Issues with Importing Large Datasets in HDF5 - Need Help

HDF5 Library
1

Hello all,

I have been using HDF5 to process/analyze large datasets, but I have run into some problems trying to import really large files. My experience has been that if I try to load over a certain sized data set, it either crashes or takes an extremely long time, and sometimes the data does not load at all.

So far I have done the following:

I have used h5py and the HDF5 tools to try importing the files.

I have checked to make sure the file format is correct and consistent with HDF5 format specifications.

My machine has plenty of RAM, and I have made sure I have an adequate amount of disk space.

I came across this website:https://forum.hdfgroup.org/t/recovering-dataset-cissp-training-in-hdf5-file-deleted-with-h5py/4349 but still facing issues.

I’m really wondering if this is a memory management issue, or if there is a more efficient way to handle very large files with HDF5. Could it possibly be an issue with chunking or compression? Also, any suggestions for optimizing the performance for reading/writing data in HDF5 large datasets would be really appreciated.

Has anyone else had similar experiences or insight on this?

Thank you for any advice!

Regards,
Megancharlotte

2

Without providing specific information it is impossible to give any useful suggestion.

  1. What do you mean by “importing the files”? Import where?
  2. Can you share any code of what you are trying to achieve and its errors?
  3. Output of h5dump -H -p command on one of your files to get an idea of their content and settings.