Hi Gilles,
> then i cannot figure out how this can happen ...
>
> i see you remove the install dir (/usr/local/...)
> but i do not see you removing the build directory :
>
> i see
>
> mkdir openmpi-1.8.6-${SYSTEM_ENV}.${MACHINE_ENV}.64_gcc
> cd openmpi-1.8.6-${SYSTEM_ENV}.${MACHINE_ENV}.64_gcc
>
> but i do not see
>
> rm -rf openmpi-1.8.6-${SYSTEM_ENV}.${MACHINE_ENV}.64_gcc
> mkdir openmpi-1.8.6-${SYSTEM_ENV}.${MACHINE_ENV}.64_gcc
> cd openmpi-1.8.6-${SYSTEM_ENV}.${MACHINE_ENV}.64_gcc
Ouch! I was obviously blind when I replaced names after building
openmpi-1.8.6rc1. Now I use the correct directories once more.
mkdir openmpi-v1.8.5-46-g9f5f498-${SYSTEM_ENV}.${MACHINE_ENV}.64_gcc
cd openmpi-v1.8.5-46-g9f5f498-${SYSTEM_ENV}.${MACHINE_ENV}.64_gcc
Thank you very much for identifying this problem!
Kind regards
Siegmar
> On 6/10/2015 2:42 PM, Siegmar Gross wrote:
> > Hi Gilles,
> >
> >> a simple workaround is you always run configure in an empty directory
> >> in this example, please recreate
> >>
> >> rm -rf /export2/src/openmpi-1.8.6/openmpi-1.8.6-Linux.x86_64.64_gcc
> >> mkdir /export2/src/openmpi-1.8.6/openmpi-1.8.6-Linux.x86_64.64_gcc
> >>
> >> before invoking configure and make
> >
> > I always start with an empty directory and I always remove an old
> > package before installing a new one.
> >
> > mkdir openmpi-1.8.6-${SYSTEM_ENV}.${MACHINE_ENV}.64_gcc
> > cd openmpi-1.8.6-${SYSTEM_ENV}.${MACHINE_ENV}.64_gcc
> >
> > ../openmpi-v1.8.5-46-g9f5f498/configure \
> > --prefix=/usr/local/openmpi-1.8.6_64_gcc \
> > ...
> >
> > make |& tee log.make.$SYSTEM_ENV.$MACHINE_ENV.64_gcc
> > rm -r /usr/local/openmpi-1.8.6_64_gcc.old
> > mv /usr/local/openmpi-1.8.6_64_gcc /usr/local/openmpi-1.8.6_64_gcc.old
> > make install |& tee log.make-install.$SYSTEM_ENV.$MACHINE_ENV.64_gcc
> > make check |& tee log.make-check.$SYSTEM_ENV.$MACHINE_ENV.64_gcc
> >
> >
> > Thank you very much for your answer and kind regards
> >
> > Siegmar
> >
> >
> >
> >> Jeff,
> >>
> >> that can happen indeed, in a complex but legitimate environment :
> >>
> >> mkdir ~/src
> >> cd ~/src
> >> tar xvfj openmpi-1.8.tar.bz2
> >> mkdir ~/build/openmpi-v1.8
> >> cd ~/build/openmpi-v1.8
> >> ~/src/openmpi-1.8/configure
> >> make
> >>
> >> then a few days later
> >>
> >> cd ~/src
> >> tar xvfj openmpi-v1.8.5-46-g9f5f498.tar.bz2
> >> # use the *same* build directory
> >> cd ~/build/openmpi-v1.8
> >> #
> >>
(~/src/openmpi-v1.8.5-46-g95f5f498/opal/include/opal/opal_portable_platform.h
> >> # must be more recent than
> >> ~/src/openmpi-1.8/ompi/include/mpi_portable_platform.h
> >> # just touch
> >>
~/src/openmpi-v1.8.5-46-g95f5f498/opal/include/opal/opal_portable_platform.h
> >> # to force the issue
> >> ~/src/openmpi-v1.8.5-46-g9f5f498/configure
> >> make => BOUM
> >>
> >> i just found an other issue with this scenario :
> >> symlinks in the profile directories (ompi/mpi/c/profile,
> >> ompi/mpi/fortran/mpif-h/profile, oshmem/shmem/c/profile) are not
> >> recreated and points to the previous source tree.
> >> (that caused one crash at least, and likely silently compiles old
> >> sources most of the time)
> >>
> >> Cheers,
> >>
> >> Gilles
> >>
> >> On 6/10/2015 10:01 AM, Jeff Squyres (jsquyres) wrote:
> >>> Siegmar --
> >>>
> >>> I don't see any reason why this should be happening to you only sometimes;
> > this code has been unchanged in *forever*. :-(
> >>> Did your NFS server drift out of time sync with your build machine,
> > perchance?
> >>> Regardless, I just pushed what should be a workaround to master and I'll
PR
> > it over to v1.8 and v1.10 (it'll take a day or so for these to show up in
the
> > nightly tarballs) -- it should avoid the issue altogether.
> >>>
> >>>
> >>>> On Jun 9, 2015, at 6:44 AM, Siegmar Gross
> > <siegmar.gr...@informatik.hs-fulda.de> wrote:
> >>>> Hi,
> >>>>
> >>>> today I tried to build openmpi-v1.8.5-46-g9f5f498 on my machines
> >>>> (Solaris 10 Sparc, Solaris 10 x86_64, and openSUSE Linux 12.1
> >>>> x86_64) with gcc-4.9.2 and Sun C 5.13 and I got the same error
> >>>> on all three platforms with both compilers. I have already
> >>>> reported the problem a few days ago. I used the following command
> >>>> to configure the package.
> >>>>
> >>>> ../openmpi-v1.8.5-46-g9f5f498/configure \
> >>>> --prefix=/usr/local/openmpi-1.8.6_64_gcc \
> >>>> --libdir=/usr/local/openmpi-1.8.6_64_gcc/lib64 \
> >>>> --with-jdk-bindir=/usr/local/jdk1.8.0/bin \
> >>>> --with-jdk-headers=/usr/local/jdk1.8.0/include \
> >>>> JAVA_HOME=/usr/local/jdk1.8.0 \
> >>>> LDFLAGS="-m64" CC="gcc" CXX="g++" FC="gfortran" \
> >>>> CFLAGS="-m64" CXXFLAGS="-m64" FCFLAGS="-m64" \
> >>>> CPP="cpp" CXXCPP="cpp" \
> >>>> CPPFLAGS="" CXXCPPFLAGS="" \
> >>>> --enable-mpi-cxx \
> >>>> --enable-cxx-exceptions \
> >>>> --enable-mpi-java \
> >>>> --enable-heterogeneous \
> >>>> --enable-mpi-thread-multiple \
> >>>> --with-threads=posix \
> >>>> --with-hwloc=internal \
> >>>> --without-verbs \
> >>>> --with-wrapper-cflags="-std=c11 -m64" \
> >>>> --with-wrapper-cxxflags="-m64" \
> >>>> --with-wrapper-fcflags="-m64" \
> >>>> --enable-debug \
> >>>> |& tee log.configure.$SYSTEM_ENV.$MACHINE_ENV.64_gcc
> >>>>
> >>>>
> >>>> ...
> >>>> make[3]: Entering directory
> > `/export2/src/openmpi-1.8.6/openmpi-1.8.6-Linux.x86_64.64_gcc/ompi/include'
> >>>>
../../../openmpi-v1.8.5-46-g9f5f498/ompi/mpi/fortran/base/gen-mpi-sizeof.pl
> > \
> >>>> --header=mpif-sizeof.h --ierror=mandatory \
> >>>> --maxrank=7 \
> >>>> --generate=1 \
> >>>> --real16=1 \
> >>>> --complex32=1
> >>>> ln -s
> >
../../../openmpi-v1.8.5-46-g9f5f498/opal/include/opal/opal_portable_platform.h
> > mpi_portable_platform.h
> >>>> ln: failed to create symbolic link `mpi_portable_platform.h': File exists
> >>>> make[3]: *** [mpi_portable_platform.h] Error 1
> >>>> make[3]: Leaving directory
> > `/export2/src/openmpi-1.8.6/openmpi-1.8.6-Linux.x86_64.64_gcc/ompi/include'
> >>>> make[2]: *** [all] Error 2
> >>>> make[2]: Leaving directory
> > `/export2/src/openmpi-1.8.6/openmpi-1.8.6-Linux.x86_64.64_gcc/ompi/include'
> >>>> make[1]: *** [all-recursive] Error 1
> >>>> make[1]: Leaving directory
> > `/export2/src/openmpi-1.8.6/openmpi-1.8.6-Linux.x86_64.64_gcc/ompi'
> >>>> make: *** [all-recursive] Error 1
> >>>> linpc1 openmpi-1.8.6-Linux.x86_64.64_gcc 261
> >>>>
> >>>>
> >>>> I would be grateful, if somebody could fix the problem. Thank
> >>>> you very much for any help in advance.
> >>>>
> >>>>
> >>>> Kind regards
> >>>>
> >>>> Siegmar
> >>>>
> >>>> _______________________________________________
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> >>>> Link to this post:
> > http://www.open-mpi.org/community/lists/users/2015/06/27057.php
> >> _______________________________________________
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> > http://www.open-mpi.org/community/lists/users/2015/06/27068.php
> >
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> >
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>
