Merge pull request #2229 from microbiomedata/2182-add-genomad-file-ty…

…pe-enumerations

2182 add genomad file type enumerations

src/data/valid/Database-data_objects_genomad.yaml

@@ -0,0 +1,18 @@
+data_object_set:
+- id: nmdc:dobj-11-dtTMNa
+  type: nmdc:DataObject
+  description: "Virus summary nmdc:ann0vx38"
+  name: nmdc_wfmgan-11-abc123_virus_summary.tsv
+  data_object_type: Virus Summary
+  file_size_bytes: 1234
+- id: nmdc:dobj-11-dtTMNc
+  type: nmdc:DataObject
+  description: "Plasmid summary nmdc:ann0vx38"
+  name: nmdc_wfmgan-11-abc123_plasmid_summary.tsv
+  data_object_type: Plasmid Summary
+  file_size_bytes: 1234
+- id: nmdc:dobj-11-dtTMNd
+  type: nmdc:DataObject
+  description: "agg results nmdc:ann0vx38"
+  name: nmdc_wfmgan-11-abc12_aggregated_classification.tsv
+  data_object_type: GeNomad Aggregated Classification 

src/schema/basic_slots.yaml

@@ -607,6 +607,29 @@ enums:
   FileTypeEnum:
     permissible_values:
 
+      Virus Summary:
+        description: Tab separated file listing the viruses found by geNomad.
+        see_also: 
+          - https://portal.nersc.gov/genomad/
+        annotations:
+          file_name_pattern: '^_virus_summary\.tsv?$'
+
+      Plasmid Summary:
+        description: Tab separated file listing the plasmids found be geNomad.
+        see_also: 
+          - https://portal.nersc.gov/genomad/
+        annotations:
+          file_name_pattern: '^_plasmid_summary\.tsv?$'
+
+      GeNomad Aggregated Classification:
+        description: >-
+          Tab separated file which combines the results from neural network-based classification
+          and marker-based classification for virus and plasmid detection with geNomad.
+        see_also: 
+          - https://portal.nersc.gov/genomad/
+        annotations:
+          file_name_pattern: '^_aggregated_classification\.tsv?$'  
+
       Reference Calibration File:
         description: A file that contains data used to calibrate a natural organic matter or metabalomics analysis.