diff --git a/workflows/bacterial_genomics/bacterial_genome_annotation/bacterial_genome_annotation-tests.yml b/workflows/bacterial_genomics/bacterial_genome_annotation/bacterial_genome_annotation-tests.yml index 96a7fc4de..7cc354b06 100644 --- a/workflows/bacterial_genomics/bacterial_genome_annotation/bacterial_genome_annotation-tests.yml +++ b/workflows/bacterial_genomics/bacterial_genome_annotation/bacterial_genome_annotation-tests.yml @@ -8,54 +8,54 @@ Select a AMRFinderPlus database: amrfinderplus_V3.12_2024-05-02.2 outputs: integronfinder2_logfile_text: - assert: + asserts: has_text: text: "Writing out results for replicon" integronfinder2_summary: - assert: - has_n_columns: - n: 6 + asserts: + has_text: + text: "contig00001" integronfinder2_results_tabular: - assert: - has_n_columns: - n: 14 + asserts: + has_text: + text: "contig00009_42" bakta_hypothetical_tabular: - assert: - has_n_columns: - n: 9 + asserts: + has_text: + text: "DHJLLP_04750" bakta_annotation_json: - assert: + asserts: has_text: text: "aa_hexdigest" bakta_annotation_tabular: - assert: - has_n_columns: - n: 9 + asserts: + has_text: + text: "Phosphotransferase system cellobiose-specific component IIC" isescan_results_tabular: - assert: - has_n_columns: - n: 24 + asserts: + has_text: + text: "IS256_162" isescan_summary_tabular: - assert: + asserts: has_text: text: "nIS" isescan_logfile_text: - assert: + asserts: has_text: text: "Both complete and partial IS elements are reported." plasmidfinder_result_json: - assert: + asserts: has_text: text: "positions_in_contig" plasmidfinder_results_tabular: - assert: + asserts: has_n_columns: n: 8 tooldistillator_summarize: - assert: - has_text: + asserts: + - that: "has_text" text: "CDS12738(DOp1)" - has_text: - text: "CALIN" - has_text: - text: "insertion_sequence" + - that: "has_text" + text: "calin" + - that: "has_text" + text: "PFAM" \ No newline at end of file