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added helpful comment for common gotcha - prefix scoping #3982

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added helpful comment for common gotcha - prefix scoping #3982

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3 changes: 3 additions & 0 deletions nf_core/module-template/main.nf
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Original file line number Diff line number Diff line change
Expand Up @@ -78,6 +78,9 @@ process {{ component_name_underscore|upper }} {
script:
def args = task.ext.args ?: ''
{% if has_meta -%}
// TODO nf-core: The $prefix variable as defined below is ONLY available within the script block.
// If $prefix is required elsewhere (eg in output block), remove the def keyword.
// For further information on variable scope see https://midnighter.github.io/nextflow-gotchas/gotchas/variable-scope/
def prefix = task.ext.prefix ?: "${meta.id}"
{%- endif %}
{% if not_empty_template -%}
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