pnetcdf-1.7.0 and MPT

[Kemp, Eric M. (GSFC-606.0)[SCIENCE SYSTEMS AND APPLICATIONS INC]]

Hi Jim:

In my case, README.SGI gave me the clue about setting the “LIBS” variable on the command line when running configure:

            ./configure --prefix=$PREFIX  \
                --disable-cxx MPICC="$MPICC" MPIF77="$MPIF77" \
                MPIF90="$MPIF90" CC="$CC" F77="$F77" F90="$F90" \
                FC="$FC" TEST_SEQRUN="$TEST_SEQRUN" \
                TEST_MPIRUN="$TEST_MPIRUN" \
                --enable-large-file-test \
                LIBS="-lmpi”

It’s not clear to me why that is necessary (I have MPICC, MPIF77, and MPIF90 set to the SGI MPT wrappers), but it is necessary in my case.

-Eric

Eric M. Kemp (SSAI)
NASA/GSFC
Mail Code: 606
Greenbelt, MD 20771
301.286.9768
eric.kemp at nasa.gov
eric.kemp at ssaihq.com


From: <parallel-netcdf-bounces at lists.mcs.anl.gov<mailto:parallel-netcdf-bounces at lists.mcs.anl.gov>> on behalf of Jim Edwards <jedwards at ucar.edu<mailto:jedwards at ucar.edu>>
Date: Wednesday, September 21, 2016 at 4:28 PM
To: Wei-keng Liao <wkliao at eecs.northwestern.edu<mailto:wkliao at eecs.northwestern.edu>>
Cc: "parallel-netcdf at mcs.anl.gov<mailto:parallel-netcdf at mcs.anl.gov>" <parallel-netcdf at mcs.anl.gov<mailto:parallel-netcdf at mcs.anl.gov>>
Subject: Re: pnetcdf-1.7.0 and MPT

There wasn't anything useful in the README.SGI as far as I could tell.  I am exploring getting an update to MPT/2.15 which may solve the problem.

On Wed, Sep 21, 2016 at 11:53 AM, Jim Edwards <jedwards at ucar.edu<mailto:jedwards at ucar.edu>> wrote:
Thanks - I'll give that a try and let you know.

On Wed, Sep 21, 2016 at 11:50 AM, Wei-keng Liao <wkliao at eecs.northwestern.edu<mailto:wkliao at eecs.northwestern.edu>> wrote:
Hi, Jim, Michael

Eric Kemp @ NASA/GSFC also encountered a similar error message.
http://lists.mcs.anl.gov/pipermail/parallel-netcdf/2016-June/001854.html

It seems like he was able to solve the problem by trying the build recipe
in README.SGI. Let me know whether this works for you.

Wei-keng

On Sep 21, 2016, at 12:36 PM, Michael Raymond wrote:

>   Are you passing a count of 0? That’s probably what MPT is getting caught on. I can have a fix for you to try in a few minutes if so.
>
> Michael A. Raymond
> SGI MPT Team Leader
> 1 (651) 683-7523<tel:1%20%28651%29%20683-7523>
>
>
>
>> On Sep 21, 2016, at 12:26, Jim Edwards <jedwards at ucar.edu<mailto:jedwards at ucar.edu>> wrote:
>>
>> Trying to use parallel netcdf on an SGI system with mpi/2.14 I am getting the following error:
>>
>> MPT ERROR: rank:10, function:MPI_TYPE_CREATE_HVECTOR, Invalid argument
>>
>> with a traceback:
>>
>> MPT: #7  0x00002aaaaf46dd2a in PMPI_Type_create_hindexed (count=<optimized out>,
>>
>> MPT:     blocklens=0x0, indices=0xbf71470, oldtype=27, newtype=0x7fffffff5588)
>>
>> MPT:     at type_create_hindexed.c:23
>>
>> MPT: #8  0x0000000000cc01ac in fillerup_aggregate (ncp=0x4ff9,
>>
>> MPT:     old_ncp=0x7fffffff4990) at fill.c:727
>>
>> MPT: #9  0x0000000000cb5141 in ncmpii_NC_enddef (ncp=0x4ff9,
>>
>> MPT:     h_align=140737488308624, h_minfree=0, v_align=-1, v_minfree=20438,
>>
>> MPT:     r_align=0) at nc.c:1187
>>
>> MPT: #10 0x0000000000cb42fb in ncmpii_enddef (ncp=0x4ff9) at nc.c:1318
>>
>>
>> MPT: #11 0x0000000000ca8d7f in ncmpi_enddef (ncid=20473) at mpinetcdf.c:806
>>
>>
>>
>> Have you seen this before or have an idea of a fix?
>>
>>
>>
>> Thanks,
>>
>>
>>
>>
>> --
>> 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
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://lists.mcs.anl.gov/pipermail/parallel-netcdf/attachments/20160921/38496634/attachment.html>