diff --git a/modules/nf-core/star/align/main.nf b/modules/nf-core/star/align/main.nf
index fa645a6d674..cc4f5af52ec 100644
--- a/modules/nf-core/star/align/main.nf
+++ b/modules/nf-core/star/align/main.nf
@@ -4,8 +4,8 @@ process STAR_ALIGN {
 
     conda "${moduleDir}/environment.yml"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
-        'https://depot.galaxyproject.org/singularity/mulled-v2-1fa26d1ce03c295fe2fdcf85831a92fbcbd7e8c2:1df389393721fc66f3fd8778ad938ac711951107-0' :
-        'biocontainers/mulled-v2-1fa26d1ce03c295fe2fdcf85831a92fbcbd7e8c2:1df389393721fc66f3fd8778ad938ac711951107-0' }"
+        'https://depot.galaxyproject.org/singularity/mulled-v2-1fa26d1ce03c295fe2fdcf85831a92fbcbd7e8c2:019f262d90511939dce2dca4b7c868fc108f73db-0' :
+        'biocontainers/mulled-v2-1fa26d1ce03c295fe2fdcf85831a92fbcbd7e8c2:019f262d90511939dce2dca4b7c868fc108f73db-0' }"
 
     input:
     tuple val(meta), path(reads, stageAs: "input*/*")
diff --git a/modules/nf-core/star/align/tests/main.nf.test b/modules/nf-core/star/align/tests/main.nf.test
new file mode 100644
index 00000000000..4c878474134
--- /dev/null
+++ b/modules/nf-core/star/align/tests/main.nf.test
@@ -0,0 +1,339 @@
+nextflow_process {
+
+    name "Test Process STAR_ALIGN"
+    script "../main.nf"
+    process "STAR_ALIGN"
+    tag "modules"
+    tag "modules_nfcore"
+    tag "star"
+    tag "star/align"
+
+    test("homo_sapiens - single_end") {
+        config "./nextflow.config"
+
+        setup {
+            run("STAR_GENOMEGENERATE") {
+                script "../../../star/genomegenerate/main.nf"
+                process {
+                    """
+                    input[0] = Channel.of([
+                        [ id:'test_fasta' ],
+                        [file(params.test_data['homo_sapiens']['genome']['genome_fasta'], checkIfExists: true)]
+                    ])
+                    input[1] = Channel.of([
+                        [ id:'test_gtf' ],
+                        [file(params.test_data['homo_sapiens']['genome']['genome_gtf'], checkIfExists: true)]
+                    ])
+                    """
+                }
+            }
+        }
+
+        when {
+            process {
+                """
+                input[0] = Channel.of([
+                    [ id:'test', single_end:true ], // meta map
+                    [ file(params.test_data['homo_sapiens']['illumina']['test_rnaseq_1_fastq_gz'], checkIfExists: true) ]
+                ])
+                input[1] = STAR_GENOMEGENERATE.out.index
+                input[2] = Channel.of([
+                    [ id:'test_gtf' ],
+                    [file(params.test_data['homo_sapiens']['genome']['genome_gtf'], checkIfExists: true)]
+                ])
+                input[3] = false
+                input[4] = 'illumina'
+                input[5] = false
+                """
+            }
+        }
+
+        then {
+            assertAll(
+                { assert process.success },
+                { assert snapshot(file(process.out.log_final[0][1]).name).match("homo_sapiens - single_end - log_final") },
+                { assert snapshot(file(process.out.log_out[0][1]).name).match("homo_sapiens - single_end - log_out") },
+                { assert snapshot(process.out.bam).match("homo_sapiens - single_end - bam") },
+                { assert snapshot(process.out.bam_sorted).match("homo_sapiens - single_end - bam_sorted") },
+                { assert snapshot(process.out.bam_transcript).match("homo_sapiens - single_end - bam_transcript") },
+                { assert snapshot(process.out.bam_unsorted).match("homo_sapiens - single_end - bam_unsorted") },
+                { assert snapshot(process.out.bedgraph).match("homo_sapiens - single_end - bedgraph") },
+                { assert snapshot(process.out.fastq).match("homo_sapiens - single_end - fastq") },
+                { assert snapshot(process.out.junction).match("homo_sapiens - single_end - junction") },
+                { assert snapshot(process.out.log_progress).match("homo_sapiens - single_end - log_progress") },
+                { assert snapshot(process.out.read_per_gene_tab).match("homo_sapiens - single_end - read_per_gene_tab") },
+                { assert snapshot(process.out.sam).match("homo_sapiens - single_end - sam") },
+                { assert snapshot(process.out.spl_junc_tab).match("homo_sapiens - single_end - spl_junc_tab") },
+                { assert snapshot(process.out.tab).match("homo_sapiens - single_end - tab") },
+                { assert snapshot(process.out.wig).match("homo_sapiens - single_end - wig") },
+                { assert snapshot(process.out.versions).match("homo_sapiens - single_end - versions") }
+            )
+        }
+    }
+
+    test("homo_sapiens - paired_end") {
+        config "./nextflow.config"
+
+        setup {
+            run("STAR_GENOMEGENERATE") {
+                script "../../../star/genomegenerate/main.nf"
+                process {
+                    """
+                    input[0] = Channel.of([
+                        [ id:'test_fasta' ],
+                        [file(params.test_data['homo_sapiens']['genome']['genome_fasta'], checkIfExists: true)]
+                    ])
+                    input[1] = Channel.of([
+                        [ id:'test_gtf' ],
+                        [file(params.test_data['homo_sapiens']['genome']['genome_gtf'], checkIfExists: true)]
+                    ])
+                    """
+                }
+            }
+        }
+
+        when {
+            process {
+                """
+                input[0] = Channel.of([
+                    [ id:'test', single_end:false ], // meta map
+                    [
+                        file(params.test_data['homo_sapiens']['illumina']['test_rnaseq_1_fastq_gz'], checkIfExists: true),
+                        file(params.test_data['homo_sapiens']['illumina']['test_rnaseq_2_fastq_gz'], checkIfExists: true)
+                    ]
+                ])
+                input[1] = STAR_GENOMEGENERATE.out.index
+                input[2] = Channel.of([
+                    [ id:'test_gtf' ],
+                    [file(params.test_data['homo_sapiens']['genome']['genome_gtf'], checkIfExists: true)]
+                ])
+                input[3] = false
+                input[4] = 'illumina'
+                input[5] = false
+                """
+            }
+        }
+
+        then {
+            assertAll(
+                { assert process.success },
+                { assert snapshot(file(process.out.log_final[0][1]).name).match("homo_sapiens - paired_end - log_final") },
+                { assert snapshot(file(process.out.log_out[0][1]).name).match("homo_sapiens - paired_end - log_out") },
+                { assert snapshot(process.out.bam).match("homo_sapiens - paired_end - bam") },
+                { assert snapshot(process.out.bam_sorted).match("homo_sapiens - paired_end - bam_sorted") },
+                { assert snapshot(process.out.bam_transcript).match("homo_sapiens - paired_end - bam_transcript") },
+                { assert snapshot(process.out.bam_unsorted).match("homo_sapiens - paired_end - bam_unsorted") },
+                { assert snapshot(process.out.bedgraph).match("homo_sapiens - paired_end - bedgraph") },
+                { assert snapshot(process.out.fastq).match("homo_sapiens - paired_end - fastq") },
+                { assert snapshot(process.out.junction).match("homo_sapiens - paired_end - junction") },
+                { assert snapshot(process.out.log_progress).match("homo_sapiens - paired_end - log_progress") },
+                { assert snapshot(process.out.read_per_gene_tab).match("homo_sapiens - paired_end - read_per_gene_tab") },
+                { assert snapshot(process.out.sam).match("homo_sapiens - paired_end - sam") },
+                { assert snapshot(process.out.spl_junc_tab).match("homo_sapiens - paired_end - spl_junc_tab") },
+                { assert snapshot(process.out.tab).match("homo_sapiens - paired_end - tab") },
+                { assert snapshot(process.out.wig).match("homo_sapiens - paired_end - wig") },
+                { assert snapshot(process.out.versions).match("homo_sapiens - paired_end - versions") }
+            )
+        }
+    }
+
+    test("homo_sapiens - paired_end - arriba") {
+        config "./nextflow.arriba.config"
+
+        setup {
+            run("STAR_GENOMEGENERATE") {
+                script "../../../star/genomegenerate/main.nf"
+                process {
+                    """
+                    input[0] = Channel.of([
+                        [ id:'test_fasta' ],
+                        [file(params.test_data['homo_sapiens']['genome']['genome_fasta'], checkIfExists: true)]
+                    ])
+                    input[1] = Channel.of([
+                        [ id:'test_gtf' ],
+                        [file(params.test_data['homo_sapiens']['genome']['genome_gtf'], checkIfExists: true)]
+                    ])
+                    """
+                }
+            }
+        }
+
+        when {
+            process {
+                """
+                input[0] = Channel.of([
+                    [ id:'test', single_end:false ], // meta map
+                    [
+                        file(params.test_data['homo_sapiens']['illumina']['test_rnaseq_1_fastq_gz'], checkIfExists: true),
+                        file(params.test_data['homo_sapiens']['illumina']['test_rnaseq_2_fastq_gz'], checkIfExists: true)
+                    ]
+                ])
+                input[1] = STAR_GENOMEGENERATE.out.index
+                input[2] = Channel.of([
+                    [ id:'test_gtf' ],
+                    [file(params.test_data['homo_sapiens']['genome']['genome_gtf'], checkIfExists: true)]
+                ])
+                input[3] = false
+                input[4] = 'illumina'
+                input[5] = false
+                """
+            }
+        }
+
+        then {
+            assertAll(
+                { assert process.success },
+                { assert snapshot(file(process.out.log_final[0][1]).name).match("homo_sapiens - paired_end - arriba - log_final") },
+                { assert snapshot(file(process.out.log_out[0][1]).name).match("homo_sapiens - paired_end - arriba - log_out") },
+                { assert snapshot(file(process.out.log_progress[0][1]).name).match("homo_sapiens - paired_end - arriba - log_progress") },
+                { assert snapshot(process.out.bam).match("homo_sapiens - paired_end - arriba - bam") },
+                { assert snapshot(process.out.bam_sorted).match("homo_sapiens - paired_end - arriba - bam_sorted") },
+                { assert snapshot(process.out.bam_transcript).match("homo_sapiens - paired_end - arriba - bam_transcript") },
+                { assert snapshot(process.out.bam_unsorted).match("homo_sapiens - paired_end - arriba - bam_unsorted") },
+                { assert snapshot(process.out.bedgraph).match("homo_sapiens - paired_end - arriba - bedgraph") },
+                { assert snapshot(process.out.fastq).match("homo_sapiens - paired_end - arriba - fastq") },
+                { assert snapshot(process.out.junction).match("homo_sapiens - paired_end - arriba - junction") },
+                { assert snapshot(process.out.read_per_gene_tab).match("homo_sapiens - paired_end - arriba - read_per_gene_tab") },
+                { assert snapshot(process.out.sam).match("homo_sapiens - paired_end - arriba - sam") },
+                { assert snapshot(process.out.spl_junc_tab).match("homo_sapiens - paired_end - arriba - spl_junc_tab") },
+                { assert snapshot(process.out.tab).match("homo_sapiens - paired_end - arriba - tab") },
+                { assert snapshot(process.out.wig).match("homo_sapiens - paired_end - arriba - wig") },
+                { assert snapshot(process.out.versions).match("homo_sapiens - paired_end - arriba - versions") }
+            )
+        }
+    }
+
+    test("homo_sapiens - paired_end - starfusion") {
+        config "./nextflow.starfusion.config"
+
+        setup {
+            run("STAR_GENOMEGENERATE") {
+                script "../../../star/genomegenerate/main.nf"
+                process {
+                    """
+                    input[0] = Channel.of([
+                        [ id:'test_fasta' ],
+                        [file(params.test_data['homo_sapiens']['genome']['genome_fasta'], checkIfExists: true)]
+                    ])
+                    input[1] = Channel.of([
+                        [ id:'test_gtf' ],
+                        [file(params.test_data['homo_sapiens']['genome']['genome_gtf'], checkIfExists: true)]
+                    ])
+                    """
+                }
+            }
+        }
+
+        when {
+            process {
+                """
+                input[0] = Channel.of([
+                    [ id:'test', single_end:false ], // meta map
+                    [
+                        file(params.test_data['homo_sapiens']['illumina']['test_rnaseq_1_fastq_gz'], checkIfExists: true),
+                        file(params.test_data['homo_sapiens']['illumina']['test_rnaseq_2_fastq_gz'], checkIfExists: true)
+                    ]
+                ])
+                input[1] = STAR_GENOMEGENERATE.out.index
+                input[2] = Channel.of([
+                    [ id:'test_gtf' ],
+                    [file(params.test_data['homo_sapiens']['genome']['genome_gtf'], checkIfExists: true)]
+                ])
+                input[3] = false
+                input[4] = 'illumina'
+                input[5] = false
+                """
+            }
+        }
+
+        then {
+            assertAll(
+                { assert process.success },
+                { assert snapshot(file(process.out.log_final[0][1]).name).match("homo_sapiens - paired_end - starfusion - log_final") },
+                { assert snapshot(file(process.out.log_out[0][1]).name).match("homo_sapiens - paired_end - starfusion - log_out") },
+                { assert snapshot(file(process.out.log_progress[0][1]).name).match("homo_sapiens - paired_end - starfusion - log_progress") },
+                { assert snapshot(process.out.bam).match("homo_sapiens - paired_end - starfusion - bam") },
+                { assert snapshot(process.out.bam_sorted).match("homo_sapiens - paired_end - starfusion - bam_sorted") },
+                { assert snapshot(process.out.bam_transcript).match("homo_sapiens - paired_end - starfusion - bam_transcript") },
+                { assert snapshot(process.out.bam_unsorted).match("homo_sapiens - paired_end - starfusion - bam_unsorted") },
+                { assert snapshot(process.out.bedgraph).match("homo_sapiens - paired_end - starfusion - bedgraph") },
+                { assert snapshot(process.out.fastq).match("homo_sapiens - paired_end - starfusion - fastq") },
+                { assert snapshot(process.out.junction).match("homo_sapiens - paired_end - starfusion - junction") },
+                { assert snapshot(process.out.read_per_gene_tab).match("homo_sapiens - paired_end - starfusion - read_per_gene_tab") },
+                { assert snapshot(process.out.sam).match("homo_sapiens - paired_end - starfusion - sam") },
+                { assert snapshot(process.out.spl_junc_tab).match("homo_sapiens - paired_end - starfusion - spl_junc_tab") },
+                { assert snapshot(process.out.tab).match("homo_sapiens - paired_end - starfusion - tab") },
+                { assert snapshot(process.out.wig).match("homo_sapiens - paired_end - starfusion - wig") },
+                { assert snapshot(process.out.versions).match("homo_sapiens - paired_end - starfusion - versions") }
+            )
+        }
+    }
+
+    test("homo_sapiens - paired_end - multiple") {
+        config "./nextflow.config"
+
+        setup {
+            run("STAR_GENOMEGENERATE") {
+                script "../../../star/genomegenerate/main.nf"
+                process {
+                    """
+                    input[0] = Channel.of([
+                        [ id:'test_fasta' ],
+                        [file(params.test_data['homo_sapiens']['genome']['genome_fasta'], checkIfExists: true)]
+                    ])
+                    input[1] = Channel.of([
+                        [ id:'test_gtf' ],
+                        [file(params.test_data['homo_sapiens']['genome']['genome_gtf'], checkIfExists: true)]
+                    ])
+                    """
+                }
+            }
+        }
+
+        when {
+            process {
+                """
+                input[0] = Channel.of([
+                    [ id:'test', single_end:false ], // meta map
+                    [
+                        file(params.test_data['homo_sapiens']['illumina']['test_rnaseq_1_fastq_gz'], checkIfExists: true),
+                        file(params.test_data['homo_sapiens']['illumina']['test_rnaseq_2_fastq_gz'], checkIfExists: true),
+                        file(params.test_data['homo_sapiens']['illumina']['test_rnaseq_1_fastq_gz'], checkIfExists: true),
+                        file(params.test_data['homo_sapiens']['illumina']['test_rnaseq_2_fastq_gz'], checkIfExists: true)
+                    ]
+                ])
+                input[1] = STAR_GENOMEGENERATE.out.index
+                input[2] = Channel.of([
+                    [ id:'test_gtf' ],
+                    [file(params.test_data['homo_sapiens']['genome']['genome_gtf'], checkIfExists: true)]
+                ])
+                input[3] = false
+                input[4] = 'illumina'
+                input[5] = false
+                """
+            }
+        }
+
+        then {
+            assertAll(
+                { assert process.success },
+                { assert snapshot(file(process.out.log_final[0][1]).name).match("homo_sapiens - paired_end - multiple - log_final") },
+                { assert snapshot(file(process.out.log_out[0][1]).name).match("homo_sapiens - paired_end - multiple - log_out") },
+                { assert snapshot(file(process.out.log_progress[0][1]).name).match("homo_sapiens - paired_end - multiple - log_progress") },
+                { assert snapshot(process.out.bam).match("homo_sapiens - paired_end - multiple - bam") },
+                { assert snapshot(process.out.bam_sorted).match("homo_sapiens - paired_end - multiple - bam_sorted") },
+                { assert snapshot(process.out.bam_transcript).match("homo_sapiens - paired_end - multiple - bam_transcript") },
+                { assert snapshot(process.out.bam_unsorted).match("homo_sapiens - paired_end - multiple - bam_unsorted") },
+                { assert snapshot(process.out.bedgraph).match("homo_sapiens - paired_end - multiple - bedgraph") },
+                { assert snapshot(process.out.fastq).match("homo_sapiens - paired_end - multiple - fastq") },
+                { assert snapshot(process.out.junction).match("homo_sapiens - paired_end - multiple - junction") },
+                { assert snapshot(process.out.read_per_gene_tab).match("homo_sapiens - paired_end - multiple - read_per_gene_tab") },
+                { assert snapshot(process.out.sam).match("homo_sapiens - paired_end - multiple - sam") },
+                { assert snapshot(process.out.spl_junc_tab).match("homo_sapiens - paired_end - multiple - spl_junc_tab") },
+                { assert snapshot(process.out.tab).match("homo_sapiens - paired_end - multiple - tab") },
+                { assert snapshot(process.out.wig).match("homo_sapiens - paired_end - multiple - wig") },
+                { assert snapshot(process.out.versions).match("homo_sapiens - paired_end - multiple - versions") }
+            )
+        }
+    }
+}
\ No newline at end of file
diff --git a/modules/nf-core/star/align/tests/main.nf.test.snap b/modules/nf-core/star/align/tests/main.nf.test.snap
new file mode 100644
index 00000000000..59b735d44a3
--- /dev/null
+++ b/modules/nf-core/star/align/tests/main.nf.test.snap
@@ -0,0 +1,769 @@
+{
+    "homo_sapiens - paired_end - multiple - bam_sorted": {
+        "content": [
+            [
+                [
+                    {
+                        "id": "test",
+                        "single_end": false
+                    },
+                    "test.Aligned.sortedByCoord.out.bam:md5,ab07c21d63ab0a6c07d171d213c81d5a"
+                ]
+            ]
+        ],
+        "timestamp": "2023-11-23T13:29:01.19639"
+    },
+    "homo_sapiens - paired_end - multiple - wig": {
+        "content": [
+            [
+                
+            ]
+        ],
+        "timestamp": "2023-11-23T13:29:01.857804"
+    },
+    "homo_sapiens - paired_end - arriba - tab": {
+        "content": [
+            [
+                [
+                    {
+                        "id": "test",
+                        "single_end": false
+                    },
+                    "test.SJ.out.tab:md5,5155c9fd1f787ad6d7d80987fb06219c"
+                ]
+            ]
+        ],
+        "timestamp": "2023-11-23T13:25:07.396223"
+    },
+    "homo_sapiens - single_end - wig": {
+        "content": [
+            [
+                
+            ]
+        ],
+        "timestamp": "2023-11-23T13:22:55.24701"
+    },
+    "homo_sapiens - paired_end - sam": {
+        "content": [
+            [
+                
+            ]
+        ],
+        "timestamp": "2023-11-23T13:23:33.383818"
+    },
+    "homo_sapiens - paired_end - arriba - versions": {
+        "content": [
+            [
+                "versions.yml:md5,452ef035aacbc68d47041e86279a9333"
+            ]
+        ],
+        "timestamp": "2023-11-23T13:25:07.494015"
+    },
+    "homo_sapiens - paired_end - multiple - bedgraph": {
+        "content": [
+            [
+                [
+                    {
+                        "id": "test",
+                        "single_end": false
+                    },
+                    [
+                        "test.Signal.Unique.str1.out.bg:md5,d7bf8b70b436ca048a62513e1d0ece3a",
+                        "test.Signal.UniqueMultiple.str1.out.bg:md5,686d58493b9eb445b56ace4d67f76ef6"
+                    ]
+                ]
+            ]
+        ],
+        "timestamp": "2023-11-23T13:29:01.396383"
+    },
+    "homo_sapiens - paired_end - read_per_gene_tab": {
+        "content": [
+            [
+                
+            ]
+        ],
+        "timestamp": "2023-11-23T13:23:33.368841"
+    },
+    "homo_sapiens - paired_end - arriba - bedgraph": {
+        "content": [
+            [
+                
+            ]
+        ],
+        "timestamp": "2023-11-23T13:25:07.102537"
+    },
+    "homo_sapiens - single_end - junction": {
+        "content": [
+            [
+                
+            ]
+        ],
+        "timestamp": "2023-11-23T13:22:55.185369"
+    },
+    "homo_sapiens - paired_end - arriba - spl_junc_tab": {
+        "content": [
+            [
+                [
+                    {
+                        "id": "test",
+                        "single_end": false
+                    },
+                    "test.SJ.out.tab:md5,5155c9fd1f787ad6d7d80987fb06219c"
+                ]
+            ]
+        ],
+        "timestamp": "2023-11-23T13:25:07.348239"
+    },
+    "homo_sapiens - single_end - sam": {
+        "content": [
+            [
+                
+            ]
+        ],
+        "timestamp": "2023-11-23T13:22:55.216183"
+    },
+    "homo_sapiens - paired_end - fastq": {
+        "content": [
+            [
+                
+            ]
+        ],
+        "timestamp": "2023-11-23T13:23:33.327236"
+    },
+    "homo_sapiens - single_end - versions": {
+        "content": [
+            [
+                "versions.yml:md5,452ef035aacbc68d47041e86279a9333"
+            ]
+        ],
+        "timestamp": "2023-11-23T13:22:55.259282"
+    },
+    "homo_sapiens - paired_end - multiple - log_out": {
+        "content": [
+            "test.Log.out"
+        ],
+        "timestamp": "2023-11-23T13:29:01.022176"
+    },
+    "homo_sapiens - paired_end - arriba - fastq": {
+        "content": [
+            [
+                
+            ]
+        ],
+        "timestamp": "2023-11-23T13:25:07.15277"
+    },
+    "homo_sapiens - paired_end - multiple - junction": {
+        "content": [
+            [
+                
+            ]
+        ],
+        "timestamp": "2023-11-23T13:29:01.52923"
+    },
+    "homo_sapiens - paired_end - multiple - spl_junc_tab": {
+        "content": [
+            [
+                [
+                    {
+                        "id": "test",
+                        "single_end": false
+                    },
+                    "test.SJ.out.tab:md5,069877e053714e23010fe4e1c003b4a2"
+                ]
+            ]
+        ],
+        "timestamp": "2023-11-23T13:29:01.729175"
+    },
+    "homo_sapiens - paired_end - starfusion - log_final": {
+        "content": [
+            "test.Log.final.out"
+        ],
+        "timestamp": "2023-11-23T13:27:55.905883"
+    },
+    "homo_sapiens - paired_end - starfusion - fastq": {
+        "content": [
+            [
+                
+            ]
+        ],
+        "timestamp": "2023-11-23T13:27:56.192302"
+    },
+    "homo_sapiens - paired_end - multiple - sam": {
+        "content": [
+            [
+                
+            ]
+        ],
+        "timestamp": "2023-11-23T13:29:01.661837"
+    },
+    "homo_sapiens - paired_end - multiple - log_final": {
+        "content": [
+            "test.Log.final.out"
+        ],
+        "timestamp": "2023-11-23T13:29:00.966417"
+    },
+    "homo_sapiens - paired_end - starfusion - bam": {
+        "content": [
+            [
+                [
+                    {
+                        "id": "test",
+                        "single_end": false
+                    },
+                    "test.Aligned.out.bam:md5,bcad07b838f6762fc01eea52b5cd3f84"
+                ]
+            ]
+        ],
+        "timestamp": "2023-11-23T13:27:56.003675"
+    },
+    "homo_sapiens - paired_end - arriba - junction": {
+        "content": [
+            [
+                
+            ]
+        ],
+        "timestamp": "2023-11-23T13:25:07.202776"
+    },
+    "homo_sapiens - single_end - bedgraph": {
+        "content": [
+            [
+                [
+                    {
+                        "id": "test",
+                        "single_end": true
+                    },
+                    [
+                        "test.Signal.Unique.str1.out.bg:md5,c56fc1472776fb927eaf62d973da5f9a",
+                        "test.Signal.UniqueMultiple.str1.out.bg:md5,e93373cf6f2a2a9506e2efdb260cdd4f"
+                    ]
+                ]
+            ]
+        ],
+        "timestamp": "2023-11-23T13:22:55.163495"
+    },
+    "homo_sapiens - paired_end - arriba - read_per_gene_tab": {
+        "content": [
+            [
+                
+            ]
+        ],
+        "timestamp": "2023-11-23T13:25:07.251962"
+    },
+    "homo_sapiens - paired_end - starfusion - bam_sorted": {
+        "content": [
+            [
+                
+            ]
+        ],
+        "timestamp": "2023-11-23T13:27:56.040843"
+    },
+    "homo_sapiens - single_end - bam_unsorted": {
+        "content": [
+            [
+                
+            ]
+        ],
+        "timestamp": "2023-11-23T13:22:55.154172"
+    },
+    "homo_sapiens - paired_end - bam": {
+        "content": [
+            [
+                [
+                    {
+                        "id": "test",
+                        "single_end": false
+                    },
+                    "test.Aligned.sortedByCoord.out.bam:md5,b9ee1c607e07323bc1652ef3babb543f"
+                ]
+            ]
+        ],
+        "timestamp": "2023-11-23T13:23:33.265265"
+    },
+    "homo_sapiens - paired_end - arriba - bam_transcript": {
+        "content": [
+            [
+                
+            ]
+        ],
+        "timestamp": "2023-11-23T13:25:06.998817"
+    },
+    "homo_sapiens - paired_end - log_out": {
+        "content": [
+            "test.Log.out"
+        ],
+        "timestamp": "2023-11-23T13:23:33.259699"
+    },
+    "homo_sapiens - paired_end - arriba - log_out": {
+        "content": [
+            "test.Log.out"
+        ],
+        "timestamp": "2023-11-23T13:25:06.849451"
+    },
+    "homo_sapiens - paired_end - multiple - versions": {
+        "content": [
+            [
+                "versions.yml:md5,452ef035aacbc68d47041e86279a9333"
+            ]
+        ],
+        "timestamp": "2023-11-23T13:29:01.937182"
+    },
+    "homo_sapiens - paired_end - starfusion - bam_transcript": {
+        "content": [
+            [
+                
+            ]
+        ],
+        "timestamp": "2023-11-23T13:27:56.082408"
+    },
+    "homo_sapiens - paired_end - starfusion - tab": {
+        "content": [
+            [
+                [
+                    {
+                        "id": "test",
+                        "single_end": false
+                    },
+                    "test.SJ.out.tab:md5,19c3faa1bfa9a0cc5e4c45f17065b53a"
+                ]
+            ]
+        ],
+        "timestamp": "2023-11-23T13:27:56.379367"
+    },
+    "homo_sapiens - single_end - fastq": {
+        "content": [
+            [
+                
+            ]
+        ],
+        "timestamp": "2023-11-23T13:22:55.175307"
+    },
+    "homo_sapiens - paired_end - tab": {
+        "content": [
+            [
+                [
+                    {
+                        "id": "test",
+                        "single_end": false
+                    },
+                    "test.SJ.out.tab:md5,844af19ab0fc8cd9a3f75228445aca0d"
+                ]
+            ]
+        ],
+        "timestamp": "2023-11-23T13:23:33.413683"
+    },
+    "homo_sapiens - paired_end - starfusion - bedgraph": {
+        "content": [
+            [
+                
+            ]
+        ],
+        "timestamp": "2023-11-23T13:27:56.155413"
+    },
+    "homo_sapiens - single_end - bam_transcript": {
+        "content": [
+            [
+                
+            ]
+        ],
+        "timestamp": "2023-11-23T13:22:55.144852"
+    },
+    "homo_sapiens - paired_end - versions": {
+        "content": [
+            [
+                "versions.yml:md5,452ef035aacbc68d47041e86279a9333"
+            ]
+        ],
+        "timestamp": "2023-11-23T13:23:33.445323"
+    },
+    "homo_sapiens - paired_end - multiple - tab": {
+        "content": [
+            [
+                [
+                    {
+                        "id": "test",
+                        "single_end": false
+                    },
+                    "test.SJ.out.tab:md5,069877e053714e23010fe4e1c003b4a2"
+                ]
+            ]
+        ],
+        "timestamp": "2023-11-23T13:29:01.793129"
+    },
+    "homo_sapiens - single_end - bam": {
+        "content": [
+            [
+                [
+                    {
+                        "id": "test",
+                        "single_end": true
+                    },
+                    "test.Aligned.sortedByCoord.out.bam:md5,c6cfaccaf91bc7fdabed3cfe236d4535"
+                ]
+            ]
+        ],
+        "timestamp": "2023-11-23T13:22:55.128568"
+    },
+    "homo_sapiens - paired_end - arriba - wig": {
+        "content": [
+            [
+                
+            ]
+        ],
+        "timestamp": "2023-11-23T13:25:07.444214"
+    },
+    "homo_sapiens - paired_end - log_progress": {
+        "content": [
+            [
+                [
+                    {
+                        "id": "test",
+                        "single_end": false
+                    },
+                    "test.Log.progress.out:md5,b2bd061d6cbaaf3d6d3b1fed547f69b8"
+                ]
+            ]
+        ],
+        "timestamp": "2023-11-23T13:23:33.354416"
+    },
+    "homo_sapiens - paired_end - arriba - log_final": {
+        "content": [
+            "test.Log.final.out"
+        ],
+        "timestamp": "2023-11-23T13:25:06.829799"
+    },
+    "homo_sapiens - paired_end - bam_unsorted": {
+        "content": [
+            [
+                
+            ]
+        ],
+        "timestamp": "2023-11-23T13:23:33.300509"
+    },
+    "homo_sapiens - paired_end - arriba - sam": {
+        "content": [
+            [
+                
+            ]
+        ],
+        "timestamp": "2023-11-23T13:25:07.300383"
+    },
+    "homo_sapiens - paired_end - multiple - bam": {
+        "content": [
+            [
+                [
+                    {
+                        "id": "test",
+                        "single_end": false
+                    },
+                    "test.Aligned.sortedByCoord.out.bam:md5,ab07c21d63ab0a6c07d171d213c81d5a"
+                ]
+            ]
+        ],
+        "timestamp": "2023-11-23T13:29:01.13168"
+    },
+    "homo_sapiens - paired_end - multiple - fastq": {
+        "content": [
+            [
+                
+            ]
+        ],
+        "timestamp": "2023-11-23T13:29:01.462257"
+    },
+    "homo_sapiens - single_end - bam_sorted": {
+        "content": [
+            [
+                [
+                    {
+                        "id": "test",
+                        "single_end": true
+                    },
+                    "test.Aligned.sortedByCoord.out.bam:md5,c6cfaccaf91bc7fdabed3cfe236d4535"
+                ]
+            ]
+        ],
+        "timestamp": "2023-11-23T13:22:55.134799"
+    },
+    "homo_sapiens - paired_end - arriba - bam_sorted": {
+        "content": [
+            [
+                
+            ]
+        ],
+        "timestamp": "2023-11-23T13:25:06.94699"
+    },
+    "homo_sapiens - paired_end - starfusion - junction": {
+        "content": [
+            [
+                [
+                    {
+                        "id": "test",
+                        "single_end": false
+                    },
+                    "test.Chimeric.out.junction:md5,c10ef219f4a30e83711b995bc5e40dba"
+                ]
+            ]
+        ],
+        "timestamp": "2023-11-23T13:27:56.228327"
+    },
+    "homo_sapiens - single_end - tab": {
+        "content": [
+            [
+                [
+                    {
+                        "id": "test",
+                        "single_end": true
+                    },
+                    "test.SJ.out.tab:md5,75a516ab950fb958f40b29996474949c"
+                ]
+            ]
+        ],
+        "timestamp": "2023-11-23T13:22:55.236346"
+    },
+    "homo_sapiens - paired_end - starfusion - versions": {
+        "content": [
+            [
+                "versions.yml:md5,452ef035aacbc68d47041e86279a9333"
+            ]
+        ],
+        "timestamp": "2023-11-23T13:27:56.460903"
+    },
+    "homo_sapiens - paired_end - multiple - bam_unsorted": {
+        "content": [
+            [
+                
+            ]
+        ],
+        "timestamp": "2023-11-23T13:29:01.330463"
+    },
+    "homo_sapiens - paired_end - arriba - log_progress": {
+        "content": [
+            "test.Log.progress.out"
+        ],
+        "timestamp": "2023-11-23T13:25:06.86866"
+    },
+    "homo_sapiens - paired_end - bedgraph": {
+        "content": [
+            [
+                [
+                    {
+                        "id": "test",
+                        "single_end": false
+                    },
+                    [
+                        "test.Signal.Unique.str1.out.bg:md5,d7bf8b70b436ca048a62513e1d0ece3a",
+                        "test.Signal.UniqueMultiple.str1.out.bg:md5,686d58493b9eb445b56ace4d67f76ef6"
+                    ]
+                ]
+            ]
+        ],
+        "timestamp": "2023-11-23T13:23:33.313258"
+    },
+    "homo_sapiens - paired_end - starfusion - bam_unsorted": {
+        "content": [
+            [
+                
+            ]
+        ],
+        "timestamp": "2023-11-23T13:27:56.118974"
+    },
+    "homo_sapiens - paired_end - starfusion - read_per_gene_tab": {
+        "content": [
+            [
+                
+            ]
+        ],
+        "timestamp": "2023-11-23T13:27:56.264699"
+    },
+    "homo_sapiens - paired_end - multiple - log_progress": {
+        "content": [
+            "test.Log.progress.out"
+        ],
+        "timestamp": "2023-11-23T13:29:01.076947"
+    },
+    "homo_sapiens - paired_end - arriba - bam_unsorted": {
+        "content": [
+            [
+                
+            ]
+        ],
+        "timestamp": "2023-11-23T13:25:07.050409"
+    },
+    "homo_sapiens - paired_end - bam_sorted": {
+        "content": [
+            [
+                [
+                    {
+                        "id": "test",
+                        "single_end": false
+                    },
+                    "test.Aligned.sortedByCoord.out.bam:md5,b9ee1c607e07323bc1652ef3babb543f"
+                ]
+            ]
+        ],
+        "timestamp": "2023-11-23T13:23:33.274809"
+    },
+    "homo_sapiens - single_end - spl_junc_tab": {
+        "content": [
+            [
+                [
+                    {
+                        "id": "test",
+                        "single_end": true
+                    },
+                    "test.SJ.out.tab:md5,75a516ab950fb958f40b29996474949c"
+                ]
+            ]
+        ],
+        "timestamp": "2023-11-23T13:22:55.226143"
+    },
+    "homo_sapiens - paired_end - starfusion - spl_junc_tab": {
+        "content": [
+            [
+                [
+                    {
+                        "id": "test",
+                        "single_end": false
+                    },
+                    "test.SJ.out.tab:md5,19c3faa1bfa9a0cc5e4c45f17065b53a"
+                ]
+            ]
+        ],
+        "timestamp": "2023-11-23T13:27:56.337072"
+    },
+    "homo_sapiens - single_end - log_out": {
+        "content": [
+            "test.Log.out"
+        ],
+        "timestamp": "2023-11-23T13:22:55.126286"
+    },
+    "homo_sapiens - paired_end - log_final": {
+        "content": [
+            "test.Log.final.out"
+        ],
+        "timestamp": "2023-11-23T13:23:33.253884"
+    },
+    "homo_sapiens - single_end - log_final": {
+        "content": [
+            "test.Log.final.out"
+        ],
+        "timestamp": "2023-11-23T13:22:55.11799"
+    },
+    "homo_sapiens - paired_end - bam_transcript": {
+        "content": [
+            [
+                
+            ]
+        ],
+        "timestamp": "2023-11-23T13:23:33.287684"
+    },
+    "homo_sapiens - paired_end - starfusion - log_progress": {
+        "content": [
+            "test.Log.progress.out"
+        ],
+        "timestamp": "2023-11-23T13:27:55.971484"
+    },
+    "homo_sapiens - paired_end - multiple - bam_transcript": {
+        "content": [
+            [
+                
+            ]
+        ],
+        "timestamp": "2023-11-23T13:29:01.264176"
+    },
+    "homo_sapiens - paired_end - multiple - read_per_gene_tab": {
+        "content": [
+            [
+                
+            ]
+        ],
+        "timestamp": "2023-11-23T13:29:01.596406"
+    },
+    "homo_sapiens - single_end - read_per_gene_tab": {
+        "content": [
+            [
+                
+            ]
+        ],
+        "timestamp": "2023-11-23T13:22:55.205936"
+    },
+    "homo_sapiens - paired_end - junction": {
+        "content": [
+            [
+                
+            ]
+        ],
+        "timestamp": "2023-11-23T13:23:33.340653"
+    },
+    "homo_sapiens - paired_end - spl_junc_tab": {
+        "content": [
+            [
+                [
+                    {
+                        "id": "test",
+                        "single_end": false
+                    },
+                    "test.SJ.out.tab:md5,844af19ab0fc8cd9a3f75228445aca0d"
+                ]
+            ]
+        ],
+        "timestamp": "2023-11-23T13:23:33.398603"
+    },
+    "homo_sapiens - paired_end - starfusion - sam": {
+        "content": [
+            [
+                
+            ]
+        ],
+        "timestamp": "2023-11-23T13:27:56.300637"
+    },
+    "homo_sapiens - paired_end - arriba - bam": {
+        "content": [
+            [
+                [
+                    {
+                        "id": "test",
+                        "single_end": false
+                    },
+                    "test.Aligned.out.bam:md5,c1b1747f5873f2d17762725636e891d5"
+                ]
+            ]
+        ],
+        "timestamp": "2023-11-23T13:25:06.887604"
+    },
+    "homo_sapiens - single_end - log_progress": {
+        "content": [
+            [
+                [
+                    {
+                        "id": "test",
+                        "single_end": true
+                    },
+                    "test.Log.progress.out:md5,b2bd061d6cbaaf3d6d3b1fed547f69b8"
+                ]
+            ]
+        ],
+        "timestamp": "2023-11-23T13:22:55.195544"
+    },
+    "homo_sapiens - paired_end - starfusion - wig": {
+        "content": [
+            [
+                
+            ]
+        ],
+        "timestamp": "2023-11-23T13:27:56.422018"
+    },
+    "homo_sapiens - paired_end - wig": {
+        "content": [
+            [
+                
+            ]
+        ],
+        "timestamp": "2023-11-23T13:23:33.429457"
+    },
+    "homo_sapiens - paired_end - starfusion - log_out": {
+        "content": [
+            "test.Log.out"
+        ],
+        "timestamp": "2023-11-23T13:27:55.93945"
+    }
+}
\ No newline at end of file
diff --git a/modules/nf-core/star/align/tests/nextflow.arriba.config b/modules/nf-core/star/align/tests/nextflow.arriba.config
new file mode 100644
index 00000000000..2324b9e58fe
--- /dev/null
+++ b/modules/nf-core/star/align/tests/nextflow.arriba.config
@@ -0,0 +1,14 @@
+process {
+
+    withName: STAR_GENOMEGENERATE {
+        ext.args = '--genomeSAindexNbases 9'
+    }
+
+    withName: STAR_ALIGN {
+        ext.args = '--readFilesCommand zcat --outSAMtype BAM Unsorted --outSAMunmapped Within --outBAMcompression 0 --outFilterMultimapNmax 50 --peOverlapNbasesMin 10 --alignSplicedMateMapLminOverLmate 0.5 --alignSJstitchMismatchNmax 5 -1 5 5 --chimSegmentMin 10 --chimOutType WithinBAM HardClip --chimJunctionOverhangMin 10 --chimScoreDropMax 30 --chimScoreJunctionNonGTAG 0 --chimScoreSeparation 1 --chimSegmentReadGapMax 3 --chimMultimapNmax 50'
+    }
+
+}
+
+// Fix chown issue for the output star folder
+docker.runOptions = '--platform=linux/amd64 -u $(id -u):$(id -g)'
diff --git a/modules/nf-core/star/align/tests/nextflow.config b/modules/nf-core/star/align/tests/nextflow.config
new file mode 100644
index 00000000000..c4ac58088bb
--- /dev/null
+++ b/modules/nf-core/star/align/tests/nextflow.config
@@ -0,0 +1,14 @@
+process {
+
+    withName: STAR_GENOMEGENERATE {
+        ext.args = '--genomeSAindexNbases 9'
+    }
+
+    withName: STAR_ALIGN {
+        ext.args = '--readFilesCommand zcat --outSAMtype BAM SortedByCoordinate --outWigType bedGraph --outWigStrand Unstranded'
+    }
+
+}
+
+// Fix chown issue for the output star folder
+docker.runOptions = '--platform=linux/amd64 -u $(id -u):$(id -g)'
diff --git a/modules/nf-core/star/align/tests/nextflow.starfusion.config b/modules/nf-core/star/align/tests/nextflow.starfusion.config
new file mode 100644
index 00000000000..467b64977c7
--- /dev/null
+++ b/modules/nf-core/star/align/tests/nextflow.starfusion.config
@@ -0,0 +1,14 @@
+process {
+
+    withName: STAR_GENOMEGENERATE {
+        ext.args = '--genomeSAindexNbases 9'
+    }
+
+    withName: STAR_ALIGN {
+        ext.args = '--readFilesCommand zcat --outSAMtype BAM Unsorted --outReadsUnmapped None --twopassMode Basic --outSAMstrandField intronMotif --outSAMunmapped Within --chimSegmentMin 12 --chimJunctionOverhangMin 8 --chimOutJunctionFormat 1 --alignSJDBoverhangMin 10 --alignMatesGapMax 100000 --alignIntronMax 100000 --alignSJstitchMismatchNmax 5 -1 5 5 --chimMultimapScoreRange 3 --chimScoreJunctionNonGTAG -4 --chimMultimapNmax 20 --chimNonchimScoreDropMin 10 --peOverlapNbasesMin 12 --peOverlapMMp 0.1 --alignInsertionFlush Right --alignSplicedMateMapLminOverLmate 0 --alignSplicedMateMapLmin 30'
+    }
+
+}
+
+// Fix chown issue for the output star folder
+docker.runOptions = '--platform=linux/amd64 -u $(id -u):$(id -g)'
diff --git a/modules/nf-core/star/align/tests/tags.yml b/modules/nf-core/star/align/tests/tags.yml
new file mode 100644
index 00000000000..8beace16e13
--- /dev/null
+++ b/modules/nf-core/star/align/tests/tags.yml
@@ -0,0 +1,2 @@
+star/align:
+  - modules/nf-core/star/align/**
diff --git a/tests/config/pytest_modules.yml b/tests/config/pytest_modules.yml
index 10c5d85cea4..c5a4bc30648 100644
--- a/tests/config/pytest_modules.yml
+++ b/tests/config/pytest_modules.yml
@@ -3496,10 +3496,6 @@ staphopiasccmec:
   - modules/nf-core/staphopiasccmec/**
   - tests/modules/nf-core/staphopiasccmec/**
 
-star/align:
-  - modules/nf-core/star/align/**
-  - tests/modules/nf-core/star/align/**
-
 star/starsolo:
   - modules/nf-core/star/starsolo/**
   - tests/modules/nf-core/star/starsolo/**