HDF5 Segmentation fault

[crosenth]

I am having issues running run_discSnp++.sh multiple times in parallel. I am running this on an Ubuntu 22.04.5 machine. Here is a summary of the error:

HDF5-DIAG: Error detected in HDF5 (1.10.5) thread 0:                                                                                                                                                                                                                                                                                                                                          
  #000: /scratchdir/builds/workspace/gatb-discosnp/thirdparty/gatb-core/gatb-core/thirdparty/hdf5/src/H5Fint.c line 1277 in H5F__dest(): problems closing file                                                                                                                                                                                                                                
    major: File accessibilty                                                                   
    minor: Unable to release object
...
run_discoSnp++.sh: line 538: 1247014 Segmentation fault      (core dumped) ${graphCmd}

Could this be related to GATB/gatb-core#37?

Let me know if you need more info to reproduce the error.

Thank you

[pierrepeterlongo]

Hi
Sorry for this very late answer.
Are you still facing this issue? This may be due to a limitation on the free space on the device?