If you are running on a Slurm-managed cluster, it won't be happy without configuring --with-slurm - you won't see the allocation, for one.
Is it just the --with-slurm option that causes the problem? In other words, if you remove the rest of those options (starting --with-hcoll and going down that config line) and leave --with-slurm, does it build?
On Mar 16, 2014, at 8:22 AM, Filippo Spiga <spiga.filippo_at_[hidden]> wrote:
> Hi Jeff, Hi Ake,
> removing --with-slurm and keeping --with-hcoll seems to work. The error disappears at compile time, I have not yet tried to run a job. I can copy config.log and the make.log is needed.
> On Mar 11, 2014, at 4:48 PM, Jeff Squyres (jsquyres) <jsquyres_at_[hidden]> wrote:
>> On Mar 11, 2014, at 11:22 AM, Åke Sandgren <ake.sandgren_at_[hidden]> wrote:
>>>>> ../configure CC=pgcc CXX=pgCC FC=pgf90 F90=pgf90 --prefix=/usr/local/Cluster-Users/fs395/openmpi-1.7.4/pgi-14.2_cuda-6.0RC --enable-mpirun-prefix-by-default --with-hcoll=$HCOLL_DIR --with-fca=$FCA_DIR --with-mxm=$MXM_DIR --with-knem=$KNEM_DIR --with-slurm=/usr/local/Cluster-Apps/slurm --with-cuda=$CUDA_INSTALL_PATH
>>>>> At some point the compile process fails with this error:
>>>>> make: Leaving directory `/home/fs395/archive/openmpi-1.7.4/build/ompi/mca/coll/hierarch'
>>>>> Making all in mca/coll/hcoll
>>>>> make: Entering directory `/home/fs395/archive/openmpi-1.7.4/build/ompi/mca/coll/hcoll'
>>>>> CC coll_hcoll_module.lo
>>>>> CC coll_hcoll_component.lo
>>>>> CC coll_hcoll_rte.lo
>>>>> CC coll_hcoll_ops.lo
>>>>> CCLD mca_coll_hcoll.la
>>>>> pgcc-Error-Unknown switch: -pthread
>>> You have to remove the -pthread from inherited_linker_flags=
>>> in libpmi.la libslurm.la from your slurm build.
>> With the configure line given above, I don't think he should be linking against libslurm.
>> But I wonder if the underlying issue is actually correct: perhaps the inherited_linker_flags from libhcoll.la has -pthreads in it.
> Mr. Filippo SPIGA, M.Sc.
> http://www.linkedin.com/in/filippospiga ~ skype: filippo.spiga
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