diff --git a/tests/config/pytest_modules.yml b/tests/config/pytest_modules.yml
index 1bc8bdf5..287a4555 100644
--- a/tests/config/pytest_modules.yml
+++ b/tests/config/pytest_modules.yml
@@ -1378,12 +1378,13 @@ yara/mapper:
 subworkflows/align_bowtie2:
   - subworkflows/nf-core/align_bowtie2/**
   - tests/subworkflows/nf-core/align_bowtie2/**
+  - *subworkflows/bam_sort_samtools
 
 subworkflows/bam_stats_samtools: &subworkflows/bam_stats_samtools
   - subworkflows/nf-core/bam_stats_samtools/**
   - tests/subworkflows/nf-core/bam_stats_samtools/**
 
-subworkflows/bam_sort_samtools:
+subworkflows/bam_sort_samtools: &subworkflows/bam_sort_samtools
   - subworkflows/nf-core/bam_sort_samtools/**
   - tests/subworkflows/nf-core/bam_sort_samtools/**
   - *samtools/sort
diff --git a/tests/subworkflows/nf-core/align_bowtie2/test.yml b/tests/subworkflows/nf-core/align_bowtie2/test.yml
index 51261a14..116ea961 100644
--- a/tests/subworkflows/nf-core/align_bowtie2/test.yml
+++ b/tests/subworkflows/nf-core/align_bowtie2/test.yml
@@ -5,14 +5,14 @@
     - subworkflows/bam_sort_samtools
     - subworkflows/bam_stats_samtools
     # Modules
-    - bowtie2
-    - bowtie2/align
-    - samtools
-    - samtools/index
-    - samtools/sort
-    - samtools/stats
-    - samtools/idxstats
-    - samtools/flagstat
+    # - bowtie2
+    # - bowtie2/align
+    # - samtools
+    # - samtools/index
+    # - samtools/sort
+    # - samtools/stats
+    # - samtools/idxstats
+    # - samtools/flagstat
   files:
     - path: ./output/bowtie2/test.bam
     - path: ./output/bowtie2/test.bowtie2.log
@@ -46,14 +46,14 @@
     - subworkflows/bam_sort_samtools
     - subworkflows/bam_stats_samtools
     # Modules
-    - bowtie2
-    - bowtie2/align
-    - samtools
-    - samtools/index
-    - samtools/sort
-    - samtools/stats
-    - samtools/idxstats
-    - samtools/flagstat
+    # - bowtie2
+    # - bowtie2/align
+    # - samtools
+    # - samtools/index
+    # - samtools/sort
+    # - samtools/stats
+    # - samtools/idxstats
+    # - samtools/flagstat
   files:
     - path: ./output/bowtie2/test.bam
     - path: ./output/bowtie2/test.bowtie2.log