Restore IEEE schemas (#34)

* Revert "Revert "Feature/reference ieee schemas""
This reverts commit fea0cd9.

* Update .gitignore

.gitignore

@@ -1,6 +1,8 @@
+
 .gradle/
-build/
 __pycache__/
+build/
+/test-data-validator/venv/
 
 ### macOS ###
 .DS_Store

schema/omh/body-fat-percentage-2.0.json

@@ -0,0 +1,40 @@
+{
+    "$schema": "http://json-schema.org/draft-07/schema#",
+    "$id": "https://w3id.org/openmhealth/schemas/omh/body-fat-percentage-2.0.json",
+    "description": "This schema represents a person's body fat percentage.",
+    "type": "object",
+    "references": [
+        {
+            "description": "The LOINC code represents Body fat percentage:Mass Fraction:Point in time:^Patient:Quantitative:Measured",
+            "url": "http://purl.bioontology.org/ontology/LNC/41982-0"
+        }
+    ],
+    "definitions": {
+        "percent-unit_value": {
+            "$ref": "https://w3id.org/ieee/ieee-1752-schema/percent-unit-value-1.0.json"
+        },
+        "time_frame": {
+            "$ref": "https://w3id.org/ieee/ieee-1752-schema/time-frame-1.0.json"
+        },
+        "descriptive_statistic": {
+            "$ref": "https://w3id.org/ieee/ieee-1752-schema/descriptive-statistic-1.0.json"
+        }
+    },
+
+    "properties": {
+        "body_fat_percentage": {
+            "$ref": "#/definitions/percent-unit_value"
+        },
+        "effective_time_frame": {
+            "$ref": "#/definitions/time_frame"
+        },
+        "descriptive_statistic": {
+            "$ref": "#/definitions/descriptive_statistic"
+        }
+    },
+
+    "required": [
+        "body_fat_percentage",
+        "effective_time_frame"
+    ]
+}

schema/omh/body-fat-percentage-2.x.json

@@ -0,0 +1 @@
+body-fat-percentage-2.0.json

schema/omh/body-height-2.0.json

@@ -0,0 +1,40 @@
+{
+    "$schema": "http://json-schema.org/draft-07/schema#",
+    "$id": "https://w3id.org/openmhealth/schemas/omh/body-height-2.0.json",
+    "description": "This schema represents a person's body height.",
+    "type": "object",
+    "references": [
+        {
+            "description": "The SNOMED code represents Body height measure (observable entity)",
+            "url": "http://purl.bioontology.org/ontology/SNOMEDCT/50373000"
+        }
+    ],
+    "definitions": {
+        "length_unit_value": {
+            "$ref": "https://w3id.org/ieee/ieee-1752-schema/length-unit-value-1.0.json"
+        },
+        "time_frame": {
+            "$ref": "https://w3id.org/ieee/ieee-1752-schema/time-frame-1.0.json"
+        },
+        "descriptive_statistic": {
+            "$ref": "https://w3id.org/ieee/ieee-1752-schema/descriptive-statistic-1.0.json"
+        }
+    },
+
+    "properties": {
+        "body_height": {
+            "$ref": "#/definitions/length_unit_value"
+        },
+        "effective_time_frame": {
+            "$ref": "#/definitions/time_frame"
+        },
+        "descriptive_statistic": {
+            "$ref": "#/definitions/descriptive_statistic"
+        }
+    },
+
+    "required": [
+        "body_height",
+        "effective_time_frame"
+    ]
+}

schema/omh/body-height-2.x.json

@@ -0,0 +1 @@
+body-height-2.0.json

schema/omh/body-location-1.1.json

@@ -0,0 +1,27 @@
+{
+    "$schema": "http://json-schema.org/draft-07/schema#",
+    "$id": "https://w3id.org/openmhealth/schemas/omh/body-location-1.1.json",
+    "description": "A location on the body. This is an incomplete value set. Values from the Anatomical or acquired body structure hierarchy of SNOMED can be added as needed.",
+    "type": "string",
+    "references": [
+        {
+            "description": "The SNOMED code represents Anatomical or acquired body structure (body structure)",
+            "url": "http://purl.bioontology.org/ontology/SNOMEDCT/442083009"
+        }
+    ],
+
+    "enum": [
+        "left ankle",
+        "right ankle",
+        "left hip",
+        "right hip",
+        "left thigh",
+        "right thigh",
+        "left thorax",
+        "middle left thorax",
+        "left upper arm",
+        "right upper arm",
+        "left wrist",
+        "right wrist"
+    ]
+}

schema/omh/body-location-1.x.json

@@ -1 +1 @@
-body-location-1.0.json
+body-location-1.1.json

schema/omh/body-mass-index-3.0.json

@@ -0,0 +1,57 @@
+{
+    "$schema": "http://json-schema.org/draft-07/schema#",
+    "$id": "https://w3id.org/openmhealth/schemas/omh/body-mass-index-3.0.json",
+    "description": "This schema represents a person's body mass index (BMI)",
+    "type": "object",
+    "references": [
+        {
+            "description": "The SNOMED code represents Body mass index (observable entity)",
+            "url": "http://purl.bioontology.org/ontology/SNOMEDCT/60621009"
+        }
+    ],
+    "definitions": {
+        "unit_value": {
+            "$ref": "https://w3id.org/ieee/ieee-1752-schema/unit-value-1.0.json"
+        },
+        "time_frame": {
+            "$ref": "https://w3id.org/ieee/ieee-1752-schema/time-frame-1.0.json"
+        },
+        "descriptive_statistic": {
+            "$ref": "https://w3id.org/ieee/ieee-1752-schema/descriptive-statistic-1.0.json"
+        }
+    },
+
+    "properties": {
+        "body_mass_index": {
+            "allOf": [
+                {
+                    "$ref": "#/definitions/unit_value"
+                },
+                {
+                    "properties": {
+                        "unit": {
+                            "references": [
+                                {
+                                    "description": "The unit of measure the element.  Allowed value is drawn from the Areic mass Units Common Synonyms (non-UCUM).",
+                                    "url": "http://download.hl7.de/documents/ucum/ucumdata.html"
+                                }
+                            ],
+                            "enum": ["kg/m^2"]
+                        }
+                    }
+                }
+            ]
+        },
+        "effective_time_frame": {
+            "$ref": "#/definitions/time_frame"
+        },
+        "descriptive_statistic": {
+            "$ref": "#/definitions/descriptive_statistic"
+        }
+    },
+
+    "required": [
+        "body_mass_index",
+        "effective_time_frame"
+    ]
+}

schema/omh/body-mass-index-3.x.json

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+body-mass-index-3.0.json

schema/omh/body-temperature-4.0.json

@@ -0,0 +1,64 @@
+{
+    "$schema": "http://json-schema.org/draft-07/schema#",
+    "$id": "https://w3id.org/openmhealth/schemas/omh/body-temperature-4.0.json",
+    "description": "This schema represents a person's body temperature.",
+    "type": "object",
+    "references": [
+        {
+            "description": "The SNOMED code represents body temperature (observable entity)",
+            "url": "http://purl.bioontology.org/ontology/SNOMEDCT/386725007"
+        }
+    ],
+
+    "definitions": {
+        "temperature_unit_value": {
+            "$ref": "https://w3id.org/ieee/ieee-1752-schema/temperature-unit-value-1.0.json"
+        },
+        "time_frame": {
+            "$ref": "https://w3id.org/ieee/ieee-1752-schema/time-frame-1.0.json"
+        },
+        "temporal_relationship_to_sleep": {
+            "$ref": "temporal-relationship-to-sleep-1.x.json"
+        },
+        "descriptive_statistic": {
+            "$ref": "https://w3id.org/ieee/ieee-1752-schema/descriptive-statistic-1.0.json"
+        }
+    },
+
+    "properties": {
+        "body_temperature": {
+            "$ref": "#/definitions/temperature_unit_value"
+        },
+        "effective_time_frame": {
+            "$ref": "#/definitions/time_frame"
+        },
+        "descriptive_statistic": {
+            "$ref": "#/definitions/descriptive_statistic"
+        },
+        "measurement_location": {
+            "description": "The value set is taken from SNOMED CT and LOINC. For common temperature locations, the adjective is used rather than the actual location name (e.g., axillary rather than armpit). Forehead indicates the use of a disposable strip.",
+            "type": "string",
+            "enum": [
+                "axillary",
+                "finger",
+                "forehead",
+                "oral",
+                "rectal",
+                "temporal artery",
+                "toe",
+                "tympanic",
+                "wrist",
+                "vagina"
+            ]
+        },
+
+        "temporal_relationship_to_sleep": {
+            "description": "The temporal relationship to sleep of the temperature measurement(s). The lowest body temperature attained during rest, usually estimated by a temperature measurement immediately on waking up and before any physical activity has been undertaken is called basal temperature.",
+            "$ref": "#/definitions/temporal_relationship_to_sleep"
+        }
+    },
+    "required": [
+        "body_temperature",
+        "effective_time_frame"
+    ]
+}

schema/omh/body-temperature-4.x.json

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+body-temperature-4.0.json

schema/omh/body-weight-3.0.json

@@ -0,0 +1,41 @@
+{
+    "$schema": "http://json-schema.org/draft-07/schema#",
+    "$id": "https://w3id.org/openmhealth/schemas/omh/body-weight-2.0.json",
+    "description": "This schema represents a person's body weight.",
+
+    "type": "object",
+    "references": [
+        {
+            "description": "The SNOMED code represents Body weight measure (observable entity)",
+            "url": "http://purl.bioontology.org/ontology/SNOMEDCT/363808001"
+        }
+    ],
+    "definitions": {
+        "mass_unit_value": {
+            "$ref": "mass-unit-value-1.x.json"
+        },
+        "time_frame": {
+            "$ref": "https://w3id.org/ieee/ieee-1752-schema/time-frame-1.0.json"
+        },
+        "descriptive_statistic": {
+            "$ref": "https://w3id.org/ieee/ieee-1752-schema/descriptive-statistic-1.0.json"
+        }
+    },
+
+    "properties": {
+        "body_weight": {
+            "$ref": "#/definitions/mass_unit_value"
+        },
+        "effective_time_frame": {
+            "$ref": "#/definitions/time_frame"
+        },
+        "descriptive_statistic": {
+            "$ref": "#/definitions/descriptive_statistic"
+        }
+    },
+
+    "required": [
+        "body_weight",
+        "effective_time_frame"
+    ]
+}

schema/omh/body-weight-3.x.json

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+body-weight-3.0.json

schema/omh/temperature-unit-value-1.0.json

@@ -1,5 +1,10 @@
 {
     "$schema": "http://json-schema.org/draft-04/schema#",
+    "deprecation": {
+        "reason": "This schema is now deprecated, in favor of the IEEE 1752.1 schema of the same name.",
+        "supersededBy": "https://w3id.org/ieee/ieee-1752-schema/temperature-unit-value.json",
+        "date": "2024-01-31"
+    },
     "type": "object",
     "description": "This schema represents a temperature (intensity of heat)",
     "references": [

test-data/omh/body-fat-percentage/2.0/shouldFail/empty-document.json

@@ -0,0 +1 @@
+{}

test-data/omh/body-fat-percentage/2.0/shouldFail/invalid-unit.json

@@ -0,0 +1,9 @@
+{
+    "body_fat_percentage": {
+        "value": 16,
+        "unit": "kg"
+    },
+    "effective_time_frame": {
+        "date_time": "2023-02-05T07:25:00Z"
+    }
+}

test-data/omh/body-fat-percentage/2.0/shouldFail/missing-time-frame.json

@@ -0,0 +1,6 @@
+{
+    "body_fat_percentage": {
+        "value": 16,
+        "unit": "%"
+    }
+}

test-data/omh/body-fat-percentage/2.0/shouldPass/body-fat-percentage-only.json

@@ -0,0 +1,9 @@
+{
+    "body_fat_percentage": {
+        "value": 16,
+        "unit": "%"
+    },
+    "effective_time_frame": {
+        "date_time": "2023-02-05T07:25:00-08:00"
+    }
+}

test-data/omh/body-fat-percentage/2.0/shouldPass/with-statistic.json

@@ -0,0 +1,13 @@
+{
+    "body_fat_percentage": {
+        "value": 16,
+        "unit": "%"
+    },
+    "effective_time_frame": {
+        "time_interval": {
+            "start_date_time": "2023-01-01T00:00:00Z",
+            "end_date_time": "2023-12-31T23:59:59Z"
+        }
+    },
+    "descriptive_statistic": "maximum"
+}

test-data/omh/body-height/2.0/shouldFail/empty-document.json

@@ -0,0 +1 @@
+{}

test-data/omh/body-height/2.0/shouldFail/missing-time-frame.json

@@ -0,0 +1,6 @@
+{
+    "body_height": {
+        "value": 180,
+        "unit": "cm"
+    }
+}

test-data/omh/body-height/2.0/shouldFail/with-part-of-day.json

@@ -0,0 +1,12 @@
+{
+    "body_height": {
+        "value": 180,
+        "unit": "cm"
+    },
+    "effective_time_frame": {
+        "time_interval": {
+            "date": "2023-02-05",
+            "part_of_day": "morning"
+        }
+    }
+}