diff --git a/.github/workflows/test-PR-dockerfiles.yml b/.github/workflows/test-PR-dockerfiles.yml
index 48173df99..7bb51fd06 100644
--- a/.github/workflows/test-PR-dockerfiles.yml
+++ b/.github/workflows/test-PR-dockerfiles.yml
@@ -20,7 +20,7 @@ jobs:
         uses: Ana06/get-changed-files@v2.3.0
         with:
           format: 'json'
-          filter: 'Dockerfile' 
+          filter: 'build-files/*/*/Dockerfile' 
       - run: "echo ${{ steps.files.outputs.all }}"
   
   build_to_test:
@@ -34,11 +34,13 @@ jobs:
       - name: parse file path
         id: parse
         run: |
-          tool=$(echo    "${{ matrix.added_modified }}" | cut -f 1 -d "/" )
-          version=$(echo "${{ matrix.added_modified }}" | cut -f 2 -d "/" )
+          echo "parsing ${{ matrix.added_modified }}"
+          tool=$(echo    "${{ matrix.added_modified }}" | cut -f 2 -d "/" )
+          version=$(echo "${{ matrix.added_modified }}" | cut -f 3 -d "/" )
+          echo "found version $version for $tool"
           echo "tool=$tool"       >> $GITHUB_OUTPUT
           echo "version=$version" >> $GITHUB_OUTPUT
-   
+
 ##### --------------------------------------------------------------------------- #####
 ##### Workflows still cannot be run in parrallel as of 2022-12-01                 #####
 ##### --------------------------------------------------------------------------- #####
@@ -60,9 +62,8 @@ jobs:
         run: |
           #checking layers
           warning=''
-          app_layer=$(grep FROM ./${{ steps.parse.outputs.tool }}/${{ steps.parse.outputs.version }}/Dockerfile | grep -E "as app|AS app")
-          tst_layer=$(grep FROM ./${{ steps.parse.outputs.tool }}/${{ steps.parse.outputs.version }}/Dockerfile | grep -E "as test|AS test")
-          if [ -z "$app_layer" ] ; then echo "FATAL : app layer is missing" ; warning='warning' ; fi
+          app_layer=$(grep FROM ./build-files/${{ steps.parse.outputs.tool }}/${{ steps.parse.outputs.version }}/Dockerfile | grep -E "as app|AS app")
+          tst_layer=$(grep FROM ./build-files/${{ steps.parse.outputs.tool }}/${{ steps.parse.outputs.version }}/Dockerfile | grep -E "as test|AS test")          if [ -z "$app_layer" ] ; then echo "FATAL : app layer is missing" ; warning='warning' ; fi
           if [ -z "$tst_layer" ] ; then echo "FATAL : test layer is missing" ; warning='warning' ; fi
           if [ -n "$warning" ] ; then echo "Please see template for recommended format https://github.com/StaPH-B/docker-builds/blob/master/dockerfile-template/Dockerfile" ; exit 1 ; fi
       
@@ -85,9 +86,8 @@ jobs:
         id: docker_build_to_test
         uses: docker/build-push-action@v5
         with:
-          context: ./${{ steps.parse.outputs.tool }}/${{ steps.parse.outputs.version }}
-          file: ./${{ steps.parse.outputs.tool }}/${{ steps.parse.outputs.version }}/Dockerfile
-          target: test
+          context: ./build-files/${{ steps.parse.outputs.tool }}/${{ steps.parse.outputs.version }}
+          file: ./build-files/${{ steps.parse.outputs.tool }}/${{ steps.parse.outputs.version }}/Dockerfile          target: test
           tags: ${{ steps.parse.outputs.tool }}:${{ steps.parse.outputs.version }}
           load: true
           push: false
diff --git a/.github/workflows/update_freyja.yml b/.github/workflows/update_freyja.yml
index 7a4e36cce..a0e546937 100644
--- a/.github/workflows/update_freyja.yml
+++ b/.github/workflows/update_freyja.yml
@@ -1,3 +1,4 @@
+
 ##### ------------------------------------------------------------------------------------------------ #####
 ##### This caller workflow tests, builds, and pushes the image to Docker Hub and Quay using the most   #####
 ##### recent version of Freyja and downloading the most recent variant information.                    #####
@@ -27,7 +28,7 @@ jobs:
           version=1.5.2
           echo "version=$version" >> $GITHUB_OUTPUT 
           
-          file=freyja/$version/Dockerfile
+          file=build-files/freyja/$version/Dockerfile
           ls $file
           echo "file=$file" >> $GITHUB_OUTPUT
 
@@ -87,4 +88,4 @@ jobs:
             quay.io/staphb/freyja:latest
 
       - name: Image digest
-        run: echo ${{ steps.docker_build_user_defined_tag.outputs.digest }}
\ No newline at end of file
+        run: echo ${{ steps.docker_build_and_push.outputs.digest }}