Merge pull request #3425 from ewels/o-pipefail-newline

`-o pipefail` newline

CHANGELOG.md

@@ -21,6 +21,7 @@
 - Update pre-commit hook editorconfig-checker/editorconfig-checker.python to v3.1.2 ([#3414](https://github.com/nf-core/tools/pull/3414))
 - Fix `process.shell` in `nextflow.config` ([#3416](https://github.com/nf-core/tools/pull/3416))
 - Update python:3.12-slim Docker digest to 123be56 ([#3421](https://github.com/nf-core/tools/pull/3421))
+- `-o pipefail` newline ([#3425](https://github.com/nf-core/tools/pull/3425))
 
 ## [v3.1.2 - Brass Boxfish Patch](https://github.com/nf-core/tools/releases/tag/3.1.2) - [2025-01-20]
 

nf_core/pipeline-template/nextflow.config

@@ -243,7 +243,8 @@ process.shell = [
     "-C",         // No clobber - prevent output redirection from overwriting files.
     "-e",         // Exit if a tool returns a non-zero status/exit code
     "-u",         // Treat unset variables and parameters as an error
-    "-o pipefail" // Returns the status of the last command to exit with a non-zero status or zero if all successfully execute
+    "-o",         // Returns the status of the last command to exit..
+    "pipefail"    //   ..with a non-zero status or zero if all successfully execute
 ]
 
 // Disable process selector warnings by default. Use debug profile to enable warnings.