Merge pull request #1057 from griffithlab/pvacbind_el

Fix MHCflurry EL processing for pVACbind

pvactools/lib/pipeline.py

@@ -710,6 +710,7 @@ def parse_outputs(self, chunks, length):
                         'output_file'            : split_parsed_file_path,
                     }
                     params['sample_name'] = self.sample_name
+                    params['flurry_state'] = self.flurry_state
                     if self.additional_report_columns and 'sample_name' in self.additional_report_columns:
                         params['add_sample_name_column'] = True 
                     parser = self.output_parser(params)