Added bacmet database to abricate (#153)

* added bacmet database to abricate

* changed version of docker and updated changelog

Author: tiagofilipe12

changelog.md

@@ -22,6 +22,7 @@ resolution
 
 - Added removal of duplicate IDs from `reads_download` component input.
 - Added seed parameter to `downsample_fastq` component.
+- Added bacmet database to `abricate` component.
 - Added default docker option to avoid docker permission errors.
 - Changed the default URL generated by inspect and report commands. 
 

flowcraft/generator/components/annotation.py

@@ -34,7 +34,7 @@ def __init__(self, **kwargs):
         self.params = {
             "abricateDatabases": {
                 "default": '["resfinder", "card", "vfdb", "plasmidfinder", '
-                           '"virulencefinder"]',
+                           '"virulencefinder", "bacmet"]',
                 "description": "Specify the databases for abricate."
             },
             "abricateDataDir": {
@@ -59,11 +59,11 @@ def __init__(self, **kwargs):
         self.directives = {
             "abricate": {
                 "container": "flowcraft/abricate",
-                "version": "0.8.0-1"
+                "version": "0.8.0-3"
             },
             "process_abricate": {
                 "container": "flowcraft/abricate",
-                "version": "0.8.0-1"
+                "version": "0.8.0-3"
             }
         }