Failing at step 4

[MCH74]

Hello, The pipeline keeps failing at step 4. This step seems to complete and produces output but then fails with several HDF5 errors. Here is an excerpt of the ./temp/step4/LoRDEC.err file:

!!! file present : /EBB-ZIVNFS/harrisom/HALC_contig/short_reads.fa_k25_s3.h5 graph created HDF5-DIAG: Error detected in HDF5 (1.8.18) thread 0: #000: /home/julien/vcs/lordec/gatb-core-1.4.1/gatb-core/thirdparty/hdf5/src/H5F.c line 604 in H5Fopen(): unable to open file major: File accessibilty minor: Unable to open file

There are in total 13 such errors.

And here is the final line of the ./temp/step4/LoRDEC.out file:

Error message PacBio bank Unable to open bank './temp/step3/HALC.repeatused.fa' (if it is a list of files, perhaps some of the files inside don't exist)

Thank you for any tips. Mark