6dd4e9044252c501142a644c7702a4e8614b1159,anvio/tables/genefunctions.py,TableForGeneFunctions,add_new_sources_to_functional_sources,#TableForGeneFunctions#Any#Any#Any#,97

Before Change

        elif gene_function_sources_in_db and gene_function_sources_both_in_db_and_incoming_dict:
            // some of the functions in the incoming dict match to what is already in the db. remove
            self.run.warning("Some of the annotation sources you want to add into the database are already in the db. So "
                             "anvi"o will REPLACE those with the incoming data from these sources: %s" % \
                                            ", ".join(gene_function_sources_both_in_db_and_incoming_dict))

            // remove those entries for matching sources:
            for source in gene_function_sources_both_in_db_and_incoming_dict:

After Change

                self.run.warning(f"A functional annotation source you wish to add to the database ({list(gene_function_sources_both_in_db_and_incoming_dict)[0]}) "
                                 f"is already in the database. Anvi"o will first drop the existing one so the incoming annotation could REPLACE it.")
            else:
                self.run.warning(f"Some functional annotation sources you wish to add to the database ({", ".join(gene_function_sources_both_in_db_and_incoming_dict)}) "
                                 f"are already in the database. Anvi"o will first drop them so the incoming annotations could REPLACE them.")

            // remove those entries for matching sources:
            self.drop_functions(database, gene_function_sources_both_in_db_and_incoming_dict)

Instances