3 NVIDIA Grace-Hopper nodes (GH200 480) are now available. See Using Bede for more information.




When loaded in conjunction with an MPI module such as openmpi, the hdf5 module provides both the serial and parallel versions of the library.

module load hdf5

module load hdf5/1.10.7

Known issues#

The parallel functionality relies on a technology called MPI-IO, which is currently subject to the following known issue on Bede:

  • HDF5 does not pass all of its parallel tests with OpenMPI 4.x. If you are using this MPI and your application continues to run but does not return from a call to the HDF5 library, you may have hit a similar issue. The current workaround is to instruct OpenMPI to use an alternative MPI-IO implementation with the command: export OMPI_MCA_io=ompio The trade off is that, in some areas, this alternative is extremely slow and so should be used with caution.