diff --git a/modules.json b/modules.json
index 922f593..ad78221 100644
--- a/modules.json
+++ b/modules.json
@@ -17,7 +17,7 @@
                     },
                     "multiqc": {
                         "branch": "master",
-                        "git_sha": "4ab13872435962dadc239979554d13709e20bf29",
+                        "git_sha": "642a0d8afe373ac45244a7947fb8a6c0a5a312d4",
                         "installed_by": ["modules"]
                     },
                     "spaceranger/count": {
diff --git a/modules/nf-core/multiqc/main.nf b/modules/nf-core/multiqc/main.nf
index 00cc48d..70708f3 100644
--- a/modules/nf-core/multiqc/main.nf
+++ b/modules/nf-core/multiqc/main.nf
@@ -43,7 +43,7 @@ process MULTIQC {
 
     stub:
     """
-    touch multiqc_data
+    mkdir multiqc_data
     touch multiqc_plots
     touch multiqc_report.html
 
diff --git a/modules/nf-core/multiqc/meta.yml b/modules/nf-core/multiqc/meta.yml
index f1aa660..45a9bc3 100644
--- a/modules/nf-core/multiqc/meta.yml
+++ b/modules/nf-core/multiqc/meta.yml
@@ -1,4 +1,3 @@
-# yaml-language-server: $schema=https://raw.githubusercontent.com/nf-core/modules/master/modules/meta-schema.json
 name: multiqc
 description: Aggregate results from bioinformatics analyses across many samples into a single report
 keywords:
diff --git a/modules/nf-core/multiqc/tests/main.nf.test b/modules/nf-core/multiqc/tests/main.nf.test
index c2dad21..d0438ed 100644
--- a/modules/nf-core/multiqc/tests/main.nf.test
+++ b/modules/nf-core/multiqc/tests/main.nf.test
@@ -7,12 +7,9 @@ nextflow_process {
     tag "modules_nfcore"
     tag "multiqc"
 
-    test("MULTIQC: FASTQC") {
+    test("sarscov2 single-end [fastqc]") {
 
         when {
-            params {
-                outdir = "$outputDir"
-            }
             process {
                 """
                 input[0] = Channel.of([file(params.test_data['sarscov2']['illumina']['test_1_fastq_gz_fastqc_zip'], checkIfExists: true)])
@@ -26,20 +23,17 @@ nextflow_process {
         then {
             assertAll(
                 { assert process.success },
-                { assert path(process.out.report.get(0)).exists() },
-                { assert path(process.out.data.get(0)).exists() },
-                { assert path(process.out.versions.get(0)).getText().contains("multiqc") }
+                { assert process.out.report[0] ==~ ".*/multiqc_report.html" },
+                { assert process.out.data[0] ==~ ".*/multiqc_data" },
+                { assert snapshot(process.out.versions).match("versions") }
             )
         }
 
     }
 
-    test("MULTIQC: FASTQC and a config file") {
+    test("sarscov2 single-end [fastqc] [config]") {
 
         when {
-            params {
-                outdir = "$outputDir"
-            }
             process {
                 """
                 input[0] = Channel.of([file(params.test_data['sarscov2']['illumina']['test_1_fastq_gz_fastqc_zip'], checkIfExists: true)])
@@ -53,9 +47,35 @@ nextflow_process {
         then {
             assertAll(
                 { assert process.success },
-                { assert path(process.out.report.get(0)).exists() },
-                { assert path(process.out.data.get(0)).exists() },
-                { assert path(process.out.versions.get(0)).getText().contains("multiqc") }
+                { assert process.out.report[0] ==~ ".*/multiqc_report.html" },
+                { assert process.out.data[0] ==~ ".*/multiqc_data" },
+                { assert snapshot(process.out.versions).match("versions") }
+            )
+        }
+    }
+
+    test("sarscov2 single-end [fastqc] - stub") {
+
+        options "-stub"
+
+        when {
+            process {
+                """
+                input[0] = Channel.of([file(params.test_data['sarscov2']['illumina']['test_1_fastq_gz_fastqc_zip'], checkIfExists: true)])
+                input[1] = []
+                input[2] = []
+                input[3] = []
+                """
+            }
+        }
+
+        then {
+            assertAll(
+                { assert process.success },
+                { assert snapshot(process.out.report.collect { file(it).getName() } +
+                                process.out.data.collect { file(it).getName() } +
+                                process.out.plots.collect { file(it).getName() } +
+                                process.out.versions ).match() }
             )
         }
 
diff --git a/modules/nf-core/multiqc/tests/main.nf.test.snap b/modules/nf-core/multiqc/tests/main.nf.test.snap
new file mode 100644
index 0000000..d087a9d
--- /dev/null
+++ b/modules/nf-core/multiqc/tests/main.nf.test.snap
@@ -0,0 +1,21 @@
+{
+    "versions": {
+        "content": [
+            [
+                "versions.yml:md5,f81e19ab3a8e2b6f2b5d22078117df71"
+            ]
+        ],
+        "timestamp": "2023-12-30T00:26:14.048089591"
+    },
+    "sarscov2 single-end [fastqc] - stub": {
+        "content": [
+            [
+                "multiqc_report.html",
+                "multiqc_data",
+                "multiqc_plots",
+                "versions.yml:md5,f81e19ab3a8e2b6f2b5d22078117df71"
+            ]
+        ],
+        "timestamp": "2023-12-30T00:26:52.963964055"
+    }
+}
\ No newline at end of file