diff --git a/data-requirements/compare.sh b/data-requirements/compare.sh
index 3b18efb9..08338f38 100755
--- a/data-requirements/compare.sh
+++ b/data-requirements/compare.sh
@@ -37,7 +37,7 @@ if [ ! -d "elm-parser-for-ecqms" ]; then
     ruby parse_elm.rb --bundle qicore
     cd ..
     if [ -d "elm-parser-dr" ]; then
-        rm -rf elm-parser-dr
+        rm -rf elm-parser-dr/*.json
     fi
     mkdir elm-parser-dr
     SOURCE_DIR="elm-parser-for-ecqms/data_requirements/library"
diff --git a/data-requirements/fqm-e-dr.ts b/data-requirements/fqm-e-dr.ts
index 2b2e0f1d..8510d188 100644
--- a/data-requirements/fqm-e-dr.ts
+++ b/data-requirements/fqm-e-dr.ts
@@ -1,4 +1,4 @@
-import fs from 'fs';
+import fs, { readdirSync } from 'fs';
 import path from 'path';
 import { Calculator } from '../src';
 
@@ -16,12 +16,16 @@ const JAN_2024_CONNECTATHON_BASE_PATH = path.join(__dirname, './jan-2024-connect
 async function main() {
   // if the fqm-e-dr directory already exists, remove it and its contents
   if (fs.existsSync('./fqm-e-dr')) {
-    fs.rmSync('./fqm-e-dr', { recursive: true });
+    readdirSync('./fqm-e-dr').forEach(file => {
+      if (file.endsWith('.json')) {
+        fs.rmSync(`./fqm-e-dr/${file}`);
+      }
+    });
+  } else {
+    // create new fqm-e-dr directory within the data-requirements directory
+    fs.mkdirSync('./fqm-e-dr');
   }
 
-  // create new fqm-e-dr directory within the data-requirements directory
-  fs.mkdirSync('./fqm-e-dr');
-
   // get all of the file names (short and fullPath) from the jan-2024-connectathon directory
   const allBundles = fs
     .readdirSync(JAN_2024_CONNECTATHON_BASE_PATH)
diff --git a/data-requirements/summary-compare.sh b/data-requirements/summary-compare.sh
index 90158106..56d60462 100755
--- a/data-requirements/summary-compare.sh
+++ b/data-requirements/summary-compare.sh
@@ -42,7 +42,7 @@ if [ ! -d "elm-parser-for-ecqms" ]; then
     ruby parse_elm.rb --bundle qicore
     cd ..
     if [ -d "elm-parser-dr" ]; then
-        rm -rf elm-parser-dr
+        rm -rf elm-parser-dr/*.json
     fi
     mkdir elm-parser-dr
     SOURCE_DIR="elm-parser-for-ecqms/data_requirements/library"