DOUBLET_REMOVAL publishDir error

[alexhermida]

Description of the bug

Hello, thank you for the work in this project.

We encounter the following issue running this pipeline at the DOUBLET_DETECTION:DOUBLET_REMOVAL process.

No signature of method: groovy.util.ConfigObject.endsWith() is applicable for argument types: (String) values: [.json]

Looking to the code it looks like a bug was introduced in PR #133 in the modules.config file

saveAs: { filename -> filename.equals('versions.yml') && nullfilfilename.endsWith('.json') ? filename : null }

I've be happy to open a PR for fixing if you point us the preferred logic for that statement.

Best

Command used and terminal output

Relevant files

No response

System information

No response

[nictru]

Hey, thanks for pointing this out. Will probably be an easy fix, I can look into it later today

[alexhermida]

Thank you for the prompt reply @nictru that would be great.

[nictru]

Ok apparently I just slipped on the keyboard or something

The code in this location should make sure that the versions.yml file and the .yml file for MultiQC are not added to the publishDir, as they are above represented in the MultiQC report.

[nictru]

If the problem persists, feel free to re-open