AMReX-Codes/amrex

HDF5 error on WriteSingleLevelPlotfileHDF5

mirenradia opened this issue · 6 comments

mirenradia commented

Since #4015, I have been getting the following HDF5 error when I call WriteSingleLevelPlotfileHDF5:

HDF5-DIAG: Error detected in HDF5 (1.12.1) thread 0:
  #000: ../../src/H5Pdcpl.c line 2189 in H5Pget_chunk(): not a chunked storage layout
    major: Invalid arguments to routine
    minor: Bad value

Here are the relevant GNU Make configuration variables of my AMReX application:

DEBUG = FALSE
USE_MPI = FALSE
USE_HDF5 = TRUE
COMP = gnu
DIM = 3

I am building on my laptop running Fedora Linux 40 with the following package versions

  • gcc 14.1.1-7.fc40
  • hdf5-devel 1.12.1-15.fc40

FWIW, the MultiFab I'm writing is comprised of a single box of size $32^3$.

WeiqunZhang commented

Maybe we need to call H5P_getlayout to check if it's chunked data before calling H5Pget_chunk? @mirenradia Could you try?

arnav-singhal commented

Yeah, pretty sure that's it. I'm testing it out locally right now.

arnav-singhal commented

Reproduced and fixed in #4034. In the meantime, the hdf5 files generated by the bugged program should still be all good and readable, as far as I can tell.

atmyers commented

@arnav-singhal Thanks for the fix! @mirenradia - could you verify that the issue is fixed on development and re-open this issue if not?

mirenradia commented

I can confirm that #4034 has resolved the issue for me. Thanks for the quick bugfix @arnav-singhal!