=CC --mode=compile
> armv6-rpi-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -DLTDLOPEN=libltdlc
> -DLT_CONFIG_H='<config.h>' -DLTDL -I. -I. -Ilibltdl -I./libltdl
> -I./libltdl -I/home/huli/Projects/openmpi-1.6.3/opal/mca/hwloc/hwloc132/hwloc/include
> -I/usr/include/infiniband -I/usr/include/infiniband -Ofast
> -mfpu=vfp -mfloat-abi=hard -MT libltdlc_la-slist.lo -MD -MP -MF
> .deps/libltdlc_la-slist.Tpo -c -o libltdlc_la-slist.lo `test -f
> 'slist.c' || echo './'`slist.c
> /bin/sh ./libtool --tag=CC --mode=compile
> armv6-rpi-linux-gnueabi-gcc -DHAVE_CONFIG_H -I.
> -DLT_CONFIG_H='<config.h>' -DLTDL -I. -I. -Ilibltdl -I./libltdl
> -I./libltdl -I/home/huli/Projects/openmpi-1.6.3/opal/mca/hwloc/hwloc132/hwloc/include
> -I/usr/include/infiniband -I/usr/include/infiniband -Ofast
> -mfpu=vfp -mfloat-abi=hard -MT lt__strl.lo -MD -MP -MF
> .deps/lt__strl.Tpo -c -o lt__strl.lo lt__strl.c
> libtool: compile: armv6-rpi-linux-gnueabi-gcc -DHAVE_CONFIG_H -I.
> -DLTDLOPEN=libltdlc "-DLT_CONFIG_H=<config.h>" -DLTDL -I. -I.
> -Ilibltdl -I./libltdl -I./libltdl
> -I/home/huli/Projects/openmpi-1.6.3/opal/mca/hwloc/hwloc132/hwloc/include
> -I/usr/include/infiniband -I/usr/include/infiniband -Ofast -mfpu=vfp
> -mfloat-abi=hard -MT libltdlc_la-lt__alloc.lo -MD -MP -MF
> .deps/libltdlc_la-lt__alloc.Tpo -c lt__alloc.c -fPIC -DPIC -o
> .libs/libltdlc_la-lt__alloc.o
> libtool: compile: armv6-rpi-linux-gnueabi-gcc -DHAVE_CONFIG_H -I.
> -DLTDLOPEN=libltdlc "-DLT_CONFIG_H=<config.h>" -DLTDL -I. -I.
> -Ilibltdl -I./libltdl -I./libltdl
> -I/home/huli/Projects/openmpi-1.6.3/opal/mca/hwloc/hwloc132/hwloc/include
> -I/usr/include/infiniband -I/usr/include/infiniband -Ofast -mfpu=vfp
> -mfloat-abi=hard -MT libltdlc_la-preopen.lo -MD -MP -MF
> .deps/libltdlc_la-preopen.Tpo -c loaders/preopen.c -fPIC -DPIC -o
> .libs/libltdlc_la-preopen.o
> libtool: compile: armv6-rpi-linux-gnueabi-gcc -DHAVE_CONFIG_H -I.
> -DLTDLOPEN=libltdlc "-DLT_CONFIG_H=<config.h>" -DLTDL -I. -I.
> -Ilibltdl -I./libltdl -I./libltdl
> -I/home/huli/Projects/openmpi-1.6.3/opal/mca/hwloc/hwloc132/hwloc/include
> -I/usr/include/infiniband -I/usr/include/infiniband -Ofast -mfpu=vfp
> -mfloat-abi=hard -MT libltdlc_la-lt_error.lo -MD -MP -MF
> .deps/libltdlc_la-lt_error.Tpo -c lt_error.c -fPIC -DPIC -o
> .libs/libltdlc_la-lt_error.o
> libtool: compile: armv6-rpi-linux-gnueabi-gcc -DHAVE_CONFIG_H -I.
> "-DLT_CONFIG_H=<config.h>" -DLTDL -I. -I. -Ilibltdl -I./libltdl
> -I./libltdl -I/home/huli/Projects/openmpi-1.6.3/opal/mca/hwloc/hwloc132/hwloc/include
> -I/usr/include/infiniband -I/usr/include/infiniband -Ofast -mfpu=vfp
> -mfloat-abi=hard -MT lt__strl.lo -MD -MP -MF .deps/lt__strl.Tpo -c
> lt__strl.c -fPIC -DPIC -o .libs/lt__strl.o
> libtool: compile: armv6-rpi-linux-gnueabi-gcc -DHAVE_CONFIG_H -I.
> "-DLT_CONFIG_H=<config.h>" -DLTDL -I. -I. -Ilibltdl -I./libltdl
> -I./libltdl -I/home/huli/Projects/openmpi-1.6.3/opal/mca/hwloc/hwloc132/hwloc/include
> -I/usr/include/infiniband -I/usr/include/infiniband -Ofast -mfpu=vfp
> -mfloat-abi=hard -MT dlopen.lo -MD -MP -MF .deps/dlopen.Tpo -c
> loaders/dlopen.c -fPIC -DPIC -o .libs/dlopen.o
> libtool: compile: armv6-rpi-linux-gnueabi-gcc -DHAVE_CONFIG_H -I.
> -DLTDLOPEN=libltdlc "-DLT_CONFIG_H=<config.h>" -DLTDL -I. -I.
> -Ilibltdl -I./libltdl -I./libltdl
> -I/home/huli/Projects/openmpi-1.6.3/opal/mca/hwloc/hwloc132/hwloc/include
> -I/usr/include/infiniband -I/usr/include/infiniband -Ofast -mfpu=vfp
> -mfloat-abi=hard -MT libltdlc_la-lt_dlloader.lo -MD -MP -MF
> .deps/libltdlc_la-lt_dlloader.Tpo -c lt_dlloader.c -fPIC -DPIC -o
> .libs/libltdlc_la-lt_dlloader.o
> libtool: compile: armv6-rpi-linux-gnueabi-gcc -DHAVE_CONFIG_H -I.
> -DLTDLOPEN=libltdlc "-DLT_CONFIG_H=<config.h>" -DLTDL -I. -I.
> -Ilibltdl -I./libltdl -I./libltdl
> -I/home/huli/Projects/openmpi-1.6.3/opal/mca/hwloc/hwloc132/hwloc/include
> -I/usr/include/infiniband -I/usr/include/infiniband -Ofast -mfpu=vfp
> -mfloat-abi=hard -MT libltdlc_la-ltdl.lo -MD -MP -MF
> .deps/libltdlc_la-ltdl.Tpo -c ltdl.c -fPIC -DPIC -o
> .libs/libltdlc_la-ltdl.o
> libtool: compile: armv6-rpi-linux-gnueabi-gcc -DHAVE_CONFIG_H -I.
> -DLTDLOPEN=libltdlc "-DLT_CONFIG_H=<config.h>" -DLTDL -I. -I.
> -Ilibltdl -I./libltdl -I./libltdl
> -I/home/huli/Projects/openmpi-1.6.3/opal/mca/hwloc/hwloc132/hwloc/include
> -I/usr/include/infiniband -I/usr/include/infiniband -Ofast -mfpu=vfp
> -mfloat-abi=hard -MT libltdlc_la-slist.lo -MD -MP -MF
> .deps/libltdlc_la-slist.Tpo -c slist.c -fPIC -DPIC -o
> .libs/libltdlc_la-slist.o
> mv -f .deps/dlopen.Tpo .deps/dlopen.Plo
> /bin/sh ./libtool --tag=CC --mode=link armv6-rpi-linux-gnueabi-gcc
> -Ofast -mfpu=vfp -mfloat-abi=hard -module -avoid-version -o dlopen.la
> dlopen.lo -ldl -ldl -lrt -lnsl -lutil -lm
> mv -f .deps/libltdlc_la-lt__alloc.Tpo .deps/libltdlc_la-lt__alloc.Plo
> mv -f .deps/lt__strl.Tpo .deps/lt__strl.Plo
> mv -f .deps/libltdlc_la-lt_error.Tpo .deps/libltdlc_la-lt_error.Plo
> mv -f .deps/libltdlc_la-preopen.Tpo .deps/libltdlc_la-preopen.Plo
> mv -f .deps/libltdlc_la-lt_dlloader.Tpo .deps/libltdlc_la-lt_dlloader.Plo
> libtool: link: armv6-rpi-linux-gnueabi-ar cru .libs/dlopen.a .libs/dlopen.o
> libtool: link: armv6-rpi-linux-gnueabi-ranlib .libs/dlopen.a
> mv -f .deps/libltdlc_la-slist.Tpo .deps/libltdlc_la-slist.Plo
> libtool: link: ( cd ".libs" && rm -f "dlopen.la" && ln -s
> "../dlopen.la" "dlopen.la" )
> mv -f .deps/libltdlc_la-ltdl.Tpo .deps/libltdlc_la-ltdl.Plo
> /bin/sh ./libtool --tag=CC --mode=link armv6-rpi-linux-gnueabi-gcc
> -Ofast -mfpu=vfp -mfloat-abi=hard -no-undefined -dlpreopen dlopen.la
> -o libltdlc.la libltdlc_la-preopen.lo libltdlc_la-lt__alloc.lo
> libltdlc_la-lt_dlloader.lo libltdlc_la-lt_error.lo libltdlc_la-ltdl.lo
> libltdlc_la-slist.lo lt__strl.lo -ldl -lrt -lnsl -lutil -lm
> libtool: link: rm -f .libs/libltdlc.nm .libs/libltdlc.nmS .libs/libltdlc.nmT
> libtool: link: (cd .libs && armv6-rpi-linux-gnueabi-gcc -Ofast
> -mfpu=vfp -mfloat-abi=hard -c -fno-builtin -fPIC -DPIC "libltdlcS.c")
> libtool: link: rm -f ".libs/libltdlcS.c" ".libs/libltdlc.nm"
> ".libs/libltdlc.nmS" ".libs/libltdlc.nmT"
> libtool: link: (cd .libs/libltdlc.lax/dlopen.a &&
> armv6-rpi-linux-gnueabi-ar x
> "/home/huli/Projects/openmpi-1.6.3/opal/libltdl/./.libs/dlopen.a")
> libtool: link: armv6-rpi-linux-gnueabi-ar cru .libs/libltdlc.a
> .libs/libltdlc_la-preopen.o .libs/libltdlc_la-lt__alloc.o
> .libs/libltdlc_la-lt_dlloader.o .libs/libltdlc_la-lt_error.o
> .libs/libltdlc_la-ltdl.o .libs/libltdlc_la-slist.o .libs/lt__strl.o
> .libs/libltdlcS.o .libs/libltdlc.lax/dlopen.a/dlopen.o
> libtool: link: armv6-rpi-linux-gnueabi-ranlib .libs/libltdlc.a
> libtool: link: rm -fr .libs/libltdlc.lax
> libtool: link: ( cd ".libs" && rm -f "libltdlc.la" && ln -s
> "../libltdlc.la" "libltdlc.la" )
> make[3]: Leaving directory `/home/huli/Projects/openmpi-1.6.3/opal/libltdl'
> make[2]: Leaving directory `/home/huli/Projects/openmpi-1.6.3/opal/libltdl'
> Making all in asm
> make[2]: Entering directory `/home/huli/Projects/openmpi-1.6.3/opal/asm'
> rm -f atomic-asm.S
> CC asm.lo
> ln -s "../../opal/asm/generated/atomic-local.s" atomic-asm.S
> CPPAS atomic-asm.lo
> atomic-asm.S: Assembler messages:
> atomic-asm.S:7: Error: selected processor does not support ARM mode `dmb'
> atomic-asm.S:15: Error: selected processor does not support ARM mode `dmb'
> atomic-asm.S:23: Error: selected processor does not support ARM mode `dmb'
> atomic-asm.S:55: Error: selected processor does not support ARM mode `dmb'
> atomic-asm.S:70: Error: selected processor does not support ARM mode `dmb'
> make[2]: *** [atomic-asm.lo] Error 1
> make[2]: *** Waiting for unfinished jobs....
> make[2]: Leaving directory `/home/huli/Projects/openmpi-1.6.3/opal/asm'
> make[1]: *** [all-recursive] Error 1
> make[1]: Leaving directory `/home/huli/Projects/openmpi-1.6.3/opal'
> make: *** [all-recursive] Error 1
>
> Here's my toolchain's gcc details.
>
> [huli_at_localhost openmpi-1.6.3]$ armv6-rpi-linux-gnueabi-gcc -v
> Using built-in specs.
> COLLECT_GCC=armv6-rpi-linux-gnueabi-gcc
> COLLECT_LTO_WRAPPER=/home/huli/Projects/arm-devel-rpi/libexec/gcc/arm-rpi-linux-gnueabi/4.7.3/lto-wrapper
> Target: arm-rpi-linux-gnueabi
> Configured with:
> /home/huli/Projects/ct-rpi/.build/src/gcc-linaro-4.7-2012.10/configure
> --build=x86_64-build_unknown-linux-gnu
> --host=x86_64-build_unknown-linux-gnu --target=arm-rpi-linux-gnueabi
> --prefix=/home/huli/Projects/arm-devel-rpi
> --with-sysroot=/home/huli/Projects/arm-devel-rpi/arm-rpi-linux-gnueabi/sysroot
> --enable-languages=c,c++,fortran --with-arch=armv6zk
> --with-cpu=arm1176jzf-s --with-tune=arm1176jzf-s --with-fpu=vfp
> --with-float=hard --with-pkgversion='crosstool-NG 1.17.0'
> --enable-__cxa_atexit --disable-libmudflap --disable-libgomp
> --disable-libssp --disable-libquadmath --disable-libquadmath-support
> --with-gmp=/home/huli/Projects/ct-rpi/.build/arm-rpi-linux-gnueabi/buildtools
> --with-mpfr=/home/huli/Projects/ct-rpi/.build/arm-rpi-linux-gnueabi/buildtools
> --with-mpc=/home/huli/Projects/ct-rpi/.build/arm-rpi-linux-gnueabi/buildtools
> --with-ppl=/home/huli/Projects/ct-rpi/.build/arm-rpi-linux-gnueabi/buildtools
> --with-cloog=/home/huli/Projects/ct-rpi/.build/arm-rpi-linux-gnueabi/buildtools
> --with-libelf=/home/huli/Projects/ct-rpi/.build/arm-rpi-linux-gnueabi/buildtools
> --with-host-libstdcxx='-static-libgcc -Wl,-Bstatic,-lstdc++,-Bdynamic
> -lm -L/home/huli/Projects/ct-rpi/.build/arm-rpi-linux-gnueabi/buildtools/lib
> -lpwl' --enable-threads=posix --enable-target-optspace --disable-nls
> --disable-multilib
> --with-local-prefix=/home/huli/Projects/arm-devel-rpi/arm-rpi-linux-gnueabi/sysroot
> --enable-c99 --enable-long-long --with-float=hard
> Thread model: posix
> gcc version 4.7.3 20121001 (prerelease) (crosstool-NG 1.17.0)
>
> Anyone have idea?
>
> Thanks.
>
> Eric
>
> On Sun, Jan 20, 2013 at 2:05 AM, Lee Eric <openlinuxsource_at_[hidden]> wrote:
>> Hi,
>>
>> The cross-compile issue I fixed. Check following source code:
>> opal_config_asm.m4:897: [AC_MSG_ERROR([No atomic primitives available
>> for $host])])
>>
>> It seems that checks the toolchain's tuple is one of: armv7* or armv6*
>> or armv5*. I have recompiled my toolchain and no such error occurred.
>> However, I hit another issue about fortran as configure running.
>>
>> *** Fortran 90/95 compiler
>> checking for armv6-rpi-linux-gnueabi-gfortran...
>> armv6-rpi-linux-gnueabi-gfortran
>> checking whether we are using the GNU Fortran compiler... yes
>> checking whether armv6-rpi-linux-gnueabi-gfortran accepts -g... yes
>> checking if Fortran 77 compiler works... links (cross compiling)
>> checking armv6-rpi-linux-gnueabi-gfortran external symbol
>> convention... single underscore
>> checking if C and Fortran 77 are link compatible... yes
>> checking to see if F77 compiler likes the C++ exception flags...
>> skipped (no C++ exceptions flags)
>> checking to see if mpif77/mpif90 compilers need additional linker flags... none
>> checking if Fortran 77 compiler supports CHARACTER... yes
>> checking size of Fortran 77 CHARACTER... configure: error: Can not
>> determine size of CHARACTER when cross-compiling
>>
>> Any hint? Thanks.
>>
>> Eric
>>
>> On Sat, Jan 19, 2013 at 10:08 PM, Lee Eric <openlinuxsource_at_[hidden]> wrote:
>>> Any heads up? Thanks.
>>>
>>> On Fri, Jan 18, 2013 at 5:28 AM, Jeff Squyres (jsquyres)
>>> <jsquyres_at_[hidden]> wrote:
>>>> On Jan 16, 2013, at 6:41 AM, Leif Lindholm <Leif.Lindholm_at_[hidden]> wrote:
>>>>
>>>>> That isn't, technically speaking, correct for the Raspberry Pi - but it is a workaround if you know you will never actually use the asm implementations of the atomics, but only the inline C ones..
>>>>>
>>>>> This sort of hides the problem that the dedicated barrier instructions were not available in ARMv6 (it used "system control coprocessor operations" instead.
>>>>>
>>>>> If you ever executed the asm implementation, you would trigger an undefined instruction exception on the Pi.
>>>>
>>>> Hah; sweet. Ok.
>>>>
>>>> So what's the right answer? Would it be acceptable to use a no-op for this operation on such architectures?
>>>>
>>>> --
>>>> Jeff Squyres
>>>> jsquyres_at_[hidden]
>>>> For corporate legal information go to: http://www.cisco.com/web/about/doing_business/legal/cri/
>>>>
>>>>
>>>> _______________________________________________
>>>> users mailing list
>>>> users_at_[hidden]
>>>> http://www.open-mpi.org/mailman/listinfo.cgi/users