diff --git a/.github/workflows/download_pipeline.yml b/.github/workflows/download_pipeline.yml
index 977b425..f60afc0 100644
--- a/.github/workflows/download_pipeline.yml
+++ b/.github/workflows/download_pipeline.yml
@@ -29,7 +29,7 @@ env:
 
 jobs:
   configure:
-    runs-on: ubuntu-latest{% raw %}
+    runs-on: ubuntu-latest
     outputs:
       REPO_LOWERCASE: ${{ steps.get_repo_properties.outputs.REPO_LOWERCASE }}
       REPOTITLE_LOWERCASE: ${{ steps.get_repo_properties.outputs.REPOTITLE_LOWERCASE }}
@@ -40,7 +40,7 @@ jobs:
         run: |
           echo "REPO_LOWERCASE=${GITHUB_REPOSITORY,,}" >> "$GITHUB_OUTPUT"
           echo "REPOTITLE_LOWERCASE=$(basename ${GITHUB_REPOSITORY,,})" >> "$GITHUB_OUTPUT"
-          echo "REPO_BRANCH=${{ github.event.inputs.testbranch || 'dev' }}" >> "$GITHUB_OUTPUT{% endraw %}"
+          echo "REPO_BRANCH=${{ github.event.inputs.testbranch || 'dev' }}" >> "$GITHUB_OUTPUT"
 
   download:
     runs-on: ubuntu-latest
@@ -85,10 +85,10 @@ jobs:
           --download-configuration 'yes'
 
       - name: Inspect download
-        run: tree ./${{ needs.configure.outputs.REPOTITLE_LOWERCASE }}{% endraw %}
+        run: tree ./${{ needs.configure.outputs.REPOTITLE_LOWERCASE }}
 
       - name: Inspect container images
-        run: tree ./singularity_container_images | tee ./container_initial{% if test_config %}{% raw %}
+        run: tree ./singularity_container_images | tee ./container_initial
 
       - name: Count the downloaded number of container images
         id: count_initial
diff --git a/.nf-core.yml b/.nf-core.yml
index ced508b..b4a8033 100644
--- a/.nf-core.yml
+++ b/.nf-core.yml
@@ -27,7 +27,7 @@ lint:
   nextflow_config:
     - manifest.name
     - manifest.homePage
-nf_core_version: 3.2.0
+nf_core_version: 3.2.1
 repository_type: pipeline
 template:
   author: SusiJo, FriederikeHanssen, famosab
diff --git a/CHANGELOG.md b/CHANGELOG.md
index 45ddec4..23e2e8c 100644
--- a/CHANGELOG.md
+++ b/CHANGELOG.md
@@ -13,6 +13,7 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 
 - [#34](https://github.com/qbic-pipelines/vcftomaf/pull/34) - Update vcf2maf configuration to adhere to hg38 as reference genome (@famosab)
 - [#35](https://github.com/qbic-pipelines/vcftomaf/pull/35) - Template update to 3.2.0 (@famosab)
+- [#37](https://github.com/qbic-pipelines/vcftomaf/pull/37) - Template update to 3.2.1 (@famosab)
 
 ### `Dependencies`
 
diff --git a/docs/output.md b/docs/output.md
index 88d7720..630436b 100644
--- a/docs/output.md
+++ b/docs/output.md
@@ -70,7 +70,9 @@ The pipeline is built using [Nextflow](https://www.nextflow.io/) and processes d
 
 [MultiQC](http://multiqc.info) is a visualization tool that generates a single HTML report summarising all samples in your project. Most of the pipeline QC results are visualised in the report and further statistics are available in the report data directory.
 
-Results generated by MultiQC collate pipeline QC from supported tools e.g. FastQC. The pipeline has special steps which also allow the software versions to be reported in the MultiQC output for future traceability. For more information about how to use MultiQC reports, see <http://multiqc.info>.### Pipeline information
+Results generated by MultiQC collate pipeline QC from supported tools e.g. FastQC. The pipeline has special steps which also allow the software versions to be reported in the MultiQC output for future traceability. For more information about how to use MultiQC reports, see <http://multiqc.info>.
+
+### Pipeline information
 
 <details markdown="1">
 <summary>Output files</summary>
diff --git a/nextflow.config b/nextflow.config
index 81813de..19f6d00 100644
--- a/nextflow.config
+++ b/nextflow.config
@@ -264,7 +264,7 @@ manifest {
 
 // Nextflow plugins
 plugins {
-    id 'nf-schema@2.3.0' // Validation of pipeline parameters and creation of an input channel from a sample sheet
+    id 'nf-schema@2.2.0' // Validation of pipeline parameters and creation of an input channel from a sample sheet
 }
 
 validation {