Failing to parse template script for workflow.onComplete event handler

[lianov]

Description of the bug

Template generation with nf-core create (v 2.3.2) seems to cause an issue with the assets/email_template.html file.

A simple workflow (FastQC + MultiQC) from the current template fails at the completion email/summary at the workflow.onComplete event handler (fails to invoke the event handler):

From .nextflow.log

groovy.lang.GroovyRuntimeException: Failed to parse template script (your template may contain an error or be trying to use expressions not currently supported): startup failed:
GStringTemplateScript2.groovy: 80: Unexpected character: '"' @ line 80, column 48.
   ut << summary.collect{ k,v -> "
                                 ^

1 error

Changing the Pipeline Configuration configuration section to the older style fixes the issue, e.g.:

      <h3>Pipeline Configuration:</h3>
      <table style="width:100%; max-width:100%; border-spacing: 0; border-collapse: collapse; border:0; margin-bottom: 30px;">
          <tbody style="border-bottom: 1px solid #ddd;">
              <% out << summary.collect{ k,v -> "<tr><th style='text-align:left; padding: 8px 0; line-height: 1.42857143; vertical-align: top; border-top: 1px solid #ddd;'>$k</th><td style='text-align:left; padding: 8px; line-height: 1.42857143; vertical-align: top; border-top: 1px solid #ddd;'><pre style='white-space: pre-wrap; overflow: visible;'>$v</pre></td></tr>" }.join("\n") %>
          </tbody>
      </table>

with the caveat of course that linting the workflow will cause an issue at this section since it's no longer synched with the template

Command used and terminal output

nf-core create
nextflow run main.nf -params-file ./params.yml -profile test,cheaha --outdir results


# params.yml contained my email to the param `email`.
# institutional profile used here, but issue is not linked to that

System information

Nextflow version: version 21.10.6
Hardware: HPC
Executor: executor - slurm
Container engine: Singularity
OS: CentOS Linux,
Version of nf-core/tools: 2.3.2
Python 3.9.12

[ewels]

Thanks for reporting this @lianov 👍🏻

Tested and replicated locally. Confirmed that reverting the Prettier formatting changes fixes it.

Instead of messing around trying to ignore specific bits of the file, I've just reverted the entire thing to how it was and am now ignoring it in the .prettierignore file. See #1510.

Tested locally and this seems to fix the issue.

[lianov]

Perfect, thanks @ewels!