diff --git a/conf/base.config b/conf/base.config
index aa3d2cd07f40da0c956e9bf814171d0562b0e78f..768c2dcdd5fc6cb6c889218f19c2bea19c96b7eb 100644
--- a/conf/base.config
+++ b/conf/base.config
@@ -28,6 +28,7 @@ process {
         memory = { 8.GB * task.attempt }
     }
     withName: MULTIQC {
+        container = 'quay.io/biocontainers/multiqc:1.27.1--pyhdfd78af_0'
         memory = { 8.GB * task.attempt }
     }
     withName: HOST_FILTER {
diff --git a/conf/test.config b/conf/test.config
index 9bac780575114a7a932bf58b26a2ec72e14b25b4..cd3005c31f695b45fa66e723c27f2819a12a26b4 100644
--- a/conf/test.config
+++ b/conf/test.config
@@ -18,6 +18,7 @@ process {
         memory = { 2.GB * task.attempt }
     }
     withName: MULTIQC {
+        container = 'quay.io/biocontainers/multiqc:1.27.1--pyhdfd78af_0'
         executor = "local"
         memory = { 2.GB * task.attempt }
     }
diff --git a/env/metagWGS.yml b/env/metagWGS.yml
index 463510dd7f7935b58f2d2ee2db86c44b2aa9d369..dbde1c5f3f8050c33b4aabd9dbc627bf2ac38629 100644
--- a/env/metagWGS.yml
+++ b/env/metagWGS.yml
@@ -19,7 +19,6 @@ dependencies:
   - krona=2.8.1
   - megahit=1.2.9
   - minimap2=2.24
-  - multiqc=1.14
   - pandas=1.5.2
   - plotly
   - prodigal=2.6.3
diff --git a/modules/get_software_versions.nf b/modules/get_software_versions.nf
index a60f2174a31f01a32b0820d864d3ee2cbc8321ff..97cbef9430efb71648db97d80242b4e0750d2d1d 100644
--- a/modules/get_software_versions.nf
+++ b/modules/get_software_versions.nf
@@ -17,7 +17,6 @@ process GET_SOFTWARE_VERSIONS {
     echo $workflow.manifest.version > v_pipeline.txt
     echo $workflow.nextflow.version > v_nextflow.txt
     python --version &> v_python.txt
-    multiqc --version &> v_multiqc.txt
     scrape_software_versions.py > software_versions_mqc.yaml
     """
 }
\ No newline at end of file
diff --git a/modules/multiqc.nf b/modules/multiqc.nf
index d4581ade489f255926ba3abdc8cd6f3299a60d92..68b88160af8106134c262bd92cca05676b3dbc78 100644
--- a/modules/multiqc.nf
+++ b/modules/multiqc.nf
@@ -26,7 +26,7 @@ process MULTIQC {
   
   script:
     """
-    multiqc . --config ${multiqc_config} -m custom_content -m fastqc -m cutadapt -m sickle -m kaiju -m quast -m prokka -m featureCounts -m samtools
+    multiqc . --config ${multiqc_config} -m custom_content -m fastqc -m cutadapt -m sickle -m kaiju -m quast -m prokka -m featurecounts -m samtools
     multiqc --version > v_multiqc.txt
     """
 }