diff --git a/query-connector/e2e/alternate_queries.spec.ts b/query-connector/e2e/alternate_queries.spec.ts index f48827eb4..9592a4000 100644 --- a/query-connector/e2e/alternate_queries.spec.ts +++ b/query-connector/e2e/alternate_queries.spec.ts @@ -13,7 +13,7 @@ test.describe("alternate queries with the Query Connector", () => { test("query using form-fillable demo patient by phone number", async ({ page, }) => { - await page.getByRole("button", { name: "Go to the demo" }).click(); + await page.getByRole("button", { name: "Try it out" }).click(); await page.getByRole("button", { name: "Fill fields" }).click(); // Delete Last name and MRN to force phone number as one of the 3 fields @@ -50,7 +50,7 @@ test.describe("alternate queries with the Query Connector", () => { // test("social determinants query with generalized function", async ({ test("cancer query with generalized function", async ({ page }) => { - await page.getByRole("button", { name: "Go to the demo" }).click(); + await page.getByRole("button", { name: "Try it out" }).click(); await page.getByRole("button", { name: "Fill fields" }).click(); // Select FHIR server from drop down await page.getByRole("button", { name: "Advanced" }).click(); @@ -77,7 +77,7 @@ test.describe("alternate queries with the Query Connector", () => { test("form-fillable STI query using generalized function", async ({ page, }) => { - await page.getByRole("button", { name: "Go to the demo" }).click(); + await page.getByRole("button", { name: "Try it out" }).click(); await page.getByRole("button", { name: "Fill fields" }).click(); // Select FHIR server from drop down await page.getByRole("button", { name: "Advanced" }).click(); diff --git a/query-connector/e2e/customize_query.spec.ts b/query-connector/e2e/customize_query.spec.ts index 591f7543c..530606fde 100644 --- a/query-connector/e2e/customize_query.spec.ts +++ b/query-connector/e2e/customize_query.spec.ts @@ -10,7 +10,7 @@ test.describe("querying with the Query Connector", () => { // Start every test by navigating to the customize query workflow test.beforeEach(async ({ page }) => { await page.goto(TEST_URL); - await page.getByRole("button", { name: "Go to the demo" }).click(); + await page.getByRole("button", { name: "Try it out" }).click(); // Check that the info alert is visible and contains the correct text const alert = page.locator(".custom-alert"); diff --git a/query-connector/e2e/load.spec.ts b/query-connector/e2e/load.spec.ts index e11565471..f4b6eb026 100644 --- a/query-connector/e2e/load.spec.ts +++ b/query-connector/e2e/load.spec.ts @@ -18,7 +18,5 @@ test("landing page loads", async ({ page }) => { // Check that interactable elements are present (header and Get Started) await expect(page.getByRole("link", { name: metadata.title })).toBeVisible(); - await expect( - page.getByRole("button", { name: "Go to the demo" }), - ).toBeVisible(); + await expect(page.getByRole("button", { name: "Try it out" })).toBeVisible(); }); diff --git a/query-connector/e2e/query_workflow.spec.ts b/query-connector/e2e/query_workflow.spec.ts index 9b45d1862..9776a46ba 100644 --- a/query-connector/e2e/query_workflow.spec.ts +++ b/query-connector/e2e/query_workflow.spec.ts @@ -16,7 +16,7 @@ test.describe("querying with the Query Connector", () => { }); test("unsuccessful user query: no patients", async ({ page }) => { - await page.getByRole("button", { name: "Go to the demo" }).click(); + await page.getByRole("button", { name: "Try it out" }).click(); await page.getByRole("button", { name: "Fill fields" }).click(); await page.getByLabel("First name").fill("Shouldnt"); await page.getByLabel("Last name").fill("Findanyone"); @@ -41,7 +41,7 @@ test.describe("querying with the Query Connector", () => { }); test("successful demo user query", async ({ page }) => { - await page.getByRole("button", { name: "Go to the demo" }).click(); + await page.getByRole("button", { name: "Try it out" }).click(); // Check that the info alert is visible and contains the correct text const alert = page.locator(".custom-alert"); diff --git a/query-connector/src/app/assets/dibbs_db_seed_query.json b/query-connector/src/app/assets/dibbs_db_seed_query.json index a823d4699..f4238bb2c 100644 --- a/query-connector/src/app/assets/dibbs_db_seed_query.json +++ b/query-connector/src/app/assets/dibbs_db_seed_query.json @@ -7,9 +7,9 @@ "time_window_number": "30", "time_window_unit": "days", "query_name": "Cancer case investigation", - "conditions_list": "{Cancer (Leukemia)}", + "conditions_list": "{2}", "query_data": { - "Cancer (Leukemia)": { + "2": { "14_20240923": { "valueSetId": "14_20240923", "valueSetVersion": "20240923", @@ -122,9 +122,9 @@ "time_window_number": "30", "time_window_unit": "days", "query_name": "Chlamydia case investigation", - "conditions_list": "{Chlamydia trachomatis infection (disorder)}", + "conditions_list": "{240589008}", "query_data": { - "Chlamydia trachomatis infection (disorder)": { + "240589008": { "2.16.840.1.113762.1.4.1146.999_20230602": { "valueSetId": "2.16.840.1.113762.1.4.1146.999_20230602", "valueSetVersion": "20230602", @@ -2173,7 +2173,7 @@ "time_window_unit": "days", "query_name": "Syphilis case investigation", "query_data": { - "Congenital syphilis (disorder)": { + "35742006": { "2.16.840.1.113762.1.4.1146.554_20191227": { "valueSetId": "2.16.840.1.113762.1.4.1146.554_20191227", "valueSetVersion": "20191227", @@ -3347,7 +3347,7 @@ } } }, - "conditions_list": "{Congenital syphilis (disorder)}" + "conditions_list": "{35742006}" }, { "author": "DIBBs", @@ -3357,7 +3357,7 @@ "time_window_unit": "days", "query_name": "Gonorrhea case investigation", "query_data": { - "Gonorrhea (disorder)": { + "15628003": { "2.16.840.1.113762.1.4.1146.1036_20190605": { "valueSetId": "2.16.840.1.113762.1.4.1146.1036_20190605", "valueSetVersion": "20190605", @@ -4890,7 +4890,7 @@ } } }, - "conditions_list": "{Gonorrhea (disorder)}" + "conditions_list": "{15628003}" }, { "author": "DIBBs", @@ -4900,7 +4900,7 @@ "time_window_unit": "days", "query_name": "Newborn screening follow-up", "query_data": { - "Newborn Screening": { + "1": { "1_20240909": { "valueSetId": "1_20240909", "valueSetVersion": "20240909", @@ -5924,7 +5924,7 @@ } } }, - "conditions_list": "{Newborn Screening}" + "conditions_list": "{1}" } ] } diff --git a/query-connector/src/app/backend/query-building.ts b/query-connector/src/app/backend/query-building.ts index a78ec186e..be377e90d 100644 --- a/query-connector/src/app/backend/query-building.ts +++ b/query-connector/src/app/backend/query-building.ts @@ -1,7 +1,10 @@ "use server"; import { getDbClient } from "./dbClient"; -import { QueryDetailsResult } from "../queryBuilding/utils"; +import { NestedQuery, QueryDetailsResult } from "../queryBuilding/utils"; +import { DibbsValueSet } from "../constants"; +import { DEFAULT_TIME_WINDOW } from "../utils"; +import { randomUUID } from "crypto"; const dbClient = getDbClient(); /** @@ -28,3 +31,87 @@ export async function getSavedQueryDetails(queryId: string) { console.error("Error retrieving query", error); } } + +/** + * Backend handler function for upserting a query + * @param queryInput - frontend input for a query + * @param queryName - name of query + * @param author - author + * @param queryId - a queryId if previously defined + * @returns - all columns of the newly added row in the query table + */ +export async function saveCustomQuery( + queryInput: NestedQuery, + queryName: string, + author: string, + queryId?: string, +) { + const queryString = ` + INSERT INTO query + values($1, $2, $3, $4, $5, $6, $7, $8, $9) + ON CONFLICT(id) + DO UPDATE SET + query_name = EXCLUDED.query_name, + conditions_list = EXCLUDED.conditions_list, + query_data = EXCLUDED.query_data, + author = EXCLUDED.author, + date_last_modified = EXCLUDED.date_last_modified + RETURNING id, query_name; + `; + const { queryDataInsert, conditionInsert } = + formatQueryDataForDatabase(queryInput); + + const NOW = new Date().toISOString(); + try { + const dataToWrite = [ + queryId ? queryId : randomUUID(), + queryName, + queryDataInsert, + conditionInsert, + author, + NOW, + NOW, + DEFAULT_TIME_WINDOW.timeWindowNumber, + DEFAULT_TIME_WINDOW.timeWindowUnit, + ]; + const result = await dbClient.query(queryString, dataToWrite); + if (result.rows.length > 0) { + return result.rows as unknown as QueryDetailsResult[]; + } + console.error("Query save failed:", dataToWrite); + return []; + } catch (error) { + console.error("Error saving new query", error); + } +} + +function formatQueryDataForDatabase(frontendInput: NestedQuery) { + const queryData: Record = {}; + const conditionIds: string[] = []; + + Object.entries(frontendInput).forEach(([conditionId, data]) => { + queryData[conditionId] = {}; + conditionIds.push(conditionId); + Object.values(data).forEach((dibbsVsMap) => { + Object.entries(dibbsVsMap).forEach(([vsId, dibbsVs]) => { + queryData[conditionId][vsId] = dibbsVs; + }); + }); + }); + + return { + queryDataInsert: queryData, + conditionInsert: formatConditionsForPostgres(conditionIds), + }; +} + +function formatConditionsForPostgres(arr: string[]): string { + if (arr.length === 0) return "{}"; + + const escapedStrings = arr.map((str) => { + const escaped = str.replace(/"/g, '\\"'); + return `"${escaped}"`; + }); + + return `{${escapedStrings.join(",")}}`; +} diff --git a/query-connector/src/app/page.module.scss b/query-connector/src/app/page.module.scss index e076dc817..0457cadb2 100644 --- a/query-connector/src/app/page.module.scss +++ b/query-connector/src/app/page.module.scss @@ -1,14 +1,14 @@ .pageSubtitle { - margin: 2rem 0 0.5rem 0; + margin: 2rem 0 0.5rem 0; } -.pageSubtitle:last-of-type{ - margin-top: 1.5rem; +.pageSubtitle:last-of-type { + margin-top: 1.5rem; } .pageContent { - font-weight: 300; - margin-top: 0; - font-size:1rem; - margin-bottom: 0.5rem -} \ No newline at end of file + font-weight: 300; + margin-top: 0; + font-size: 1rem; + margin-bottom: 1rem; +} diff --git a/query-connector/src/app/page.tsx b/query-connector/src/app/page.tsx index 5eb6b1f35..79bdd7abe 100644 --- a/query-connector/src/app/page.tsx +++ b/query-connector/src/app/page.tsx @@ -30,6 +30,15 @@ export default function LandingPage() { network of healthcare providers through your existing data use agreements, giving you access to more complete and timely data + + Graphic illustrating what TEFCA is -
-
-
-

- Check out the Query Connector demo to try out features using - sample data. -

- -
-
-
); } diff --git a/query-connector/src/app/query-building.ts b/query-connector/src/app/query-building.ts index 811572da0..8f89fcb61 100644 --- a/query-connector/src/app/query-building.ts +++ b/query-connector/src/app/query-building.ts @@ -1,5 +1,6 @@ import { randomUUID } from "crypto"; import { DibbsValueSet } from "./constants"; +import { DEFAULT_TIME_WINDOW } from "./utils"; // TODO: Potentially merge this / infer this from the type created via the // database creation workstream @@ -11,11 +12,6 @@ export type QueryInput = { timeWindowNumber?: Number; }; -const DEFAULT_TIME_WINDOW = { - timeWindowNumber: 1, - timeWindowUnit: "day", -}; - /** * Function that generates SQL needed for the query building flow * @param input - Values of the shape QueryInput needed for query insertion @@ -46,6 +42,6 @@ export function generateQueryInsertionSql(input: QueryInput) { export interface CustomUserQuery { query_id: string; query_name: string; - conditions_list?: string; + conditions_list?: string[]; valuesets: DibbsValueSet[]; } diff --git a/query-connector/src/app/query/designSystem/checkbox/checkbox.module.scss b/query-connector/src/app/query/designSystem/checkbox/checkbox.module.scss index 58dbf818c..0d14d9a7f 100644 --- a/query-connector/src/app/query/designSystem/checkbox/checkbox.module.scss +++ b/query-connector/src/app/query/designSystem/checkbox/checkbox.module.scss @@ -17,6 +17,7 @@ .checkbox label::before { width: 1.25rem; height: 1.25rem; + min-width: 1.25rem; box-shadow: 0 0 0 1px $black !important; position: static; margin: 0; diff --git a/query-connector/src/app/query/designSystem/drawer/Drawer.tsx b/query-connector/src/app/query/designSystem/drawer/Drawer.tsx index f431ffa8a..49d75373b 100644 --- a/query-connector/src/app/query/designSystem/drawer/Drawer.tsx +++ b/query-connector/src/app/query/designSystem/drawer/Drawer.tsx @@ -11,6 +11,7 @@ type DrawerProps = { isOpen: boolean; onSave: () => void; onClose: () => void; + onSearch?: () => void; hasChanges: boolean; }; @@ -20,6 +21,7 @@ type DrawerProps = { * @param root0.title - The title displayed in the drawer. * @param root0.placeholder - The placeholder text for the search field. * @param root0.onClose - Function to handle closing the drawer. + * @param root0.onSearch - Function to handle search actions in the drawer. * @param root0.isOpen - Boolean to control the visibility of the drawer. * @param root0.toRender - The dynamic content to display. * warning modal appears before saving @@ -31,6 +33,7 @@ const Drawer: React.FC = ({ isOpen, onClose, toRender, + onSearch, }: DrawerProps) => { const handleClose = () => { onClose(); @@ -52,16 +55,18 @@ const Drawer: React.FC = ({

{title}

-
- { - e.preventDefault(); - }} - /> -
+ {onSearch && ( +
+ { + e.preventDefault(); + }} + /> +
+ )}
{toRender}
diff --git a/query-connector/src/app/query/designSystem/modal/Modal.tsx b/query-connector/src/app/query/designSystem/modal/Modal.tsx index 6a14eff85..f871353cc 100644 --- a/query-connector/src/app/query/designSystem/modal/Modal.tsx +++ b/query-connector/src/app/query/designSystem/modal/Modal.tsx @@ -50,6 +50,7 @@ export const Modal: React.FC = ({ id={`${id}-modal`} aria-labelledby={`${id}-modal-heading`} aria-describedby={`${id}-modal-description`} + className="padding-x-2" > {heading}
diff --git a/query-connector/src/app/queryBuilding/page.tsx b/query-connector/src/app/queryBuilding/page.tsx index e6ac10ea9..168d9973c 100644 --- a/query-connector/src/app/queryBuilding/page.tsx +++ b/query-connector/src/app/queryBuilding/page.tsx @@ -1,11 +1,11 @@ "use client"; import { SelectedQueryDetails } from "./querySelection/utils"; -import BuildFromTemplates from "./buildFromTemplates/BuildFromTemplates"; import QuerySelection from "./querySelection/QuerySelection"; import { BuildStep } from "../constants"; import "react-toastify/dist/ReactToastify.css"; import { useState } from "react"; import { EMPTY_QUERY_SELECTION } from "./utils"; +import BuildFromTemplates from "./buildFromTemplates/BuildFromTemplates"; /** * Component for Query Building Flow @@ -13,7 +13,7 @@ import { EMPTY_QUERY_SELECTION } from "./utils"; */ const QueryBuilding: React.FC = () => { const [selectedQuery, setSelectedQuery] = useState( - EMPTY_QUERY_SELECTION, + structuredClone(EMPTY_QUERY_SELECTION), ); const [buildStep, setBuildStep] = useState("selection"); diff --git a/query-connector/src/app/queryBuilding/querySelection/QueryLibrary.tsx b/query-connector/src/app/queryBuilding/querySelection/QueryLibrary.tsx index 9c99f7a83..ce03d5e4c 100644 --- a/query-connector/src/app/queryBuilding/querySelection/QueryLibrary.tsx +++ b/query-connector/src/app/queryBuilding/querySelection/QueryLibrary.tsx @@ -4,6 +4,7 @@ import React, { useRef, Dispatch, SetStateAction, + useEffect, } from "react"; import { Button, Icon } from "@trussworks/react-uswds"; import Table from "@/app/query/designSystem/table/Table"; @@ -24,6 +25,8 @@ import { import LoadingView from "@/app/query/components/LoadingView"; import { DataContext } from "@/app/DataProvider"; import classNames from "classnames"; +import { getConditionsData } from "@/app/database-service"; +import { ConditionIdToNameMap } from "../utils"; interface UserQueriesDisplayProps { queries: CustomUserQuery[]; @@ -48,9 +51,12 @@ export const MyQueriesDisplay: React.FC = ({ setSelectedQuery, setBuildStep, }) => { - const context = useContext(DataContext); + const queriesContext = useContext(DataContext); const [queries, setQueries] = useState(initialQueries); const [loading, setLoading] = useState(false); + const [conditionIdToDetailsMap, setConditionIdToDetailsMap] = + useState(); + const modalRef = useRef(null); const handleEdit = (queryName: string, queryId: string) => { setSelectedQuery({ @@ -60,17 +66,35 @@ export const MyQueriesDisplay: React.FC = ({ setBuildStep("condition"); }; + useEffect(() => { + let isSubscribed = true; + + async function fetchConditionsAndUpdateState() { + const { conditionIdToNameMap } = await getConditionsData(); + + if (isSubscribed) { + setConditionIdToDetailsMap(conditionIdToNameMap); + } + } + + fetchConditionsAndUpdateState().catch(console.error); + + return () => { + isSubscribed = false; + }; + }, []); + return (
{} - {context && + {queriesContext && renderModal( modalRef, selectedQuery, handleDelete, queries, setQueries, - context, + queriesContext, )}

Query Library

@@ -98,71 +122,81 @@ export const MyQueriesDisplay: React.FC = ({ - {queries.map((query, index) => ( - - {query.query_name} - {query.conditions_list} - -
- + + - - -
- - - ))} + +
+ + + ))}
diff --git a/query-connector/src/app/queryBuilding/utils.ts b/query-connector/src/app/queryBuilding/utils.ts index 1f469119a..09afcd720 100644 --- a/query-connector/src/app/queryBuilding/utils.ts +++ b/query-connector/src/app/queryBuilding/utils.ts @@ -2,6 +2,7 @@ import { DibbsValueSet } from "../constants"; import { VsGrouping, ConceptTypeToVsNameToVsGroupingMap, + ConceptTypeToDibbsVsMap, } from "../utils/valueSetTranslation"; // The structure of the data that's coming from the backend @@ -17,6 +18,13 @@ export type ConditionOption = { include: boolean; }; +export type CategoryToConditionArrayMap = { + [category: string]: { + id: string; + name: string; + }[]; +}; + export type ConditionOptionMap = { [conditionId: string]: ConditionOption; }; @@ -29,6 +37,10 @@ export type ConditionIdToValueSetArrayMap = { [conditionId: string]: DibbsValueSet[]; }; +export type NestedQuery = { + [conditionId: string]: ConceptTypeToDibbsVsMap; +}; + export type CategoryToConditionToNameMap = { [categoryName: string]: ConditionIdToNameMap[]; }; diff --git a/query-connector/src/app/tests/assets/aphlCategoryMapping.json b/query-connector/src/app/tests/assets/aphlCategoryMapping.json index 725c84325..2cc6a3116 100644 --- a/query-connector/src/app/tests/assets/aphlCategoryMapping.json +++ b/query-connector/src/app/tests/assets/aphlCategoryMapping.json @@ -1,722 +1,950 @@ { "Injuries, NEC": [ { - "1149222004": "Overdose (disorder)" + "id": "1149222004", + "name": "Overdose (disorder)" }, { - "399907009": "Animal bite wound (disorder)" + "id": "399907009", + "name": "Animal bite wound (disorder)" }, { - "212962007": "Drowning and non-fatal immersion (disorder)" + "id": "212962007", + "name": "Drowning and non-fatal immersion (disorder)" }, { - "283545005": "Gunshot wound (disorder)" + "id": "283545005", + "name": "Gunshot wound (disorder)" }, { - "82271004": "Injury of head (disorder)" + "id": "82271004", + "name": "Injury of head (disorder)" }, { - "407153006": "Injury due to motor vehicle accident (disorder)" + "id": "407153006", + "name": "Injury due to motor vehicle accident (disorder)" }, { - "44301001": "Suicide (event)" + "id": "44301001", + "name": "Suicide (event)" } ], "Waterborne (not enteric)": [ { - "49649001": "Infection caused by Acanthamoeba (disorder)" + "id": "49649001", + "name": "Infection caused by Acanthamoeba (disorder)" }, { - "115635005": "Balamuthia mandrillaris (organism)" + "id": "115635005", + "name": "Balamuthia mandrillaris (organism)" }, { - "428111003": "Melioidosis (disorder)" + "id": "428111003", + "name": "Melioidosis (disorder)" }, { - "428175000": "Primary amebic encephalitis caused by Naegleria fowleri (disorder)" + "id": "428175000", + "name": "Primary amebic encephalitis caused by Naegleria fowleri (disorder)" }, { - "111811007": "Mycobacterial infection (excluding tuberculosis AND leprosy) (disorder)" + "id": "111811007", + "name": "Mycobacterial infection (excluding tuberculosis AND leprosy) (disorder)" } ], "Neurological Diseases": [ { - "897031002": "Acute flaccid myelitis (disorder)" + "id": "897031002", + "name": "Acute flaccid myelitis (disorder)" }, { - "792004": "Jakob-Creutzfeldt disease (disorder)" + "id": "792004", + "name": "Jakob-Creutzfeldt disease (disorder)" }, { - "45170000": "Encephalitis (disorder)" + "id": "45170000", + "name": "Encephalitis (disorder)" }, { - "40956001": "Guillain-Barre syndrome (disorder)" + "id": "40956001", + "name": "Guillain-Barre syndrome (disorder)" }, { - "7180009": "Meningitis (disorder)" + "id": "7180009", + "name": "Meningitis (disorder)" }, { - "49049000": "Parkinson's disease (disorder)" + "id": "49049000", + "name": "Parkinson's disease (disorder)" }, { - "20484008": "Prion disease (disorder)" + "id": "20484008", + "name": "Prion disease (disorder)" } ], "Toxic Effects of Non-Medicinal Substances": [ { - "216809001": "Accidental poisoning caused by fertilizers (disorder)" + "id": "216809001", + "name": "Accidental poisoning caused by fertilizers (disorder)" }, { - "767146004": "Toxic effect of arsenic and/or arsenic compound (disorder)" + "id": "767146004", + "name": "Toxic effect of arsenic and/or arsenic compound (disorder)" }, { - "398565003": "Infection caused by Clostridium botulinum (disorder)" + "id": "398565003", + "name": "Infection caused by Clostridium botulinum (disorder)" }, { - "414488002": "Infantile botulism (disorder)" + "id": "414488002", + "name": "Infantile botulism (disorder)" }, { - "3398004": "Cadmium poisoning (disorder)" + "id": "3398004", + "name": "Cadmium poisoning (disorder)" }, { - "17383000": "Toxic effect of carbon monoxide (disorder)" + "id": "17383000", + "name": "Toxic effect of carbon monoxide (disorder)" }, { - "41439009": "Microcystis flos-aquae poisoning (disorder)" + "id": "41439009", + "name": "Microcystis flos-aquae poisoning (disorder)" }, { - "407152001": "Blood lead level above reference range (finding)" + "id": "407152001", + "name": "Blood lead level above reference range (finding)" }, { - "767299002": "Toxic effect of mercury and/or mercury compound (disorder)" + "id": "767299002", + "name": "Toxic effect of mercury and/or mercury compound (disorder)" }, { - "18504008": "Toxic shock syndrome (disorder)" + "id": "18504008", + "name": "Toxic shock syndrome (disorder)" }, { - "242253008": "Overdose of opiate (disorder)" + "id": "242253008", + "name": "Overdose of opiate (disorder)" }, { - "37131007": "Pesticide poisoning (disorder)" + "id": "37131007", + "name": "Pesticide poisoning (disorder)" }, { - "409617000": "Ricin poisoning (disorder)" + "id": "409617000", + "name": "Ricin poisoning (disorder)" }, { - "269275003": "Seafood causing toxic effect (disorder)" + "id": "269275003", + "name": "Seafood causing toxic effect (disorder)" }, { - "419488004": "Staphylococcus aureus enterotoxin B (substance)" + "id": "419488004", + "name": "Staphylococcus aureus enterotoxin B (substance)" }, { - "240451000": "Streptococcal toxic shock syndrome (disorder)" + "id": "240451000", + "name": "Streptococcal toxic shock syndrome (disorder)" } ], "Vectorborne Diseases": [ { - "788781001": "Delayed allergy to red meat (finding)" + "id": "788781001", + "name": "Delayed allergy to red meat (finding)" }, { - "13906002": "Anaplasmosis (disorder)" + "id": "13906002", + "name": "Anaplasmosis (disorder)" }, { - "40610006": "Arbovirus infection (disorder)" + "id": "40610006", + "name": "Arbovirus infection (disorder)" }, { - "21061004": "Babesiosis (disorder)" + "id": "21061004", + "name": "Babesiosis (disorder)" }, { - "266123003": "Bartonellosis (disorder)" + "id": "266123003", + "name": "Bartonellosis (disorder)" }, { - "418182000": "Disease caused by California serogroup virus (disorder)" + "id": "418182000", + "name": "Disease caused by California serogroup virus (disorder)" }, { - "77506005": "Infection caused by Trypanosoma cruzi (disorder)" + "id": "77506005", + "name": "Infection caused by Trypanosoma cruzi (disorder)" }, { - "111864006": "Chikungunya fever (disorder)" + "id": "111864006", + "name": "Chikungunya fever (disorder)" }, { - "6452009": "Colorado tick fever (disorder)" + "id": "6452009", + "name": "Colorado tick fever (disorder)" }, { - "38362002": "Dengue (disorder)" + "id": "38362002", + "name": "Dengue (disorder)" }, { - "416925005": "Eastern equine encephalitis virus infection (disorder)" + "id": "416925005", + "name": "Eastern equine encephalitis virus infection (disorder)" }, { - "240626005": "Human ehrlichiosis (disorder)" + "id": "240626005", + "name": "Human ehrlichiosis (disorder)" }, { - "41723001": "Jamestown Canyon virus disease (disorder)" + "id": "41723001", + "name": "Jamestown Canyon virus disease (disorder)" }, { - "52947006": "Japanese encephalitis virus disease (disorder)" + "id": "52947006", + "name": "Japanese encephalitis virus disease (disorder)" }, { - "404237007": "Keystone virus encephalitis (disorder)" + "id": "404237007", + "name": "Keystone virus encephalitis (disorder)" }, { - "61094002": "La Crosse encephalitis (disorder)" + "id": "61094002", + "name": "La Crosse encephalitis (disorder)" }, { - "80612004": "Leishmaniasis (disorder)" + "id": "80612004", + "name": "Leishmaniasis (disorder)" }, { - "14683004": "Relapsing fever caused by Borrelia recurrentis (disorder)" + "id": "14683004", + "name": "Relapsing fever caused by Borrelia recurrentis (disorder)" }, { - "23502006": "Lyme disease (disorder)" + "id": "23502006", + "name": "Lyme disease (disorder)" }, { - "240820001": "Lymphatic filariasis (disorder)" + "id": "240820001", + "name": "Lymphatic filariasis (disorder)" }, { - "61462000": "Malaria (disorder)" + "id": "61462000", + "name": "Malaria (disorder)" }, { - "416707008": "Powassan encephalitis virus infection (disorder)" + "id": "416707008", + "name": "Powassan encephalitis virus infection (disorder)" }, { - "404236003": "Snowshoe hare virus encephalitis (disorder)" + "id": "404236003", + "name": "Snowshoe hare virus encephalitis (disorder)" }, { - "186771002": "Spotted fever group rickettsial disease (disorder)" + "id": "186771002", + "name": "Spotted fever group rickettsial disease (disorder)" }, { - "417192005": "Saint Louis encephalitis virus infection (disorder)" + "id": "417192005", + "name": "Saint Louis encephalitis virus infection (disorder)" }, { - "74225001": "Tick paralysis (disorder)" + "id": "74225001", + "name": "Tick paralysis (disorder)" }, { - "10301003": "Tick-borne relapsing fever (disorder)" + "id": "10301003", + "name": "Tick-borne relapsing fever (disorder)" }, { - "240507007": "Trivittatus fever (disorder)" + "id": "240507007", + "name": "Trivittatus fever (disorder)" }, { - "19265001": "Tularemia (disorder)" + "id": "19265001", + "name": "Tularemia (disorder)" }, { - "240613006": "Typhus group rickettsial disease (disorder)" + "id": "240613006", + "name": "Typhus group rickettsial disease (disorder)" }, { - "417093003": "Disease caused by West Nile virus (disorder)" + "id": "417093003", + "name": "Disease caused by West Nile virus (disorder)" }, { - "47523006": "Western equine encephalitis (disorder)" + "id": "47523006", + "name": "Western equine encephalitis (disorder)" }, { - "16541001": "Yellow fever (disorder)" + "id": "16541001", + "name": "Yellow fever (disorder)" }, { - "3928002": "Zika virus disease (disorder)" + "id": "3928002", + "name": "Zika virus disease (disorder)" } ], "Enteric Diseases": [ { - "388759003": "Infection caused by Entamoeba histolytica (disorder)" + "id": "388759003", + "name": "Infection caused by Entamoeba histolytica (disorder)" }, { - "86500004": "Campylobacteriosis (disorder)" + "id": "86500004", + "name": "Campylobacteriosis (disorder)" }, { - "63650001": "Cholera (disorder)" + "id": "63650001", + "name": "Cholera (disorder)" }, { - "186431008": "Infection caused by Clostridioides difficile (disorder)" + "id": "186431008", + "name": "Infection caused by Clostridioides difficile (disorder)" }, { - "65154009": "Infection caused by Clostridium perfringens (disorder)" + "id": "65154009", + "name": "Infection caused by Clostridium perfringens (disorder)" }, { - "240370009": "Cryptosporidiosis (disorder)" + "id": "240370009", + "name": "Cryptosporidiosis (disorder)" }, { - "240372001": "Cyclosporiasis (disorder)" + "id": "240372001", + "name": "Cyclosporiasis (disorder)" }, { - "58265007": "Giardiasis (disorder)" + "id": "58265007", + "name": "Giardiasis (disorder)" }, { - "111407006": "Hemolytic uremic syndrome (disorder)" + "id": "111407006", + "name": "Hemolytic uremic syndrome (disorder)" }, { - "40468003": "Viral hepatitis, type A (disorder)" + "id": "40468003", + "name": "Viral hepatitis, type A (disorder)" }, { - "7111000119109": "Viral hepatitis type E (disorder)" + "id": "7111000119109", + "name": "Viral hepatitis type E (disorder)" }, { - "4241002": "Listeriosis (disorder)" + "id": "4241002", + "name": "Listeriosis (disorder)" }, { - "83436008": "Yersiniosis (disorder)" + "id": "83436008", + "name": "Yersiniosis (disorder)" }, { - "53648006": "Disease caused by Enterovirus (disorder)" + "id": "53648006", + "name": "Disease caused by Enterovirus (disorder)" }, { - "721763002": "Infection caused by Norovirus (disorder)" + "id": "721763002", + "name": "Infection caused by Norovirus (disorder)" }, { - "18624000": "Disease caused by Rotavirus (disorder)" + "id": "18624000", + "name": "Disease caused by Rotavirus (disorder)" }, { - "85904008": "Paratyphoid fever (disorder)" + "id": "85904008", + "name": "Paratyphoid fever (disorder)" }, { - "4834000": "Typhoid fever (disorder)" + "id": "4834000", + "name": "Typhoid fever (disorder)" }, { - "302231008": "Salmonella infection (disorder)" + "id": "302231008", + "name": "Salmonella infection (disorder)" }, { - "328291000119103": "Infection caused by Shiga toxin producing Escherichia coli (disorder)" + "id": "328291000119103", + "name": "Infection caused by Shiga toxin producing Escherichia coli (disorder)" }, { - "36188001": "Shigellosis (disorder)" + "id": "36188001", + "name": "Shigellosis (disorder)" }, { - "398557001": "Infection caused by non-cholerae vibrio (disorder)" + "id": "398557001", + "name": "Infection caused by non-cholerae vibrio (disorder)" } ], "Birth Defects and Infant Disorders": [ { - "89369001": "Anencephalus (disorder)" + "id": "89369001", + "name": "Anencephalus (disorder)" }, { - "1237074000": "Congenital atrioventricular septal defect (disorder)" + "id": "1237074000", + "name": "Congenital atrioventricular septal defect (disorder)" }, { - "80281008": "Cleft lip (disorder)" + "id": "80281008", + "name": "Cleft lip (disorder)" }, { - "66948001": "Cleft palate with cleft lip (disorder)" + "id": "66948001", + "name": "Cleft palate with cleft lip (disorder)" }, { - "87979003": "Cleft palate (disorder)" + "id": "87979003", + "name": "Cleft palate (disorder)" }, { - "7305005": "Coarctation of aorta (disorder)" + "id": "7305005", + "name": "Coarctation of aorta (disorder)" }, { - "59527008": "Congenital cytomegalovirus infection (disorder)" + "id": "59527008", + "name": "Congenital cytomegalovirus infection (disorder)" }, { - "7484005": "Double outlet right ventricle (disorder)" + "id": "7484005", + "name": "Double outlet right ventricle (disorder)" }, { - "41040004": "Complete trisomy 21 syndrome (disorder)" + "id": "41040004", + "name": "Complete trisomy 21 syndrome (disorder)" }, { - "204357006": "Ebstein's anomaly of tricuspid valve (disorder)" + "id": "204357006", + "name": "Ebstein's anomaly of tricuspid valve (disorder)" }, { - "72951007": "Gastroschisis (disorder)" + "id": "72951007", + "name": "Gastroschisis (disorder)" }, { - "62067003": "Hypoplastic left heart syndrome (disorder)" + "id": "62067003", + "name": "Hypoplastic left heart syndrome (disorder)" }, { - "95821001": "Neonatal hearing loss (disorder)" + "id": "95821001", + "name": "Neonatal hearing loss (disorder)" }, { - "218728005": "Interrupted aortic arch (disorder)" + "id": "218728005", + "name": "Interrupted aortic arch (disorder)" }, { - "67341007": "Longitudinal deficiency of limb (disorder)" + "id": "67341007", + "name": "Longitudinal deficiency of limb (disorder)" }, { - "414819007": "Neonatal abstinence syndrome (disorder)" + "id": "414819007", + "name": "Neonatal abstinence syndrome (disorder)" }, { - "190687004": "Phenylketonuria (disorder)" + "id": "190687004", + "name": "Phenylketonuria (disorder)" }, { - "190268003": "Congenital hypothyroidism (disorder)" + "id": "190268003", + "name": "Congenital hypothyroidism (disorder)" }, { - "204339005": "Congenital pulmonary valve abnormality (disorder)" + "id": "204339005", + "name": "Congenital pulmonary valve abnormality (disorder)" }, { - "45503006": "Common ventricle (disorder)" + "id": "45503006", + "name": "Common ventricle (disorder)" }, { - "67531005": "Spina bifida (disorder)" + "id": "67531005", + "name": "Spina bifida (disorder)" }, { - "86299006": "Tetralogy of Fallot (disorder)" + "id": "86299006", + "name": "Tetralogy of Fallot (disorder)" }, { - "111323005": "Total anomalous pulmonary venous return (disorder)" + "id": "111323005", + "name": "Total anomalous pulmonary venous return (disorder)" }, { - "204296002": "Discordant ventriculoarterial connection (disorder)" + "id": "204296002", + "name": "Discordant ventriculoarterial connection (disorder)" }, { - "4374004": "Congenital anomaly of tricuspid valve (disorder)" + "id": "4374004", + "name": "Congenital anomaly of tricuspid valve (disorder)" }, { - "61959006": "Common truncus arteriosus (disorder)" + "id": "61959006", + "name": "Common truncus arteriosus (disorder)" }, { - "1": "Newborn Screening" + "id": "1", + "name": "Newborn Screening" } ], "Zoonotic Diseases": [ { - "61750000": "Infection caused by Angiostrongylus (disorder)" + "id": "61750000", + "name": "Infection caused by Angiostrongylus (disorder)" }, { - "409498004": "Anthrax (disorder)" + "id": "409498004", + "name": "Anthrax (disorder)" }, { - "93614002": "Infection caused by Baylisascaris procyonis (disorder)" + "id": "93614002", + "name": "Infection caused by Baylisascaris procyonis (disorder)" }, { - "75702008": "Brucellosis (disorder)" + "id": "75702008", + "name": "Brucellosis (disorder)" }, { - "59051007": "Cysticercosis (disorder)" + "id": "59051007", + "name": "Cysticercosis (disorder)" }, { - "187151009": "Diphyllobothriasis (disorder)" + "id": "187151009", + "name": "Diphyllobothriasis (disorder)" }, { - "4639008": "Glanders (disorder)" + "id": "4639008", + "name": "Glanders (disorder)" }, { - "359761005": "Disease caused by Hantavirus (disorder)" + "id": "359761005", + "name": "Disease caused by Hantavirus (disorder)" }, { - "77377001": "Leptospirosis (disorder)" + "id": "77377001", + "name": "Leptospirosis (disorder)" }, { - "721781004": "Infection caused by Lymphocytic choriomeningitis virus (disorder)" + "id": "721781004", + "name": "Infection caused by Lymphocytic choriomeningitis virus (disorder)" }, { - "359814004": "Monkeypox (disorder)" + "id": "359814004", + "name": "Monkeypox (disorder)" }, { - "406597005": "Infection caused by Nipah virus (disorder)" + "id": "406597005", + "name": "Infection caused by Nipah virus (disorder)" }, { - "58750007": "Plague (disorder)" + "id": "58750007", + "name": "Plague (disorder)" }, { - "186788009": "Q fever (disorder)" + "id": "186788009", + "name": "Q fever (disorder)" }, { - "14168008": "Rabies (disorder)" + "id": "14168008", + "name": "Rabies (disorder)" }, { - "76172008": "Infection caused by Taenia (disorder)" + "id": "76172008", + "name": "Infection caused by Taenia (disorder)" }, { - "187192000": "Toxoplasmosis (disorder)" + "id": "187192000", + "name": "Toxoplasmosis (disorder)" }, { - "709018004": "Infection caused by larvae of Trichinella (disorder)" + "id": "709018004", + "name": "Infection caused by larvae of Trichinella (disorder)" }, { - "36921006": "Vesicular stomatitis (disorder)" + "id": "36921006", + "name": "Vesicular stomatitis (disorder)" }, { - "240523007": "Viral hemorrhagic fever (disorder)" + "id": "240523007", + "name": "Viral hemorrhagic fever (disorder)" } ], "Respiratory Conditions (non-infectious)": [ { - "22607003": "Asbestosis (disorder)" + "id": "22607003", + "name": "Asbestosis (disorder)" }, { - "85761009": "Byssinosis (disorder)" + "id": "85761009", + "name": "Byssinosis (disorder)" }, { - "233733000": "Toxic pneumonitis (disorder)" + "id": "233733000", + "name": "Toxic pneumonitis (disorder)" }, { - "29422001": "Coal workers' pneumoconiosis (disorder)" + "id": "29422001", + "name": "Coal workers' pneumoconiosis (disorder)" }, { - "18690003": "Farmers' lung (disorder)" + "id": "18690003", + "name": "Farmers' lung (disorder)" }, { - "805002": "Pneumoconiosis caused by silica (disorder)" + "id": "805002", + "name": "Pneumoconiosis caused by silica (disorder)" }, { - "57607007": "Occupational asthma (disorder)" + "id": "57607007", + "name": "Occupational asthma (disorder)" } ], "Respiratory Conditions (Infectious)": [ { - "69996000": "Blastomycosis (disorder)" + "id": "69996000", + "name": "Blastomycosis (disorder)" }, { - "60826002": "Coccidioidomycosis (disorder)" + "id": "60826002", + "name": "Coccidioidomycosis (disorder)" }, { - "840539006": "Disease caused by severe acute respiratory syndrome coronavirus 2 (disorder)" + "id": "840539006", + "name": "Disease caused by severe acute respiratory syndrome coronavirus 2 (disorder)" }, { - "42386007": "Cryptococcosis (disorder)" + "id": "42386007", + "name": "Cryptococcosis (disorder)" }, { - "81004002": "Leprosy (disorder)" + "id": "81004002", + "name": "Leprosy (disorder)" }, { - "12962009": "Histoplasmosis (disorder)" + "id": "12962009", + "name": "Histoplasmosis (disorder)" }, { - "95891005": "Influenza-like illness (finding)" + "id": "95891005", + "name": "Influenza-like illness (finding)" }, { - "26726000": "Legionella infection (disorder)" + "id": "26726000", + "name": "Legionella infection (disorder)" }, { - "651000146102": "Middle East respiratory syndrome (disorder)" + "id": "651000146102", + "name": "Middle East respiratory syndrome (disorder)" }, { - "1731000119106": "Atypical mycobacterial infection of lung (disorder)" + "id": "1731000119106", + "name": "Atypical mycobacterial infection of lung (disorder)" }, { - "75116005": "Ornithosis (disorder)" + "id": "75116005", + "name": "Ornithosis (disorder)" }, { - "6415009": "Human respiratory syncytial virus (organism)" + "id": "6415009", + "name": "Human respiratory syncytial virus (organism)" }, { - "55735004": "Respiratory syncytial virus infection (disorder)" + "id": "55735004", + "name": "Respiratory syncytial virus infection (disorder)" }, { - "398447004": "Severe acute respiratory syndrome (disorder)" + "id": "398447004", + "name": "Severe acute respiratory syndrome (disorder)" }, { - "56717001": "Tuberculosis (disorder)" + "id": "56717001", + "name": "Tuberculosis (disorder)" }, { - "11999007": "Inactive tuberculosis (finding)" + "id": "11999007", + "name": "Inactive tuberculosis (finding)" } ], "Cancer": [ { - "363346000": "Malignant neoplastic disease (disorder)" + "id": "363346000", + "name": "Malignant neoplastic disease (disorder)" }, { - "2": "Cancer (Leukemia)" + "id": "2", + "name": "Cancer (Leukemia)" } ], "Healthcare-Associated Events": [ { - "865929003": "Infection caused by Candida auris (disorder)" + "id": "865929003", + "name": "Infection caused by Candida auris (disorder)" }, { - "715174007": "Carbapenem resistant Acinetobacter baumannii (organism)" + "id": "715174007", + "name": "Carbapenem resistant Acinetobacter baumannii (organism)" }, { - "712662001": "Carbapenem resistant Enterobacteriaceae (organism)" + "id": "712662001", + "name": "Carbapenem resistant Enterobacteriaceae (organism)" }, { - "726492000": "Carbapenem resistant Pseudomonas aeruginosa (organism)" + "id": "726492000", + "name": "Carbapenem resistant Pseudomonas aeruginosa (organism)" }, { - "734350003": "Carbapenemase-producing bacteria (organism)" + "id": "734350003", + "name": "Carbapenemase-producing bacteria (organism)" }, { - "700372006": "Urinary tract infection associated with catheter (disorder)" + "id": "700372006", + "name": "Urinary tract infection associated with catheter (disorder)" }, { - "736152001": "Infection of bloodstream co-occurrent and due to central venous catheter in situ (disorder)" + "id": "736152001", + "name": "Infection of bloodstream co-occurrent and due to central venous catheter in situ (disorder)" }, { - "406602003": "Infection caused by Staphylococcus aureus (disorder)" + "id": "406602003", + "name": "Infection caused by Staphylococcus aureus (disorder)" }, { - "433202001": "Surgical site infection (disorder)" + "id": "433202001", + "name": "Surgical site infection (disorder)" }, { - "293104008": "Adverse reaction to component of vaccine product (disorder)" + "id": "293104008", + "name": "Adverse reaction to component of vaccine product (disorder)" }, { - "409636005": "Complication of smallpox vaccination (disorder)" + "id": "409636005", + "name": "Complication of smallpox vaccination (disorder)" }, { - "406604002": "Infection caused by vancomycin intermediate Staphylococcus aureus (disorder)" + "id": "406604002", + "name": "Infection caused by vancomycin intermediate Staphylococcus aureus (disorder)" }, { - "406575008": "Infection caused by vancomycin resistant enterococcus (disorder)" + "id": "406575008", + "name": "Infection caused by vancomycin resistant enterococcus (disorder)" }, { - "404681006": "Infection caused by vancomycin resistant Staphylococcus aureus (disorder)" + "id": "404681006", + "name": "Infection caused by vancomycin resistant Staphylococcus aureus (disorder)" }, { - "71695001": "Complication of ventilation therapy (disorder)" + "id": "71695001", + "name": "Complication of ventilation therapy (disorder)" } ], "Sexually Transmitted Diseases": [ { - "266143009": "Chancroid (disorder)" + "id": "266143009", + "name": "Chancroid (disorder)" }, { - "240589008": "Chlamydia trachomatis infection (disorder)" + "id": "240589008", + "name": "Chlamydia trachomatis infection (disorder)" }, { - "266113007": "Genital warts (disorder)" + "id": "266113007", + "name": "Genital warts (disorder)" }, { - "15628003": "Gonorrhea (disorder)" + "id": "15628003", + "name": "Gonorrhea (disorder)" }, { - "28867007": "Granuloma inguinale (disorder)" + "id": "28867007", + "name": "Granuloma inguinale (disorder)" }, { - "33839006": "Genital herpes simplex (disorder)" + "id": "33839006", + "name": "Genital herpes simplex (disorder)" }, { - "91576008": "Congenital herpes simplex (disorder)" + "id": "91576008", + "name": "Congenital herpes simplex (disorder)" }, { - "86406008": "Human immunodeficiency virus infection (disorder)" + "id": "86406008", + "name": "Human immunodeficiency virus infection (disorder)" }, { - "84619001": "Nongonococcal urethritis (disorder)" + "id": "84619001", + "name": "Nongonococcal urethritis (disorder)" }, { - "34298002": "Neonatal conjunctivitis (disorder)" + "id": "34298002", + "name": "Neonatal conjunctivitis (disorder)" }, { - "198130006": "Female pelvic inflammatory disease (disorder)" + "id": "198130006", + "name": "Female pelvic inflammatory disease (disorder)" }, { - "76272004": "Syphilis (disorder)" + "id": "76272004", + "name": "Syphilis (disorder)" }, { - "35742006": "Congenital syphilis (disorder)" + "id": "35742006", + "name": "Congenital syphilis (disorder)" } ], "Vaccine Preventable Diseases": [ { - "1857005": "Congenital rubella syndrome (disorder)" + "id": "1857005", + "name": "Congenital rubella syndrome (disorder)" }, { - "276197005": "Infection caused by Corynebacterium diphtheriae (disorder)" + "id": "276197005", + "name": "Infection caused by Corynebacterium diphtheriae (disorder)" }, { - "43692000": "Influenzal acute upper respiratory infection (disorder)" + "id": "43692000", + "name": "Influenzal acute upper respiratory infection (disorder)" }, { - "719590007": "Influenza caused by seasonal influenza virus (disorder)" + "id": "719590007", + "name": "Influenza caused by seasonal influenza virus (disorder)" }, { - "661761000124109": "Death associated with influenza (event)" + "id": "661761000124109", + "name": "Death associated with influenza (event)" }, { - "6142004": "Influenza (disorder)" + "id": "6142004", + "name": "Influenza (disorder)" }, { - "406583002": "Invasive Haemophilus influenzae disease (disorder)" + "id": "406583002", + "name": "Invasive Haemophilus influenzae disease (disorder)" }, { - "406617004": "Invasive Streptococcus pneumoniae disease (disorder)" + "id": "406617004", + "name": "Invasive Streptococcus pneumoniae disease (disorder)" }, { - "14189004": "Measles (disorder)" + "id": "14189004", + "name": "Measles (disorder)" }, { - "23511006": "Meningococcal infectious disease (disorder)" + "id": "23511006", + "name": "Meningococcal infectious disease (disorder)" }, { - "36989005": "Mumps (disorder)" + "id": "36989005", + "name": "Mumps (disorder)" }, { - "541131000124102": "Infection caused by novel Influenza A virus variant (disorder)" + "id": "541131000124102", + "name": "Infection caused by novel Influenza A virus variant (disorder)" }, { - "414015000": "Disease caused by Orthopoxvirus (disorder)" + "id": "414015000", + "name": "Disease caused by Orthopoxvirus (disorder)" }, { - "27836007": "Pertussis (disorder)" + "id": "27836007", + "name": "Pertussis (disorder)" }, { - "398102009": "Acute poliomyelitis (disorder)" + "id": "398102009", + "name": "Acute poliomyelitis (disorder)" }, { - "36653000": "Rubella (disorder)" + "id": "36653000", + "name": "Rubella (disorder)" }, { - "67924001": "Smallpox (disorder)" + "id": "67924001", + "name": "Smallpox (disorder)" }, { - "76902006": "Tetanus (disorder)" + "id": "76902006", + "name": "Tetanus (disorder)" }, { - "38907003": "Varicella (disorder)" + "id": "38907003", + "name": "Varicella (disorder)" } ], "Parasitic Diseases, NEC": [ { - "74942003": "Echinococcosis (disorder)" + "id": "74942003", + "name": "Echinococcosis (disorder)" }, { - "128869009": "Infestation caused by Sarcoptes scabiei var hominis (disorder)" + "id": "128869009", + "name": "Infestation caused by Sarcoptes scabiei var hominis (disorder)" }, { - "1214006": "Infection caused by Strongyloides (disorder)" + "id": "1214006", + "name": "Infection caused by Strongyloides (disorder)" } ], "Bloodborne Diseases": [ { - "66071002": "Viral hepatitis type B (disorder)" + "id": "66071002", + "name": "Viral hepatitis type B (disorder)" }, { - "60498001": "Congenital viral hepatitis B infection (disorder)" + "id": "60498001", + "name": "Congenital viral hepatitis B infection (disorder)" }, { - "50711007": "Viral hepatitis type C (disorder)" + "id": "50711007", + "name": "Viral hepatitis type C (disorder)" }, { - "551611000124101": "Perinatal hepatitis caused by Hepatitis C virus (disorder)" + "id": "551611000124101", + "name": "Perinatal hepatitis caused by Hepatitis C virus (disorder)" }, { - "707341005": "Viral hepatitis type D (disorder)" + "id": "707341005", + "name": "Viral hepatitis type D (disorder)" }, { - "397575003": "Viral hepatitis, type G (disorder)" + "id": "397575003", + "name": "Viral hepatitis, type G (disorder)" } ], "Systemic Conditions": [ { - "444664004": "Genus Cronobacter (organism)" + "id": "444664004", + "name": "Genus Cronobacter (organism)" }, { - "75053002": "Acute febrile mucocutaneous lymph node syndrome (disorder)" + "id": "75053002", + "name": "Acute febrile mucocutaneous lymph node syndrome (disorder)" }, { - "38959009": "Methemoglobinemia (disorder)" + "id": "38959009", + "name": "Methemoglobinemia (disorder)" }, { - "1119306006": "Multisystem inflammatory syndrome in adults (disorder)" + "id": "1119306006", + "name": "Multisystem inflammatory syndrome in adults (disorder)" }, { - "895448002": "Multisystem inflammatory syndrome in children (disorder)" + "id": "895448002", + "name": "Multisystem inflammatory syndrome in children (disorder)" }, { - "74351001": "Reye's Syndrome (disorder)" + "id": "74351001", + "name": "Reye's Syndrome (disorder)" } ], "Streptococcal Diseases": [ { - "58718002": "Rheumatic fever (disorder)" + "id": "58718002", + "name": "Rheumatic fever (disorder)" }, { - "406614006": "Invasive Group A beta-hemolytic streptococcal disease (disorder)" + "id": "406614006", + "name": "Invasive Group A beta-hemolytic streptococcal disease (disorder)" }, { - "406612005": "Invasive Group B beta-hemolytic streptococcal disease (disorder)" + "id": "406612005", + "name": "Invasive Group B beta-hemolytic streptococcal disease (disorder)" } ] } diff --git a/query-connector/src/app/tests/unit/fixtures.ts b/query-connector/src/app/tests/unit/fixtures.ts index b4aa43b34..326609f93 100644 --- a/query-connector/src/app/tests/unit/fixtures.ts +++ b/query-connector/src/app/tests/unit/fixtures.ts @@ -1,23 +1,19 @@ import categoryToConditionArrayMap from "../assets/aphlCategoryMapping.json"; import queryTableDefaults from "../../assets/dibbs_db_seed_query.json"; -import { ConditionIdToNameMap } from "@/app/queryBuilding/utils"; +import { CategoryToConditionArrayMap } from "@/app/queryBuilding/utils"; import { QueryResultRow } from "pg"; export const CATEGORY_TO_CONDITION_ARRAY_MAP = - categoryToConditionArrayMap as unknown as { - [categoryName: string]: ConditionIdToNameMap[]; - }; + categoryToConditionArrayMap as unknown as CategoryToConditionArrayMap; export const DEFAULT_CHLAMYDIA_QUERY = [ queryTableDefaults.query.find((v) => v.query_name.includes("Chlamydia case investigation"), ), ] as QueryResultRow[]; - +const CHLAMYDIA_CONDITION_ID = 240589008; export const EXPECTED_CHLAMYDIA_VALUESET_LENGTH = Object.values( - DEFAULT_CHLAMYDIA_QUERY[0].query_data[ - "Chlamydia trachomatis infection (disorder)" - ], + DEFAULT_CHLAMYDIA_QUERY[0].query_data[CHLAMYDIA_CONDITION_ID], ).length; export const CANCER_DB_QUERY_VALUES = [ diff --git a/query-connector/src/app/tests/unit/utils.test.tsx b/query-connector/src/app/tests/unit/utils.test.tsx index 3ff20f9c1..c18310e3e 100644 --- a/query-connector/src/app/tests/unit/utils.test.tsx +++ b/query-connector/src/app/tests/unit/utils.test.tsx @@ -3,10 +3,7 @@ import { unnestValueSetsFromQuery, } from "../../utils"; -import { - groupConditionDataByCategoryName, - filterSearchByCategoryAndCondition, -} from "@/app/queryBuilding/utils"; +import { filterSearchByCategoryAndCondition } from "@/app/queryBuilding/utils"; import { CANCER_DB_QUERY_VALUES, CATEGORY_TO_CONDITION_ARRAY_MAP, @@ -15,30 +12,9 @@ import { } from "./fixtures"; describe("data util methods for query building", () => { - describe("groupConditionDataByCategoryName", () => { - it("translates backend query to frontend dictionary structure", () => { - const mappedExample = groupConditionDataByCategoryName( - CATEGORY_TO_CONDITION_ARRAY_MAP, - ); - // check a couple of random values to make sure mapping works correctly - expect(mappedExample["Injuries, NEC"][44301001].name).toBe( - "Suicide (event)", - ); - expect(mappedExample["Injuries, NEC"][44301001].include).toBe(false); - expect(mappedExample["Vaccine Preventable Diseases"][6142004].name).toBe( - "Influenza (disorder)", - ); - expect( - mappedExample["Vaccine Preventable Diseases"][6142004].include, - ).toBe(false); - }); - }); - describe("filterSearchByCategoryAndCondition", () => { it("filters by category (parent level)", () => { - const frontendStructuredData = groupConditionDataByCategoryName( - CATEGORY_TO_CONDITION_ARRAY_MAP, - ); + const frontendStructuredData = CATEGORY_TO_CONDITION_ARRAY_MAP; const filterResults = filterSearchByCategoryAndCondition( "Diseases", frontendStructuredData, @@ -47,9 +23,7 @@ describe("data util methods for query building", () => { expect(Object.values(filterResults).length).toBe(9); }); it("filters by condition (child level)", () => { - const frontendStructuredData = groupConditionDataByCategoryName( - CATEGORY_TO_CONDITION_ARRAY_MAP, - ); + const frontendStructuredData = CATEGORY_TO_CONDITION_ARRAY_MAP; const filterResults = filterSearchByCategoryAndCondition( "hepatitis", frontendStructuredData, diff --git a/query-connector/src/app/utils.ts b/query-connector/src/app/utils.ts index b7a60371d..ce4020ce7 100644 --- a/query-connector/src/app/utils.ts +++ b/query-connector/src/app/utils.ts @@ -106,3 +106,8 @@ function mapStoredValueSetIntoInternalValueset( } return valueSet; } + +export const DEFAULT_TIME_WINDOW = { + timeWindowNumber: 1, + timeWindowUnit: "day", +}; diff --git a/query-connector/src/app/utils/valueSetTranslation.test.ts b/query-connector/src/app/utils/valueSetTranslation.test.ts index a4e5d65af..4f14f2df4 100644 --- a/query-connector/src/app/utils/valueSetTranslation.test.ts +++ b/query-connector/src/app/utils/valueSetTranslation.test.ts @@ -3,7 +3,6 @@ import { CANCER_DB_QUERY_VALUES } from "../tests/unit/fixtures"; import { groupConditionConceptsIntoValueSets } from "../utils"; import { generateValueSetGroupingsByDibbsConceptType, - groupValueSetGroupingByConditionId, groupValueSetsByConceptType, groupValueSetsByNameAuthorSystem, } from "./valueSetTranslation"; @@ -12,8 +11,6 @@ describe("translation utils", () => { let cancerSets: DibbsValueSet[] = groupConditionConceptsIntoValueSets( CANCER_DB_QUERY_VALUES, ); - const CANCER_CONDITION_ID = "2"; - describe("groupValueSetsByNameAuthorSystem", () => { it("returns expected grouped valueset", () => { const groupedValueSets = groupValueSetsByNameAuthorSystem(cancerSets); @@ -43,16 +40,6 @@ describe("translation utils", () => { expect(Object.values(groupedValueSets["medications"]).length).toBe(1); }); }); - describe("groupValueSetGroupingByConditionId", () => { - const parentMap = groupValueSetGroupingByConditionId({ - [CANCER_CONDITION_ID]: cancerSets, - }); - - const expectedGrouping = - generateValueSetGroupingsByDibbsConceptType(cancerSets); - - expect(parentMap[CANCER_CONDITION_ID]).toEqual(expectedGrouping); - }); describe("groupValueSetsByConceptType", () => { it("returns the expected DibbsValueSet arrays for each of the concept types", () => { diff --git a/query-connector/src/app/utils/valueSetTranslation.ts b/query-connector/src/app/utils/valueSetTranslation.ts index 551e435fa..27f930eda 100644 --- a/query-connector/src/app/utils/valueSetTranslation.ts +++ b/query-connector/src/app/utils/valueSetTranslation.ts @@ -12,6 +12,12 @@ export type VsGrouping = { items: DibbsValueSet[]; }; +export type ConceptTypeToDibbsVsMap = { + [dibbsConceptType in DibbsConceptType]: { + [vsId: string]: DibbsValueSet; + }; +}; + export type ConceptTypeToVsNameToVsGroupingMap = { [dibbsConceptType in DibbsConceptType]: { [name: string]: VsGrouping; diff --git a/query-connector/src/styles/design-system.scss b/query-connector/src/styles/design-system.scss index 27f52caef..6bed7f51e 100644 --- a/query-connector/src/styles/design-system.scss +++ b/query-connector/src/styles/design-system.scss @@ -69,3 +69,12 @@ footer { } } } + +.usa-modal__close { + background-color: white; + + &:active, + &:hover { + background-color: white; + } +} diff --git a/query-connector/vs_dump.sql b/query-connector/vs_dump.sql index c38669503..d22ff6e64 100644 --- a/query-connector/vs_dump.sql +++ b/query-connector/vs_dump.sql @@ -35969,11 +35969,11 @@ COPY public.flyway_schema_history (installed_rank, version, description, type, s -- COPY public.query (id, query_name, query_data, conditions_list, author, date_created, date_last_modified, time_window_number, time_window_unit) FROM stdin; -cf580d8d-cc7b-4eae-8a0d-96c36f9222e3 Cancer case investigation {"Cancer (Leukemia)":{"14_20240923":{"valueSetId":"14_20240923","valueSetVersion":"20240923","valueSetName":"Cancer (Leukemia) Lab Result","valueSetExternalId":"14","author":"DIBBs","system":"http://snomed.info/sct","ersdConceptType":"lrtc","dibbsConceptType":"labs","includeValueSet":true,"concepts":[{"code":"1255068005","display":"Presence of DNA mismatch repair protein MSH2 in primary malignant neoplasm of colon by immunohistochemistry (observable entity)","include":true},{"code":"9484.100004300","display":"RESULTS","include":true},{"code":"30000.100004300","display":"MSH2 Result","include":true}]},"2_20240909":{"valueSetId":"2_20240909","valueSetVersion":"20240909","valueSetName":"Cancer (Leukemia) Diagnosis Problem","valueSetExternalId":"2","author":"DIBBs","system":"http://loinc.org","ersdConceptType":"dxtc","dibbsConceptType":"conditions","includeValueSet":true,"concepts":[{"code":"21908-9","display":"Stage group.clinical Cancer","include":true},{"code":"60568-3","display":"Pathology Synoptic report","include":true},{"code":"418689008","display":"Allergy to sulfonamide","include":true},{"code":"36929009","display":"Stage II (localized)","include":true},{"code":"92814006","display":"Chronic lymphoid leukemia, disease (disorder)","include":true}]},"15_20240923":{"valueSetId":"15_20240923","valueSetVersion":"20240923","valueSetName":"Suspected Cancer (Leukemia) Diagnosis","valueSetExternalId":"15","author":"DIBBs","system":"http://snomed.info/sct","ersdConceptType":"sdtc","dibbsConceptType":"conditions","includeValueSet":true,"concepts":[{"code":"363346000","display":"Malignant neoplastic disease (disorder)","include":true}]},"3_20240909":{"valueSetId":"3_20240909","valueSetVersion":"20240909","valueSetName":"Cancer (Leukemia) Medication","valueSetExternalId":"3","author":"DIBBs","system":"http://www.nlm.nih.gov/research/umls/rxnorm","ersdConceptType":"mrtc","dibbsConceptType":"medications","includeValueSet":true,"concepts":[{"code":"828265","display":"1 ML alemtuzumab 30 MG/ML Injection","include":true}]}}} {"Cancer (Leukemia)"} DIBBs 2024-12-10 15:45:30 2024-12-10 15:45:30 30 days -6edd14a2-ef78-4d8e-8509-0f87a7228d67 Chlamydia case investigation {"Chlamydia trachomatis infection (disorder)":{"2.16.840.1.113762.1.4.1146.999_20230602":{"valueSetId":"2.16.840.1.113762.1.4.1146.999_20230602","valueSetVersion":"20230602","valueSetName":"Chlamydia species (Organism or Substance in Lab Results)","valueSetExternalId":"2.16.840.1.113762.1.4.1146.999","author":"CSTE Steward","system":"http://snomed.info/sct","ersdConceptType":"labs","dibbsConceptType":"labs","includeValueSet":true,"concepts":[{"code":"115289001","display":"Chlamydia trachomatis, serotype A (organism)","include":true},{"code":"115318000","display":"Chlamydia trachomatis, serotype L3 (organism)","include":true},{"code":"121191006","display":"Ribonucleic acid of Chlamydia pneumoniae (substance)","include":true},{"code":"115296004","display":"Chlamydia trachomatis, serotype I (organism)","include":true},{"code":"121015003","display":"Antigen of Chlamydia trachomatis serotype F (substance)","include":true},{"code":"415099003","display":"Phylum Chlamydiae (organism)","include":true},{"code":"103514009","display":"Chlamydophila pneumoniae (organism)","include":true},{"code":"115291009","display":"Chlamydia trachomatis, serotype Ba (organism)","include":true},{"code":"115297008","display":"Chlamydia trachomatis, serotype J (organism)","include":true},{"code":"115319008","display":"Chlamydia trachomatis, serotype G (organism)","include":true},{"code":"121017006","display":"Antigen of Chlamydia trachomatis serotype K (substance)","include":true},{"code":"63938009","display":"Chlamydia trachomatis (organism)","include":true},{"code":"115293007","display":"Chlamydia trachomatis, serotype D (organism)","include":true},{"code":"121014004","display":"Antigen of Chlamydophila pneumoniae (substance)","include":true},{"code":"413819000","display":"Chlamydia suis (organism)","include":true},{"code":"115295000","display":"Chlamydia trachomatis, serotype F (organism)","include":true},{"code":"121016002","display":"Antigen of Chlamydia trachomatis serotype G (substance)","include":true},{"code":"413818008","display":"Chlamydia muridarum (organism)","include":true},{"code":"115294001","display":"Chlamydia trachomatis, serotype E (organism)","include":true},{"code":"121002007","display":"Antigen of Chlamydia trachomatis (substance)","include":true},{"code":"407003002","display":"Deoxyribonucleic acid of Chlamydia (substance)","include":true},{"code":"115290005","display":"Chlamydia trachomatis, serotype B (organism)","include":true},{"code":"115301004","display":"Chlamydia trachomatis, serotype L2 (organism)","include":true},{"code":"121181000","display":"Deoxyribonucleic acid of Chlamydia trachomatis (substance)","include":true},{"code":"707635007","display":"Ribosomal ribonucleic acid of Chlamydia (substance)","include":true},{"code":"114231004","display":"Chlamydophila pecorum (organism)","include":true},{"code":"115300003","display":"Chlamydia trachomatis, serotype L1 (organism)","include":true},{"code":"121018001","display":"Antigen of Chlamydia (substance)","include":true},{"code":"59134003","display":"Lymphogranuloma venereum antigen (substance)","include":true},{"code":"114247002","display":"Class Chlamydiae (organism)","include":true},{"code":"115299006","display":"Chlamydia trachomatis, serotype L (organism)","include":true},{"code":"121106008","display":"Ribosomal ribonucleic acid of Chlamydia trachomatis (substance)","include":true},{"code":"708219005","display":"Deoxyribonucleic acid of Chlamydia trachomatis L2 (substance)","include":true},{"code":"115292002","display":"Chlamydia trachomatis, serotype C (organism)","include":true},{"code":"115298003","display":"Chlamydia trachomatis, serotype K (organism)","include":true},{"code":"115328009","display":"Chlamydia trachomatis, serotype H (organism)","include":true},{"code":"16241000","display":"Genus Chlamydia (organism)","include":true},{"code":"442505006","display":"Chlamydia trachomatis, serotype Ja (organism)","include":true}]},"2.16.840.1.113762.1.4.1146.170_20230602":{"valueSetId":"2.16.840.1.113762.1.4.1146.170_20230602","valueSetVersion":"20230602","valueSetName":"Chlamydia trachomatis Infection (Organism or Substance in Lab Results)","valueSetExternalId":"2.16.840.1.113762.1.4.1146.170","author":"CSTE Steward","system":"http://snomed.info/sct","ersdConceptType":"labs","dibbsConceptType":"labs","includeValueSet":true,"concepts":[{"code":"115292002","display":"Chlamydia trachomatis, serotype C (organism)","include":true},{"code":"115318000","display":"Chlamydia trachomatis, serotype L3 (organism)","include":true},{"code":"454431000124102","display":"Chlamydia trachomatis nucleic acid detected (finding)","include":true},{"code":"115293007","display":"Chlamydia trachomatis, serotype D (organism)","include":true},{"code":"115319008","display":"Chlamydia trachomatis, serotype G (organism)","include":true},{"code":"59134003","display":"Lymphogranuloma venereum antigen 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(organism)","include":true},{"code":"121181000","display":"Deoxyribonucleic acid of Chlamydia trachomatis (substance)","include":true}]},"2.16.840.1.113762.1.4.1146.240_20230602":{"valueSetId":"2.16.840.1.113762.1.4.1146.240_20230602","valueSetVersion":"20230602","valueSetName":"Chlamydia trachomatis Infection (Tests for Chlamydia trachomatis Antigen)","valueSetExternalId":"2.16.840.1.113762.1.4.1146.240","author":"CSTE Steward","system":"http://loinc.org","ersdConceptType":"labs","dibbsConceptType":"labs","includeValueSet":true,"concepts":[{"code":"14507-8","display":"Chlamydia trachomatis Ag [Presence] in Blood by Immunofluorescence","include":true},{"code":"31775-0","display":"Chlamydia trachomatis Ag [Presence] in Urine sediment","include":true},{"code":"6352-9","display":"Chlamydia trachomatis Ag [Presence] in Stool by Immunofluorescence","include":true},{"code":"14469-1","display":"Chlamydia trachomatis Ag [Presence] in Cerebral spinal fluid by 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