diff --git a/modules/nf-core/gatk4/gatherbqsrreports/tests/main.nf.test b/modules/nf-core/gatk4/gatherbqsrreports/tests/main.nf.test
new file mode 100644
index 00000000000..173b149b547
--- /dev/null
+++ b/modules/nf-core/gatk4/gatherbqsrreports/tests/main.nf.test
@@ -0,0 +1,60 @@
+
+nextflow_process {
+
+    name "Test Process GATK4_GATHERBQSRREPORTS"
+    script "../main.nf"
+    process "GATK4_GATHERBQSRREPORTS"
+
+    tag "modules"
+    tag "modules_nfcore"
+    tag "gatk4"
+    tag "gatk4/gatherbqsrreports"
+
+    test("test-gatk4-gatherbqsrreports") {
+
+        when {
+            process {
+                """
+                input[0] = [
+				[ id:'test', single_end:false ], // meta map
+				    file(params.modules_testdata_base_path + 'genomics/homo_sapiens/illumina/gatk/test.baserecalibrator.table', checkIfExists: true)
+				]
+
+                """
+            }
+        }
+
+        then {
+            assertAll(
+                { assert process.success },
+                { assert snapshot(process.out).match() }
+            )
+        }
+    }
+
+    test("test-gatk4-gatherbqsrreports-multiple") {
+
+        when {
+            process {
+                """
+                input[0] = [
+				[ id:'test', single_end:false ], // meta map
+				    [
+                        file(params.modules_testdata_base_path + 'genomics/homo_sapiens/illumina/gatk/test.baserecalibrator.table', checkIfExists: true),
+				        file(params.modules_testdata_base_path + 'genomics/homo_sapiens/illumina/gatk/test2.baserecalibrator.table', checkIfExists: true)
+                    ]
+				]
+
+                """
+            }
+        }
+
+        then {
+            assertAll(
+                { assert process.success },
+                { assert snapshot(process.out).match() }
+            )
+        }
+    }
+
+}
diff --git a/modules/nf-core/gatk4/gatherbqsrreports/tests/main.nf.test.snap b/modules/nf-core/gatk4/gatherbqsrreports/tests/main.nf.test.snap
new file mode 100644
index 00000000000..bc5d4bd1332
--- /dev/null
+++ b/modules/nf-core/gatk4/gatherbqsrreports/tests/main.nf.test.snap
@@ -0,0 +1,72 @@
+{
+    "test-gatk4-gatherbqsrreports-multiple": {
+        "content": [
+            {
+                "0": [
+                    [
+                        {
+                            "id": "test",
+                            "single_end": false
+                        },
+                        "test.table:md5,0c1257eececf95db8ca378272d0f21f9"
+                    ]
+                ],
+                "1": [
+                    "versions.yml:md5,413fc0014d5dc41ab67d65f59f61a4a0"
+                ],
+                "table": [
+                    [
+                        {
+                            "id": "test",
+                            "single_end": false
+                        },
+                        "test.table:md5,0c1257eececf95db8ca378272d0f21f9"
+                    ]
+                ],
+                "versions": [
+                    "versions.yml:md5,413fc0014d5dc41ab67d65f59f61a4a0"
+                ]
+            }
+        ],
+        "meta": {
+            "nf-test": "0.8.4",
+            "nextflow": "24.04.4"
+        },
+        "timestamp": "2024-08-26T12:22:34.490694"
+    },
+    "test-gatk4-gatherbqsrreports": {
+        "content": [
+            {
+                "0": [
+                    [
+                        {
+                            "id": "test",
+                            "single_end": false
+                        },
+                        "test.table:md5,9603b69fdc3b5090de2e0dd78bfcc4bf"
+                    ]
+                ],
+                "1": [
+                    "versions.yml:md5,413fc0014d5dc41ab67d65f59f61a4a0"
+                ],
+                "table": [
+                    [
+                        {
+                            "id": "test",
+                            "single_end": false
+                        },
+                        "test.table:md5,9603b69fdc3b5090de2e0dd78bfcc4bf"
+                    ]
+                ],
+                "versions": [
+                    "versions.yml:md5,413fc0014d5dc41ab67d65f59f61a4a0"
+                ]
+            }
+        ],
+        "meta": {
+            "nf-test": "0.8.4",
+            "nextflow": "24.04.4"
+        },
+        "timestamp": "2024-08-26T12:22:10.552951"
+    }
+}
\ No newline at end of file
diff --git a/tests/config/pytest_modules.yml b/tests/config/pytest_modules.yml
index 4aea9c2af1e..ea23b4a2e6d 100644
--- a/tests/config/pytest_modules.yml
+++ b/tests/config/pytest_modules.yml
@@ -473,9 +473,6 @@ gatk4/filterintervals:
 gatk4/filtervarianttranches:
   - modules/nf-core/gatk4/filtervarianttranches/**
   - tests/modules/nf-core/gatk4/filtervarianttranches/**
-gatk4/gatherbqsrreports:
-  - modules/nf-core/gatk4/gatherbqsrreports/**
-  - tests/modules/nf-core/gatk4/gatherbqsrreports/**
 gatk4/gatherpileupsummaries:
   - modules/nf-core/gatk4/gatherpileupsummaries/**
   - tests/modules/nf-core/gatk4/gatherpileupsummaries/**
diff --git a/tests/modules/nf-core/gatk4/gatherbqsrreports/main.nf b/tests/modules/nf-core/gatk4/gatherbqsrreports/main.nf
deleted file mode 100644
index 150c958c682..00000000000
--- a/tests/modules/nf-core/gatk4/gatherbqsrreports/main.nf
+++ /dev/null
@@ -1,27 +0,0 @@
-#!/usr/bin/env nextflow
-
-nextflow.enable.dsl = 2
-
-include { GATK4_GATHERBQSRREPORTS } from '../../../../../modules/nf-core/gatk4/gatherbqsrreports/main.nf'
-
-workflow test_gatk4_gatherbqsrreports {
-
-    input = [
-        [ id:'test', single_end:false ], // meta map
-        file(params.test_data['homo_sapiens']['illumina']['test_baserecalibrator_table'], checkIfExists: true)
-    ]
-
-    GATK4_GATHERBQSRREPORTS ( input )
-}
-
-workflow test_gatk4_gatherbqsrreports_multiple {
-
-    input = [
-        [ id:'test', single_end:false ], // meta map
-        [file(params.test_data['homo_sapiens']['illumina']['test_baserecalibrator_table'], checkIfExists: true),
-        file(params.test_data['homo_sapiens']['illumina']['test2_baserecalibrator_table'], checkIfExists: true)
-        ]
-    ]
-
-    GATK4_GATHERBQSRREPORTS ( input )
-}
diff --git a/tests/modules/nf-core/gatk4/gatherbqsrreports/nextflow.config b/tests/modules/nf-core/gatk4/gatherbqsrreports/nextflow.config
deleted file mode 100644
index 50f50a7a357..00000000000
--- a/tests/modules/nf-core/gatk4/gatherbqsrreports/nextflow.config
+++ /dev/null
@@ -1,5 +0,0 @@
-process {
-
-    publishDir = { "${params.outdir}/${task.process.tokenize(':')[-1].tokenize('_')[0].toLowerCase()}" }
-    
-}
\ No newline at end of file
diff --git a/tests/modules/nf-core/gatk4/gatherbqsrreports/test.yml b/tests/modules/nf-core/gatk4/gatherbqsrreports/test.yml
deleted file mode 100644
index e70c49eaa86..00000000000
--- a/tests/modules/nf-core/gatk4/gatherbqsrreports/test.yml
+++ /dev/null
@@ -1,19 +0,0 @@
-- name: gatk4 gatherbqsrreports test_gatk4_gatherbqsrreports
-  command: nextflow run ./tests/modules/nf-core/gatk4/gatherbqsrreports -entry test_gatk4_gatherbqsrreports -c ./tests/config/nextflow.config
-  tags:
-    - gatk4
-    - gatk4/gatherbqsrreports
-  files:
-    - path: output/gatk4/test.table
-      md5sum: 9603b69fdc3b5090de2e0dd78bfcc4bf
-    - path: output/gatk4/versions.yml
-
-- name: gatk4 gatherbqsrreports test_gatk4_gatherbqsrreports_multiple
-  command: nextflow run ./tests/modules/nf-core/gatk4/gatherbqsrreports -entry test_gatk4_gatherbqsrreports_multiple -c ./tests/config/nextflow.config
-  tags:
-    - gatk4
-    - gatk4/gatherbqsrreports
-  files:
-    - path: output/gatk4/test.table
-      md5sum: 0c1257eececf95db8ca378272d0f21f9
-    - path: output/gatk4/versions.yml