forgot about mrn parsing... bless you Dylan M

Author: julianxcarter

src/application/app.js

@@ -31,7 +31,8 @@ async function mcodeApp(Client, fromDate, toDate, config, pathToRunLogs, debug,
 
   // Parse CSV for list of patient mrns
   const dataDirectory = config.commonExtractorArgs && config.commonExtractorArgs.dataDirectory;
-  const patientIds = parsePatientIds(config.patientIdCsvPath, dataDirectory);
+  const parserOptions = config.commonExtractorArgs && config.commonExtractorArgs.csvParse && config.commonExtractorArgs.csvParse.options ? config.commonExtractorArgs.csvParse.options : {};
+  const patientIds = parsePatientIds(config.patientIdCsvPath, dataDirectory, parserOptions);
 
   // Get RunInstanceLogger for recording new runs and inferring dates from previous runs
   const runLogger = allEntries ? null : new RunInstanceLogger(pathToRunLogs);

src/helpers/appUtils.js

@@ -25,11 +25,12 @@ function getPatientIdCSVData(patientIdCsvPath, dataDirectory) {
  *
  * @param {string} patientIdCsvPath filePath to the CSV content to be parsed to get IDs
  * @param {string} dataDirectory optional argument for if a dataDirectory was specified by the config
+ * @param {object} parserOptions options for the csv-parse module
  * @returns array of parsed IDs from the CSV
  */
-function parsePatientIds(patientIdCsvPath, dataDirectory) {
+function parsePatientIds(patientIdCsvPath, dataDirectory, parserOptions) {
   const csvData = getPatientIdCSVData(patientIdCsvPath, dataDirectory);
-  return csvParse(csvData).map((row) => {
+  return csvParse(csvData, parserOptions).map((row) => {
     if (!row.mrn) {
       throw new Error(`${patientIdCsvPath} has no "mrn" column`);
     }