[FLASH-USERS] Compilation error with Parallel HDF5 1.10.5

[Mattia Cipriani]

Hi Ryan, 

Thank you for your interest in my problem and for digging down!
I will look at the changelog, if available, and also to the content of my header file you suggested.
However, as the name of the symbol suggests, I think that the problem is trying to use the laser IO which requires parallel hdf5. 
When I used the serial hdf5 1.10.4 I was not requiring laser IO, and I guess that that symbol was not required.
Maybe something did not work with the hdf5 parallel build, even if the check after make was completely successful.

Best regards,
Mattia


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  Dr Mattia Cipriani, PhD
    FSN-FUSPHY-SAD
    ENEA Centro Ricerche Frascati
    45, Via E. Fermi
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> Il giorno 7 mar 2019, alle ore 19:46, Ryan Farber <rjfarber at umich.edu> ha scritto:
> 
> Hi Mattia,
> 
> I haven't played around with hdf5 much, but I found that for my version of hdf5 (1.8.20+intelmpi-5.1+intel-16.0) that H5D_MPIO_FILTERS is defined in ${HDF5_DIR}/include/H5Ppublic.h
> 
> I'm guessing your problem is that that was present in your HDF5 1.10.4 serial but not 1.10.5 parallel.
> I'm not sure how to solve your problem. You could check if the hdf5 user guide / manual for 1.10.5 has a list of changes from the previous version which might explain what to do with instances of H5D_MPIO_FILTERS.
> Or, perhaps someone with more hdf5 experience than me can chime in.
> 
> Best,
> --------
> Ryan
> 
> 
>> On Wed, Mar 6, 2019 at 4:37 AM Mattia Cipriani <mattia.cipriani at enea.it> wrote:
>> Dear FLASH Users,
>> 
>> I am compiling FLASH4.5 code by using OpenMPI 3.1.2 and HDF5 1.10.5, to take advantage of OpenMPI for parallel data output.
>> I have the following issue:
>> 
>> /usr/mpi/gcc730/openmpi-3.1.2/bin/mpicc -I/afs/enea.it/project/iner/SIMULAZIONI/software/build/hdf5/include -DH5_USE_16_API -I/afs/enea.it/project/iner/SIMULAZIONI/software/build/hypre/include -ggdb -c -O2 -Wuninitialized -D_FORTIFY_SOURCE=2 -DFLASH_3T -DMAXBLOCKS=1000 -DNXB=16 -DNYB=16 -DNZB=1 -DN_DIM=2 io_h5_report_xfer_method.c
>> io_h5_report_xfer_method.c: In function ‘io_h5_report_xfer_method’:
>> io_h5_report_xfer_method.c:105:26: error: ‘H5D_MPIO_FILTERS’ undeclared (first use in this function)
>>        if (global_cause & H5D_MPIO_FILTERS) {
>>                           ^
>> io_h5_report_xfer_method.c:105:26: note: each undeclared identifier is reported only once for each function it appears in
>> make: *** [io_h5_report_xfer_method.o] Error 1
>> 
>> What can be the problem?
>> I am succesfully running the same FLASH version with HDF5 1.10.4 serial.
>> 
>> Best regards,
>> Mattia
>> 
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