[mpich-discuss] pgf90-Error-Unknown switch: -pthread

[James Long]

Commenting out the -pthread flag in /usr/lib/libpmi.la allows it to compile OK. But while 'srun' successfully runs mpi jobs on one 64-core node, the following error appears when trying to run on 2 nodes, and the job hangs:

srun: error: slurm_send_recv_rc_msg_only_one: Connection timed out

No help from google...

Thanks,

Jim

On Jul 9, 2014, at 3:37 PM, Kenneth Raffenetti wrote:

> Libtool is adding the -pthread flag because it exists in the "inherited_linker_flags" in libpmi.la. However, PGI clearly doesn't understand it. The libtool devs called this issue a bug when it was reported here:
> 
> http://lists.gnu.org/archive/html/libtool/2010-11/msg00034.html
> 
> You could either remove the flag from the /usr/lib/libpmi.la file, or use the workaround suggested by Gus Correa to finish your build.
> 
> Ken
> 
> On 07/09/2014 05:56 PM, Gus Correa wrote:
>> Hi James
>> 
>> Adding '-noswitcherror' to the CFLAGS, FFLAGS, FCFLAGS,
>> may be a workaround to this problem.
>> 
>> My two cents,
>> Gus Correa
>> 
>> On 07/09/2014 05:55 PM, James Long wrote:
>>> I need to use srun to launch mpi jobs under slurm, so configured
>>> mpich-3.1.1 with
>>> 
>>> $ env CC=pgcc FC=pgf90 CXX=pgCC CPPFLAGS="-DNDEBUG -DpgiFortran"
>>> CFLAGS="-O2" FFLAGS="-O2 -w" ./configure --prefix=/opt/mpich-slurm
>>> --with-pmi=slurm --with-pm=no --with-slurm-include=/usr/include/slurm
>>> --with-slurm-lib=/usr/lib/slurm --enable-fortran=yes
>>> 
>>> The following error occurs when compiling:
>>> 
>>>   CC       src/mpid/common/datatype/lib_libmpi_la-mpir_type_flatten.lo
>>>   CC       src/mpid/common/sched/lib_libmpi_la-mpid_sched.lo
>>>   CC       src/mpid/common/thread/lib_libmpi_la-mpid_thread.lo
>>>   CC       src/mpi_t/lib_libmpi_la-mpit.lo
>>>   CC       src/nameserv/pmi/lib_libmpi_la-pmi_nameserv.lo
>>>   GEN      lib/libmpi.la
>>> pgf90-Error-Unknown switch: -pthread
>>> make[2]: *** [lib/libmpi.la] Error 1
>>> make[2]: Leaving directory `/home/boss/mpich-3.1.1'
>>> make[1]: *** [all-recursive] Error 1
>>> make[1]: Leaving directory `/home/boss/mpich-3.1.1'
>>> make: *** [all] Error 2
>>> 
>>> config.log is at http://pastebin.com/aB8CZsr0
>>> 
>>> Jim
>>> --
>>> 
>>> %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
>>> James Long
>>> International Arctic Research Center
>>> University of Alaska Fairbanks
>>> jlong|at|alaska.edu
>>> (907) 474-2440
>>> %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
>>> 
>>> 
>>> 
>>> 
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--

%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
James Long
International Arctic Research Center
University of Alaska Fairbanks
jlong|at|alaska.edu
(907) 474-2440
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%