diff --git a/hAMRonization/AmrFinderPlusIO.py b/hAMRonization/AmrFinderPlusIO.py index 25aa61b..495a1ea 100644 --- a/hAMRonization/AmrFinderPlusIO.py +++ b/hAMRonization/AmrFinderPlusIO.py @@ -134,4 +134,3 @@ def parse(self, handle): if skipped_truncated > 0: warnings.warn(f"Skipping {skipped_truncated} records with INTERNAL_STOP " f"from {self.metadata['input_file_name']}") - diff --git a/hAMRonization/summarize.py b/hAMRonization/summarize.py index 2e66dad..b85b92c 100644 --- a/hAMRonization/summarize.py +++ b/hAMRonization/summarize.py @@ -745,7 +745,6 @@ def summarize_reports(report_paths, summary_type, output_path=None): file=sys.stderr, ) - # sort records by input_file_name, tool_config i.e. toolname, version, # db_name, db_versions, and then within that by gene_symbol combined_reports = combined_reports.sort_values(