griffithlab/pVACtools: 4.1.1

This is a bugfix release. It fixes the following problem(s):

• The previous version updated how the all_epitopes.tsv file was parsed when creating the aggregated report and NA values are now parsed as native pandas nan. However, this update was not handled correctly for the Mutation Position column, leading to errors with NA values in that column. This release fixes this error. (#1079)
• The previous version would write the DeepImmuno output file in the same location for multiple prediction calls. This would lead to errors when running in multi-threaded mode. This releases updates the code to write DeepImmuno outputs to unique file locations. (#1078)
• This release updates how the list of combinatorial class II alleles is created in order to return it as a sorted list, creating a consistent order when writing the input.yml log file. (#1077)
• This release updates the GitHub commit for the pVACview demo data in order to pull the latest version of this data, including DeepImmuno and BigMHC prediction data. (#1073)
• This release fixes an issue where the pVACvector visualization images were saved in a low resolution format resulting in blurry images. (#1071)
• This release fixes an issue where the method to determine the matched wildtype result didn't return where appropriate, causing the mutation position to not be set correctly. (#1082)
• This release fixes some typos. (#1072)