diff --git a/workflows/bacterial_genomics/amr_gene_detection/CHANGELOG.md b/workflows/bacterial_genomics/amr_gene_detection/CHANGELOG.md index 2e02859a8..0ae8f3667 100644 --- a/workflows/bacterial_genomics/amr_gene_detection/CHANGELOG.md +++ b/workflows/bacterial_genomics/amr_gene_detection/CHANGELOG.md @@ -1,5 +1,11 @@ # Changelog +## [1.1.2] 2024-09-19 + +### Manual update + +- Change percent identity threshold for Resfinder blast results in StarAMR from 98.0% to 90.0% + ## [1.1.1] 2024-07-08 ### Automatic update diff --git a/workflows/bacterial_genomics/amr_gene_detection/amr_gene_detection.ga b/workflows/bacterial_genomics/amr_gene_detection/amr_gene_detection.ga index 16290adad..a11f7e612 100644 --- a/workflows/bacterial_genomics/amr_gene_detection/amr_gene_detection.ga +++ b/workflows/bacterial_genomics/amr_gene_detection/amr_gene_detection.ga @@ -27,7 +27,7 @@ ], "format-version": "0.1", "license": "GPL-3.0-or-later", - "release": "1.1.1", + "release": "1.1.2", "name": "amr_gene_detection", "steps": { "0": { @@ -311,7 +311,7 @@ "owner": "nml", "tool_shed": "toolshed.g2.bx.psu.edu" }, - "tool_state": "{\"advanced\": {\"pid_threshold\": \"98.0\", \"plength_resfinder\": \"60.0\", \"plength_pointfinder\": \"95.0\", \"plength_plasmidfinder\": \"60.0\", \"genome_size_lower_bound\": \"4000000\", \"genome_size_upper_bound\": \"6000000\", \"minimum_N50_value\": \"10000\", \"minimum_contig_length\": \"300\", \"unacceptable_number_contigs\": \"1000\", \"report_all_blast\": false, \"exclude_negatives\": false, \"exclude_resistance_phenotypes\": false, \"mlst_scheme\": \"auto\", \"exclude_genes\": {\"exclude_genes_condition\": \"default\", \"__current_case__\": 0}, \"complex_mutations\": {\"complex_mutations_condition\": \"default\", \"__current_case__\": 0}, \"plasmidfinder_type\": \"include_all\"}, \"genomes\": {\"__class__\": \"ConnectedValue\"}, \"pointfinder_db\": {\"use_pointfinder\": \"disabled\", \"__current_case__\": 0}, \"__page__\": null, \"__rerun_remap_job_id__\": null}", + "tool_state": "{\"advanced\": {\"pid_threshold\": \"90.0\", \"plength_resfinder\": \"60.0\", \"plength_pointfinder\": \"95.0\", \"plength_plasmidfinder\": \"60.0\", \"genome_size_lower_bound\": \"4000000\", \"genome_size_upper_bound\": \"6000000\", \"minimum_N50_value\": \"10000\", \"minimum_contig_length\": \"300\", \"unacceptable_number_contigs\": \"1000\", \"report_all_blast\": false, \"exclude_negatives\": false, \"exclude_resistance_phenotypes\": false, \"mlst_scheme\": \"auto\", \"exclude_genes\": {\"exclude_genes_condition\": \"default\", \"__current_case__\": 0}, \"complex_mutations\": {\"complex_mutations_condition\": \"default\", \"__current_case__\": 0}, \"plasmidfinder_type\": \"include_all\"}, \"genomes\": {\"__class__\": \"ConnectedValue\"}, \"pointfinder_db\": {\"use_pointfinder\": \"disabled\", \"__current_case__\": 0}, \"__page__\": null, \"__rerun_remap_job_id__\": null}", "tool_version": "0.10.0+galaxy1", "type": "tool", "uuid": "10eed503-9e5b-4acf-8cd8-29e81d7668a5",