Neofox v0.4.0

Merge branch 'develop' into 'master'

Release v0.4.0

See merge request tron/addannot!116

v0.3.0

Changes

• Improved documentation with input data, output data, installation guide, programmatic usage.
• GPLv3 licensed
• Added protocol buffers models describing neoantigens, patients and annotations. All the input and output of the application occur through these models
• Added many unit, integration and regression tests. Unit tests are now automated in Gitlab continuous integration environment
• Output supports now short-wide table, tall-skinny table or JSON
• Input supports now iCaM table and a CSV model compliant with the protocol buffers models
• Neoantigen input is now validated (eg: invalid aminoacids will be detected)
• The precision of float numbers in the annotations are now rounded to 5 decimal places
• Annotation names were audited for readability
• Support for parallelization of neoantigen annotation (~1000 neoantigens on 16 CPUs were annotated in ~20 minutes)