problem building with openmpi

[Jim Edwards]

It turns out that openmpi puts it's mpi.mod in the lib instead of include
directory and the pnetcdf configure wasn't finding it.
Once I fixed this and use mpi.mod instead of mpif.h that solved the
problem, however then I run into another problem at the
link step:

 CCLD     ncmpivalid

ld: cannot find -lpbs

I haven't figured out where the requirement on a library pbs comes from or
how to get rid of it?

On Mon, Nov 6, 2017 at 9:36 AM, Jim Edwards <jedwards at ucar.edu> wrote:

>
> On Mon, Nov 6, 2017 at 9:16 AM, Jim Edwards <jedwards at ucar.edu> wrote:
>
>> I am trying to build with openmpi/3.0.0 and intel17 and hanging in the
>> build
>> of pnetcdf.f90.
>>
>> The make output at the time is:
>>
>> make[4]: Entering directory '/glade/u/home/jedwards/src/pa
>> rallel-netcdf/src/binding/f90'
>>
>>   FC       pnetcdf.lo
>>
>> examining the process I see:
>>
>> /glade/u/apps/opt/intel/2017u1/compilers_and_libraries/linux/bin/intel64/ifort
>> -I. -I. -debug minimal -g -O0 -c pnetcdf.f90 -o pnetcdf.o
>> -I/glade/u/apps/ch/os/usr/include -L/glade/u/apps/opt/intel/2017
>> u1/compilers_and_libraries/linux/lib/intel64_lin
>> -L/glade/u/apps/ch/os/usr/lib64 -L/glade/u/apps/ch/os/lib64
>> -L/glade/u/apps/ch/os/usr/lib -L/glade/u/apps/ch/os/lib
>> -L/glade/u/apps/ch/opt/openmpi/3.0.0/intel/17.0.1/lib
>> -Wl,--disable-new-dtags -Wl,-rpath,/glade/u/apps/opt/i
>> ntel/2017u1/compilers_and_libraries/linux/lib/intel64_lin
>> -Wl,-rpath,/glade/u/apps/ch/os/usr/lib64 -Wl,-rpath,/glade/u/apps/ch/os/lib64
>> -Wl,-rpath,/glade/u/apps/ch/os/usr/lib -Wl,-rpath,/glade/u/apps/ch/os/lib
>> -Wl,-rpath,/glade/u/apps/ch/opt/openmpi/3.0.0/intel/17.0.1/lib -lrt -ldl
>>
>>
>> ​Please ignore the following incorrect statement, I did this in another
> window where I still had the default mpt loaded instead of openmpi, if I do
> this with openmpi, it still hangs. ​
>
>
>
>
>> If I remove all of the -L and -rpath flags and just do:
>>
>>  /glade/u/apps/opt/intel/2017u1/compilers_and_libraries/linux/bin/intel64/ifort
>> -I. -I. -debug minimal -g -O0 -c pnetcdf.f90 -o pnetcdf.o
>> That completes right away, so the problem seems to have to do with
>> libtool.   Also building with mpt instead of openmpi on the same system
>> works.
>>
>> Any ideas?
>>
>> --
>> Jim Edwards
>>
>> CESM Software Engineer
>> National Center for Atmospheric Research
>> Boulder, CO
>>
>
>
>
> --
> Jim Edwards
>
> CESM Software Engineer
> National Center for Atmospheric Research
> Boulder, CO
>



-- 
Jim Edwards

CESM Software Engineer
National Center for Atmospheric Research
Boulder, CO
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