I\'ve just discovered the HDF5 format and I\'m considering using it to store 3D data spread over a cluster of Java application servers. I have found out that there are several i
Just wanted to point out another option, jhdf.io it's a pure Java library for HDF5. Currently it is read only and doesn't cover the full HDF5 specification. However it can open and read lots of HDF5 files, and I hope to improve it over time. Being pure Java it is much easier to integrate into other Java projects than other options and avoids the issues associated with JNI.
Disclaimer: I am the author of the jhdf
library.