Add example for using Manifest class

microbiomedata · Oct 23, 2024 · ea872c8 · ea872c8
1 parent b6813a1
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diff --git a/src/data/valid/Database-mass_spectrometry_gc.yaml b/src/data/valid/Database-mass_spectrometry_gc.yaml
@@ -12,6 +12,27 @@ data_generation_set:
     analyte_category: metabolome
     associated_studies:
       - nmdc:sty-00-555xxx
+    in_manifest:
+      - nmdc:manif-99-krhtest                                   #defined below
+  - id: nmdc:dgms-99-oW43DzG2
+    type: nmdc:MassSpectrometry
+    has_input:
+      - nmdc:procsm-11-9gjxns62                                 #random example process sample
+    has_output:
+      - nmdc:dobj-11-9n9n91                                     #randome example data object
+    has_mass_spectrometry_configuration: nmdc:mscon-99-oW43DzG0 #defined below
+    has_chromatography_configuration: nmdc:chrcon-99-oW43DzG1   #defined below
+    eluent_introduction_category: gas_chromatography
+    has_calibration: nmdc:calib-99-zUCd5Q                       #defined below
+    analyte_category: metabolome
+    associated_studies:
+      - nmdc:sty-00-555xxx
+    in_manifest:
+      - nmdc:manif-99-krhtest                                   #defined below
+manifest_set:
+  - id: nmdc:manif-99-krhtest
+    type: nmdc:Manifest
+    collection_type: instrument_run
 
 calibration_set:
   - id: nmdc:calib-99-zUCd5Q
@@ -53,4 +74,8 @@ data_object_set:
     url: https://emsl_site/example_gcms_emsl_run.raw     #example url, not real 
     name: example_gcms_emsl_run.raw                      #example name
     description: GCMS data file
-    file_size_bytes: 9208349052
+    file_size_bytes: 9208349052
+#manifest_set:
+#  - id: nmdc:manif-99-krhtest
+#    type: nmdc:Manifest
+#    collection_type: instrument_run
diff --git a/src/schema/nmdc.yaml b/src/schema/nmdc.yaml
@@ -303,6 +303,7 @@ classes:
       - functional_annotation_set
       - genome_feature_set
       - instrument_set
+      - manifest_set
       - material_processing_set
       - processed_sample_set
       - protocol_execution_set
@@ -1136,6 +1137,12 @@ slots:
     range: Configuration
     description: This property links a database object to the set of configurations within it.
 
+  manifest_set:
+    #TODO KRH: Do I need a mix in here?
+    mixins: object_set
+    range: Manifest
+    description: This property links a database object to the set of manifests within it.
+
   protocol_execution_set:
     mixins: object_set
     range: ProtocolExecution