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SNOMED Hydrating, Filtering, Special MR Generation #1648

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SNOMED Hydrating, Filtering, Special MR Generation #1648

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6e2f2cf
feat(filter): snomed hydrating
jonahkaye Feb 23, 2024
9dfda6c
feat(snomed): cx specific workflow
jonahkaye Mar 6, 2024
f35535f
Merge branch 'develop' into 1442-snomed-filtering
jonahkaye Mar 26, 2024
1565f67
feat(snomed): snomed hierachies computed and filtered
jonahkaye Mar 27, 2024
0033587
feat(snomed): conditions and procedures duplications
jonahkaye Mar 27, 2024
8c132e8
feat(snomed): removing duplicate meds - rxnorm lookups doesnt help wi…
jonahkaye Mar 27, 2024
b5e9d1a
feat(snomed): simplified filtering, conditions resource id mapping
jonahkaye Mar 28, 2024
4df103b
feat(snomed): procedures, medications, conditions good
jonahkaye Mar 28, 2024
bb865d7
feat(snomed): more complete filtering by full tree search
jonahkaye Mar 29, 2024
28fb18b
feat(snomed): precondition analysis
jonahkaye Mar 31, 2024
4f48c40
feat(snomed): full pipeline done
jonahkaye Apr 1, 2024
b823225
feat(snomed): script header
jonahkaye Apr 1, 2024
28b190c
feat(snomed): filtering for only the resources we need
jonahkaye Apr 2, 2024
9363f91
feat(snomed): adding special snomed bundle to html
jonahkaye Apr 3, 2024
f3fd24f
Merge branch 'develop' into 1442-snomed-filtering
jonahkaye Apr 18, 2024
21e3e3f
Merge branch 'develop' into 1442-snomed-filtering
jonahkaye Apr 18, 2024
e7eb48f
feat(snomed): medications dates good pray
jonahkaye Apr 19, 2024
d0b04b6
feat(snomed): dedup med admins too
jonahkaye Apr 21, 2024
960040b
feat(snomed): medadmin to medstatement
jonahkaye Apr 22, 2024
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feat(snomed): script header 
Refs: #1442
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@jonahkaye
jonahkaye committed Apr 1, 2024
commit b8232257c6db07e62c136d0a4dab4926dba22d58
6 changes: 5 additions & 1 deletion packages/utils/src/customer-requests/full-snomed-pipeline.ts
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This is the main customer facing output of this PR. A script that for a given customer, gets all their patients consolidated data and performs the filtering and MR summary generation

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Full script for running this whole process

Original file line number Diff line number Diff line change
@@ -1,3 +1,8 @@
// This script is used to process all of a customers patients through a snomed filtering pipeline, and
// then generate MR summaries and CSV files from the resulting bundles
// The script makes consolidated queries, inserts a patient FHIR resource, and then calls the filtering
// and MR generation logic.
Comment on lines +1 to +4
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nit: use multi-line comments

also, please indicate how to use it


import { bundleToHtml } from "@metriport/core/external/aws/lambda-logic/bundle-to-html";
import fs from "fs/promises";
import { convertHtmlTablesToCsv } from "./convert-html-to-csv";
Expand All @@ -14,7 +19,6 @@ const apiLoadBalancerURL = getEnvVarOrFail("API_URL");
const fhirUrl = getEnvVarOrFail("FHIR_URL");
const cxId = getEnvVarOrFail("CX_ID");
const metriportApi: MetriportMedicalApi = new MetriportMedicalApi(apiKey);

const resultsDirectory = "./runs/consolidatedPatients";

async function fetchPatientIds(cxId: string): Promise<string[]> {
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