sanger-tol · sanger-tolsoft · Feb 2, 2026 · Feb 27, 2026
diff --git a/.nf-core.yml b/.nf-core.yml
@@ -30,7 +30,7 @@ lint:
     - validation.help.afterText
     - validation.summary.beforeText
     - validation.summary.afterText
-nf_core_version: 3.5.1
+nf_core_version: 3.5.2
 repository_type: pipeline
 template:
   author: yumisims

diff --git a/README.md b/README.md
@@ -6,7 +6,7 @@
 [![nf-test](https://img.shields.io/badge/unit_tests-nf--test-337ab7.svg)](https://www.nf-test.com)
 
 [![Nextflow](https://img.shields.io/badge/version-%E2%89%A525.04.0-green?style=flat&logo=nextflow&logoColor=white&color=%230DC09D&link=https%3A%2F%2Fnextflow.io)](https://www.nextflow.io/)
-[![nf-core template version](https://img.shields.io/badge/nf--core_template-3.5.1-green?style=flat&logo=nfcore&logoColor=white&color=%2324B064&link=https%3A%2F%2Fnf-co.re)](https://github.com/nf-core/tools/releases/tag/3.5.1)
+[![nf-core template version](https://img.shields.io/badge/nf--core_template-3.5.2-green?style=flat&logo=nfcore&logoColor=white&color=%2324B064&link=https%3A%2F%2Fnf-co.re)](https://github.com/nf-core/tools/releases/tag/3.5.2)
 [![run with conda](http://img.shields.io/badge/run%20with-conda-3EB049?labelColor=000000&logo=anaconda)](https://docs.conda.io/en/latest/)
 [![run with docker](https://img.shields.io/badge/run%20with-docker-0db7ed?labelColor=000000&logo=docker)](https://www.docker.com/)
 [![run with singularity](https://img.shields.io/badge/run%20with-singularity-1d355c.svg?labelColor=000000)](https://sylabs.io/docs/)

diff --git a/ro-crate-metadata.json b/ro-crate-metadata.json
@@ -344,4 +344,4 @@
             "url": "https://pipelines.tol.sanger.ac.uk/"
         }
     ]
-}
+}
diff --git a/tests/default.nf.test b/tests/default.nf.test
@@ -24,8 +24,6 @@ nextflow_pipeline {
             assertAll(
                 { assert workflow.success},
                 { assert snapshot(
-                    // Number of successful tasks
-                    workflow.trace.succeeded().size(),
                     // pipeline versions.yml file for multiqc from which Nextflow version is removed because we test pipelines on multiple Nextflow versions
                     removeNextflowVersion("$outputDir/pipeline_info/nfmicrofinder_software_versions.yml"),
                     // All stable path name, with a relative path
-Original file line number
+Diff line change
@@ Expand Up / @@ -344,4 +344,4 @@ @@
                 "url": "https://pipelines.tol.sanger.ac.uk/"
             }
         ]
-    }
+    }