New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Jump to bottom

HDF5 1.8.16 apparent problem. #158

Open

diekhans opened this issue Aug 3, 2020 · 1 comment

Collaborator

diekhans commented Aug 3, 2020

ComparativeGenomicsToolkit/cactus#103 is getting a failure from halSetMetadata

halSetMetadata tmp_alignment.hal CACTUS_COMMIT c087fe129d8c337c7eab961cebd49c80bcc20ef3

HDF5-DIAG: Error detected in HDF5 (1.8.16) thread 0:
  #000: H5A.c line 249 in H5Acreate2(): no write intent on file
    major: Invalid arguments to routine
    minor: Write failed
terminate called after throwing an instance of 'H5::AttributeIException'
Aborted

this doesn't happen with HDF5 1.8.12, so probably an API chance that needs to be tracked.

The text was updated successfully, but these errors were encountered:

Collaborator

glennhickey commented Aug 5, 2020

Hmm, could be the logic here:

https://github.com/ComparativeGenomicsToolkit/hal/blob/master/api/hdf5_impl/hdf5ExternalArray.h#L17-L25

needs fixing to handle 1.8.16 either as a special case, or maybe treating it like 1.10.

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment