// Check input args and needed config variables based on client being used

validateConfig(config);

// Check if `fromDate` is a valid date

if (fromDate && !moment(fromDate).isValid()) {

throw new Error('-f/--from-date is not a valid date.');

}

// Check if `toDate` is a valid date

if (toDate && !moment(toDate).isValid()) {

throw new Error('-t/--to-date is not a valid date.');

}

logger.level = debug ? 'debug' : 'info';

checkInputAndConfig(config, fromDate, toDate);

// Create and initialize client

const mcodeClient = new Client(config);

await mcodeClient.init();

// Parse CSV for list of patient mrns

const dataDirectory = config.commonExtractorArgs && config.commonExtractorArgs.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);

const effectiveFromDate = allEntries ? null : runLogger.getEffectiveFromDate(fromDate);

const effectiveToDate = allEntries ? null : toDate;

// Extract the data

logger.info(`Extracting data for ${patientIds.length} patients`);

const { extractedData, successfulExtraction, totalExtractionErrors } = await extractDataForPatients(patientIds, mcodeClient, effectiveFromDate, effectiveToDate);

// If we have notification information, send an emailNotification

const { notificationInfo } = config;

if (notificationInfo && Object.keys(notificationInfo).length > 0) {

const notificationErrors = zipErrors(totalExtractionErrors);

try {

await sendEmailNotification(notificationInfo, notificationErrors, debug);

} catch (e) {

logger.error(e.message);

}

}

// A run is successful and should be logged when both extraction finishes without fatal errors

// and messages are posted without fatal errors

if (!allEntries && effectiveFromDate) {

const successCondition = successfulExtraction;

if (successCondition) {

runLogger.addRun(effectiveFromDate, effectiveToDate);

}

}

return extractedData;