3.1.0

This release adds the following new features:

• When running the pipelines with the --netmhc-stab flag enabled, the NetMHCstab allele column now also reports the distance of the NetMHCstabpan allele when that allele is not identical to the HLA Allele of the original result.
• When running the pipelines with a set of individual class II alleles, the pipeline now also auto-generates valid combinations of these alleles so that users no longer need to explicitly provide these combinations.

This release also fixes the following problem(s):

• Some class I alleles are not supported by NetMHCstabpan and will lead to an error when attempt to make predictions with them. This release will skip such alleles for the stability prediction step.
• For very large result sets the filtering steps would stall or be killed because the steps would run out of memory. This release fixes this issue.
• This release adds better handling of timeout errors while running NetMHCstabpan and/or NetChop.