fix: cgm & garmin changes (#24)

* fix: 🐛 garmin adn cgm data * fix: 🐛 update file processing table * feat: ✨ add structure for v2 of file processing table * fix: 🐛 cgm object relocation * fix: 🐛 CGM object relocation * fix: 🐛 update schema for garmin-sleep
AI-READI · Nov 14, 2024 · 5064b51 · 5064b51
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diff --git a/docs/dataset/wearable-activity-monitor/wearable-activity-monitor.mdx b/docs/dataset/wearable-activity-monitor/wearable-activity-monitor.mdx
@@ -33,7 +33,7 @@ Respiration rate refers to the number of breaths a person takes per minute. It i
 
 ### Sleep
 
-During sleep, the [device](https://www.garmin.com/en-US/garmin-technology/health-science/sleep-tracking/) autonomously detects the user's sleep patterns and tracks movement throughout their typical sleep hours. Sleep-related metrics include **total sleep duration in hours**.
+During sleep, the [device](https://www.garmin.com/en-US/garmin-technology/health-science/sleep-tracking/) autonomously detects the user's sleep patterns and tracks movement throughout their typical sleep hours. Sleep-related metrics include **duration of sleep stages**.
 
 ### Stress
 
@@ -599,7 +599,7 @@ The AIREADI JSON schema for Physical activity calorie is as follows:
     "activity": [
       {
         "activity_name": "kcal_burned",
-        "duration": {
+        "calories_value": {
           "value": 0,
           "unit": "kcal"
         },
@@ -816,11 +816,8 @@ https://www.openmhealth.org/documentation/#/schema-docs/schema-library/schemas/o
 
 ```json
 {
-  "sleep_duration": {
-    "value": 7.5,
-    "unit": "h"
-  },
-  "effective_time_frame": {
+  "sleep_stage_state": "light",
+  "sleep_stage_time_frame": {
     "time_interval": {
       "start_date_time": "2016-02-05T20:35:00Z",
       "end_date_time": "2016-02-06T06:35:00Z"
@@ -846,11 +843,8 @@ The AIREADI JSON schema for Sleep is as follows:
   "body": {
     "sleep": [
       {
-        "sleep_duration": {
-          "value": 0,
-          "unit": "h"
-        },
-        "effective_time_frame": {
+        "sleep_stage_state": "light",
+        "sleep_stage_time_frame": {
           "time_interval": {
             "start_date_time": "YYYY-MM-DDThh:mm:ss",
             "end_date_time": "YYYY-MM-DDThh:mm:ss"
@@ -1058,7 +1052,7 @@ Stress: The negative stress values (-1 & -2) originate from the source, possibly
 
 There may be cases in which certain participants do not have certain files, e.g have no measurement file for sleep data. In these cases, the file path will display "none." However, there are also instances where a measurement file exists, but it contains no observations, similar to having data with no meaningful content.
 
-<a href="/fileProcessingTable" target="_blank">
+<a href="/v2-fileProcessingTable" target="_blank">
   See the table here
 </a>
 

diff --git a/docs/dataset/wearable-glucose-monitor/wearable-glucose-monitor.mdx b/docs/dataset/wearable-glucose-monitor/wearable-glucose-monitor.mdx
@@ -291,27 +291,29 @@ More information can be found here:
       },
       "timezone": "PST"
     },
-    "body": [
-      {
-        "effective_time_frame": {
-          "time_interval": {
-            "start_date_time": "YYYY-MM-DDThh:mm:ssZ",
-            "end_date_time": "YYYY-MM-DDThh:mm:ssZ"
-          }
-        },
-        "event_type": "event_type",
-        "source_device_id": "source_device_id",
-        "blood_glucose": {
-          "unit": "mg/dL",
-          "value": "val"
-        },
-        "transmitter_time": {
-          "unit": "long integer",
-          "value": "number"
-        },
-        "transmitter_id": "transmitter_id"
-      }
-    ]
+    "body": {
+      "cgm": [
+        {
+          "effective_time_frame": {
+            "time_interval": {
+              "start_date_time": "YYYY-MM-DDThh:mm:ssZ",
+              "end_date_time": "YYYY-MM-DDThh:mm:ssZ"
+            }
+          },
+          "event_type": "event_type",
+          "source_device_id": "source_device_id",
+          "blood_glucose": {
+            "unit": "mg/dL",
+            "value": "val"
+          },
+          "transmitter_time": {
+            "unit": "long integer",
+            "value": "number"
+          },
+          "transmitter_id": "transmitter_id"
+        }
+      ]
+    }
   }
   ```
 

diff --git a/docs/static/json/fileProcesing.json b/docs/static/json/fileProcesing.json
@@ -67,12 +67,12 @@
     {
         "Metadata Elements": "sleep_record_count",
         "Description": "Total number of sleep measurements recorded",
-        "Example": "12"
+        "Example": "328"
     },
     {
         "Metadata Elements": "average_sleep_hours",
         "Description": "Average sleep duration during the recording period",
-        "Example": "7.25"
+        "Example": "0.28"
     },
     {
         "Metadata Elements": "respiratory_rate_filename",
@@ -95,9 +95,9 @@
         "Example": "/wearable_activity_monitor/physical_activity/garmin_vivosmart5/0000/0000_activity.json"
     },
     {
-        "Metadata Elements": "physical_activity_num_records",
+        "Metadata Elements": "physical_activity_num_days",
         "Description": "Total number of measurements recorded",
-        "Example": "5524"
+        "Example": "19"
     },
     {
         "Metadata Elements": "average_daily_activity",

diff --git a/src/components/DirectFileProcessingTable.jsx b/src/components/DirectFileProcessingTable.jsx
@@ -3,7 +3,7 @@ import { useEffect } from 'react';
 function DirectFileProcessingTable() {
   useEffect(() => {
     // Open OMOP Table in a new tab
-    window.open('/fileProcessingTable', '_blank');
+    window.open('/v2-fileProcessingTable', '_blank');
 
     // Redirect the current page to the documentation
     window.location.replace('/docs/2/dataset/wearable-activity-monitor');

diff --git a/src/components/FileProcessingTable.jsx b/src/components/FileProcessingTable.jsx
@@ -3,7 +3,7 @@ import React from 'react';
 import FilterableTable from 'react-filterable-table';
 // eslint-disable-next-line import/no-unresolved
 import BrowserOnly from '@docusaurus/BrowserOnly';
-import fileProcessing from '../../static/json/fileProcesing.json';
+import fileProcessing from '../../docs/static/json/fileProcesing.json';
 
 export default function ClinicalLabTable() {
   // Fields to show in the table, and what object properties in the data they bind to

diff --git a/src/pages/v2-fileProcessingTable.jsx b/src/pages/v2-fileProcessingTable.jsx
@@ -0,0 +1,13 @@
+/* eslint-disable react/prop-types */
+/* eslint-disable react/button-has-type */
+import React from 'react';
+
+import FileProcessingTable from '../components/FileProcessingTable';
+
+export default function fileProcessingTable() {
+  return (
+    <div>
+      <FileProcessingTable />
+    </div>
+  );
+}