diff --git a/yaml-files/quality-control/bowtie2-deploy.yaml b/yaml-files/quality-control/bowtie2-deploy.yaml
deleted file mode 100644
index 208e6079d7b90f0e76e89e9bb696e79f30b9d785..0000000000000000000000000000000000000000
--- a/yaml-files/quality-control/bowtie2-deploy.yaml
+++ /dev/null
@@ -1,20 +0,0 @@
-bowtie2-245-builddeploy:
-  extends: .templateBuildDeploy
-  variables:
-    BASENAME: bowtie2
-    TAG: 245
-    RECIPE_PATH: recipes/quality-control/bowtie2
-  only:
-    changes:
-      - recipes/quality-control/bowtie2/Singularity.bowtie2-245
-
-bowtie2-241cv1-builddeploy:
-  extends: .templateBuildDeploy
-  variables:
-    BASENAME: bowtie2
-    TAG: 241cv1
-    RECIPE_PATH: recipes/quality-control/bowtie2
-  only:
-    changes:
-      - recipes/quality-control/bowtie2/Singularity.bowtie2-241cv1
-
diff --git a/yaml-files/quality-control/bowtie2-test.backup b/yaml-files/quality-control/bowtie2-test.backup
deleted file mode 100644
index 688424a1022b94f2fb4e7aeb39f2c749d4a1e4e9..0000000000000000000000000000000000000000
--- a/yaml-files/quality-control/bowtie2-test.backup
+++ /dev/null
@@ -1,13 +0,0 @@
-bowtie2-241cv1-test:
-  extends: .templateTest
-  variables:
-    BASENAME: bowtie2
-    TAG: 241cv1
-    RECIPE_PATH: recipes/quality-control/bowtie2
-
-bowtie2-245-test:
-  extends: .templateTest
-  variables:
-    BASENAME: bowtie2
-    TAG: 245
-    RECIPE_PATH: recipes/quality-control/bowtie2