Merge pull request #3304 from nf-core/remove-channel-operations-from-oncomplete

Remove toList() channel operation from inside onComplete block

Author: mirpedrol

CHANGELOG.md

@@ -62,6 +62,7 @@
 - Update pre-commit hook astral-sh/ruff-pre-commit to v0.8.2 ([#3325](https://github.com/nf-core/tools/pull/3325))
 - Make CLI prompt less nf-core specific ([#3326](https://github.com/nf-core/tools/pull/3326))
 - Update gitpod vscode extensions to use nf-core extension pack ([#3327](https://github.com/nf-core/tools/pull/3327))
+- Remove toList() channel operation from inside onComplete block ([#3304](https://github.com/nf-core/tools/pull/3304))
 
 ## [v3.0.2 - Titanium Tapir Patch](https://github.com/nf-core/tools/releases/tag/3.0.2) - [2024-10-11]
 

nf_core/pipeline-template/modules.json

@@ -28,7 +28,7 @@
                     },
                     "utils_nfcore_pipeline": {
                         "branch": "master",
-                        "git_sha": "9a1e8bb6a5d205cf7807dcefca872a3314b2f3e6",
+                        "git_sha": "85400682a2abac63b09c863c138e91e5df7236b5",
                         "installed_by": ["subworkflows"]
                     }{% if nf_schema %},
                     "utils_nfschema_plugin": {

nf_core/pipeline-template/subworkflows/local/utils_nfcore_pipeline_pipeline/main.nf

@@ -140,6 +140,10 @@ workflow PIPELINE_COMPLETION {
     summary_params = [:]
     {%- endif %}
 
+    {%- if multiqc %}
+    def multiqc_reports = multiqc_report.toList()
+    {%- endif %}
+    
     //
     // Completion email and summary
     //
@@ -153,7 +157,7 @@ workflow PIPELINE_COMPLETION {
                 plaintext_email,
                 outdir,
                 monochrome_logs,
-                {% if multiqc %}multiqc_report.toList(){% else %}[]{% endif %}
+                {% if multiqc %}multiqc_reports.getVal(),{% else %}[]{% endif %}
             )
         }
         {%- endif %}