[MOAB-dev] moab-announce Digest, Vol 5, Issue 2

[Hong-Jun Kim]

Actually, I can not replicate the problem in my machine.
Can you check if your machine is 64bit with "uname -m" command?

Could anyone have any idea about the question below?
Can "netcdf-4" disabled netcdf cause any segmentation error?

> Also, before I built MOAB, when I was trying to build netcdf,
> configure complained it could not find the z library, so I turned off
> "netcdf-4" feature, in other words, the netcdf library was not built
> on top of hdf5/zlib. Could this be the problem?

Thanks.

Hong-Jun


> Hi Hong-Jun,
> 
> I still have the same problems after chaning "LFLAGS=-static".
> "config.log", "mbcn_test.log" and "test-suite.log" are all attached.
> But I'm not sure what you mean by "error signs"..
> Also, before I built MOAB, when I was trying to build netcdf,
> configure complained it could not find the z library, so I turned off
> "netcdf-4" feature, in other words, the netcdf library was not built
> on top of hdf5/zlib. Could this be the problem? I'm still trying to
> fix the "can't find z lib" error with netcdf.
> 
> Thanks for your help!
> 
> Tiantian
> 
> 
> On Wed, Oct 12, 2011 at 1:19 PM, Hong-Jun Kim < hongjun at mcs.anl.gov >
> wrote:
> 
> 
> If you still have the same problems with Tim's suggestion as below,
> could you please send me your "config.log" and error signs for me to
> replicate it?
> 
> In addition, can you use " moab-dev at mcs.anl.gov " for this kind of
> question?
> "moab-announce" is for announcing new things and upgrades and looks it
> has some latencies to get mail.(I just got Tim's message which looks
> sent yesterday)
> 
> Thanks.
> 
> -----------------------------
> Hong-Jun Kim
> Post-doc researcher
> MCS, Argonne National Laboratory
> 9700 S. Cass Ave. B240/R2147
> Argonne, IL 60439
> 630-252-4791
> hongjun at mcs.anl.gov
> -----------------------------
> 
> > Hong-Jun,
> > Can you check this out? Tiantian, we haven't seen this problem
> > anywhere. The output from your configure looks like
> > you're on a 64bit machine, but can you verify that? The only other
> > thing that looks strange in your configure is the
> > LFLAGS=-static; you should be able to get the same thing, in a more
> > standard way, using --disable-shared
> > --enable-static. Could you try that? Thanks.
> >
> > - tim
> >
> > On 10/11/2011 12:58 PM, Tiantian Xu wrote:
> > >
> > > Hi,
> > >
> > > I was trying to build moab but met with the "mbcn_test fail"
> > > during
> > > make
> > > check.
> > > The commands I used to build the library were:
> > >
> > > ./configure LFLAGS=-static
> > > --with-mpi=/home/tiantian/ITL/mpich2-1.4.1p1/gcc
> > > --with-hdf5=/home/tiantian/hdf5
> > > --with-netcdf=/home/tiantian/ITL/netcdf-4.1.3/gcc
> > > --with-zlib=/home/tiantian/ITL/zlib-1.2.5/gcc
> > > --with-szip=/home/tiantian/ITL/szip-2.1/gcc
> > > --prefix=/home/tiantian/ITL/moab 2>&1 | tee configure.log
> > > make 2>&1 | make.log
> > > make check 2>&1 | tee make.check.log
> > >
> > > Looks like the mbcn_test is about query on entities, I don't know
> > > why
> > > this went wrong. Later I ignored the make check errors and did
> > > "make
> > > install". I tried to perform parallel read/write and found
> > > mbconvert
> > > went wrong too:
> > >
> > > $mpiexec -np 2 ./mbconvert -O PARALLEL=READ_PART -O
> > > PARTITION=MATERIAL_SET -O PARALLEL_RESOLVE_SHARED_ENTS -O
> > > PARALLEL_GHOSTS=3.0.1 -o PARALLEL=WRITE_PART ./64bricks_512hex.h5m
> > > dummy.h5m
> > > Read "./64bricks_512hex.h5m"
> > >
> > > =====================================================================================
> > > = BAD TERMINATION OF ONE OF YOUR APPLICATION PROCESSES
> > > = EXIT CODE: 139
> > > = CLEANING UP REMAINING PROCESSES
> > > = YOU CAN IGNORE THE BELOW CLEANUP MESSAGES
> > > =====================================================================================
> > > APPLICATION TERMINATED WITH THE EXIT STRING: Segmentation fault
> > > (signal 11)
> > >
> > > I suspect some fundamental functions in moab were not properly
> > > made?
> > > I had attached the log files. Please take a look.
> > >
> > > Thanks a lot for your help!
> > >
> > > Best,
> > > Tiantian
> > >
> >
> > --
> > ================================================================
> > "You will keep in perfect peace him whose mind is
> > steadfast, because he trusts in you." Isaiah 26:3
> >
> > Tim Tautges Argonne National Laboratory
> > ( tautges at mcs.anl.gov ) (telecommuting from UW-Madison)
> > phone: (608) 263-8485 1500 Engineering Dr.
> > fax: (608) 263-4499 Madison, WI 53706
> >
> >
> >
> > ------------------------------
> >
> > _______________________________________________
> > moab-announce mailing list
> > moab-announce at mcs.anl.gov
> > https://lists.mcs.anl.gov/mailman/listinfo/moab-announce
> >
> >
> > End of moab-announce Digest, Vol 5, Issue 2
> > *******************************************