nmdc-schema 11.11.1__py3-none-any.whl → 11.12.0__py3-none-any.whl

nmdc_schema/nmdc_materialized_patterns.schema.json

@@ -2649,9 +2649,9 @@
                     ]
                 },
                 "misc_param": {
-                    "description": "Any other measurement performed or parameter collected, that is not listed here",
+                    "description": "Structured miscellaneous property assertions for this Biosample. Use when a value cannot cleanly fit an existing, policy-governed slot.",
                     "items": {
-                        "$ref": "#/$defs/TextValue"
+                        "$ref": "#/$defs/PropertyAssertion"
                     },
                     "type": [
                         "array",
@@ -8540,7 +8540,7 @@
         },
         "Instrument": {
             "additionalProperties": false,
-            "description": "A material entity that is designed to perform a function in a scientific investigation, but is not a reagent.",
+            "description": "A material entity that is designed to perform a function in a scientific investigation, but is not a reagent. This class models the make and model of the instrument, not the specific instance of the instrument.",
             "properties": {
                 "alternative_identifiers": {
                     "description": "A list of alternative identifiers for the entity.",
@@ -13202,10 +13202,113 @@
             "title": "ProfilePositionEnum",
             "type": "string"
         },
+        "PropertyAssertion": {
+            "additionalProperties": false,
+            "description": "A structured record of data that doesn't fit nicely within the constraints of other NMDC AttributeValues. Uses primitive ranges only.",
+            "properties": {
+                "has_attribute_id": {
+                    "description": "CURIE or IRI for the property (MIxS slot, NMDC slot, ENVO/OBI term, etc.).",
+                    "type": [
+                        "string",
+                        "null"
+                    ]
+                },
+                "has_attribute_label": {
+                    "description": "Human-readable label for the property (e.g., MIxS label, ENVO term label).",
+                    "type": [
+                        "string",
+                        "null"
+                    ]
+                },
+                "has_boolean_value": {
+                    "description": "Links a quantity value to a boolean",
+                    "type": [
+                        "boolean",
+                        "null"
+                    ]
+                },
+                "has_datetime_value": {
+                    "description": "Date-time value for the property in ISO-8601 format.",
+                    "type": [
+                        "string",
+                        "null"
+                    ]
+                },
+                "has_maximum_numeric_value": {
+                    "description": "The maximum value part, expressed as number, of the quantity value when the value covers a range.",
+                    "type": [
+                        "number",
+                        "null"
+                    ]
+                },
+                "has_minimum_numeric_value": {
+                    "description": "The minimum value part, expressed as number, of the quantity value when the value covers a range.",
+                    "type": [
+                        "number",
+                        "null"
+                    ]
+                },
+                "has_numeric_value": {
+                    "description": "Links a quantity value to a number",
+                    "type": [
+                        "number",
+                        "null"
+                    ]
+                },
+                "has_quantity_kind_id": {
+                    "description": "Optional CURIE or IRI for the physical quantity kind (e.g., qudt:QuantityKind).",
+                    "type": [
+                        "string",
+                        "null"
+                    ]
+                },
+                "has_raw_value": {
+                    "description": "Original contributor string representation (unparsed)",
+                    "type": "string"
+                },
+                "has_unit": {
+                    "description": "UCUM unit code (required only when numeric value is present)",
+                    "type": [
+                        "string",
+                        "null"
+                    ]
+                },
+                "has_value_term_id": {
+                    "description": "CURIE or IRI for categorical values (ENVO, PATO, METPO, etc.).",
+                    "type": [
+                        "string",
+                        "null"
+                    ]
+                },
+                "type": {
+                    "description": "the class_uri of the class that has been instantiated",
+                    "enum": [
+                        "nmdc:PropertyAssertion"
+                    ],
+                    "type": "string"
+                }
+            },
+            "required": [
+                "has_raw_value",
+                "type"
+            ],
+            "title": "PropertyAssertion",
+            "type": "object"
+        },
         "Protocol": {
             "additionalProperties": false,
             "description": "",
             "properties": {
+                "analysis_type": {
+                    "description": "Select all the data types associated or available for this biosample",
+                    "items": {
+                        "$ref": "#/$defs/AnalysisTypeEnum"
+                    },
+                    "type": [
+                        "array",
+                        "null"
+                    ]
+                },
                 "description": {
                     "description": "a human-readable description of a thing",
                     "type": [
@@ -13220,6 +13323,10 @@
                         "null"
                     ]
                 },
+                "protocol_for": {
+                    "$ref": "#/$defs/ProtocolForEnum",
+                    "description": "The type of planned process that the protocol describes."
+                },
                 "type": {
                     "description": "the class_uri of the class that has been instantiated",
                     "enum": [
@@ -13258,6 +13365,43 @@
             "title": "ProtocolCategoryEnum",
             "type": "string"
         },
+        "ProtocolForEnum": {
+            "description": "The permitted values for describing the type of planned process that a protocol describes.",
+            "enum": [
+                "AnnotatingWorkflow",
+                "ChemicalConversionProcess",
+                "ChromatographicSeparationProcess",
+                "CollectingBiosamplesFromSite",
+                "DataEmitterProcess",
+                "DataGeneration",
+                "DissolvingProcess",
+                "Extraction",
+                "FiltrationProcess",
+                "LibraryPreparation",
+                "MagsAnalysis",
+                "MassSpectrometry",
+                "MaterialProcessing",
+                "MetabolomicsAnalysis",
+                "MetagenomeAnnotation",
+                "MetagenomeAssembly",
+                "MetaproteomicsAnalysis",
+                "MetatranscriptomeAnnotation",
+                "MetatranscriptomeAssembly",
+                "MetatranscriptomeExpressionAnalysis",
+                "MixingProcess",
+                "NomAnalysis",
+                "NucleotideSequencing",
+                "PlannedProcess",
+                "Pooling",
+                "ReadBasedTaxonomyAnalysis",
+                "ReadQcAnalysis",
+                "StorageProcess",
+                "SubSamplingProcess",
+                "WorkflowExecution"
+            ],
+            "title": "ProtocolForEnum",
+            "type": "string"
+        },
         "QuadPosEnum": {
             "description": "",
             "enum": [
@@ -15074,6 +15218,7 @@
                 "J/K",
                 "Cel",
                 "cm",
+                "cP",
                 "d",
                 "g",
                 "h",
@@ -15107,15 +15252,14 @@
                 "g/m3",
                 "m2",
                 "atm",
+                "V",
                 "mV",
-                "PSU",
                 "L",
                 "um",
-                "y",
                 "1",
                 "uL/kg",
                 "kg",
-                "ppt",
+                "[ppth]",
                 "g/g",
                 "lx",
                 "mg/m3/d",
@@ -15154,6 +15298,7 @@
                 "rad",
                 "sr",
                 "Hz",
+                "1/d",
                 "kHz",
                 "MHz",
                 "GHz",
@@ -15164,23 +15309,46 @@
                 "MJ",
                 "W",
                 "kW",
-                "API",
                 "mbar",
-                "ratio",
-                "J/Cel",
-                "uE/m2/s",
                 "kW/m2",
-                "people",
-                "pets",
-                "plants",
                 "umol/s/m2",
                 "m3/d",
                 "L/h",
-                "pH",
+                "[pH]",
                 "kW/m2/d",
-                "NTU",
+                "[NTU]",
+                "[FNU]",
                 "m3/min",
-                "km/h"
+                "km/h",
+                "[lb_av]",
+                "kg/kg",
+                "ug/m3",
+                "meq/L",
+                "lm/m2",
+                "mg",
+                "umol/L/h",
+                "g/cm3",
+                "g/L",
+                "wk",
+                "[g]",
+                "m/s2",
+                "mol/g",
+                "g/m2/d",
+                "Gy",
+                "RAD",
+                "[sft_i]",
+                "[cft_i]",
+                "m3",
+                "ug",
+                "mm/a",
+                "cm2",
+                "erg/cm2/s",
+                "g/m2",
+                "L/s",
+                "cm3/cm3",
+                "[kn_i]",
+                "m3/s",
+                "[in_i]"
             ],
             "title": "UnitEnum",
             "type": "string"
@@ -15641,5 +15809,5 @@
     },
     "title": "NMDC",
     "type": "object",
-    "version": "11.11.1"
+    "version": "11.12.0"
 }