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sanger-tol / treeval

Pipelines for the production of Treeval data
https://pipelines.tol.sanger.ac.uk/treeval
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Gene alignment - invalid output extension #187

Closed weaglesBio closed 8 months ago

weaglesBio commented 8 months ago

Description of the bug

CAT_CAT output prefix, is being applied in gene alignment subworkflow, when it should only apply to kmer.

    withName: CAT_CAT {
        ext.prefix      = { "${meta.id}_merged.fasta.gz" }
    }

needs to be updated 

    withName: ".*:.*:FASTK_FASTK:CAT_CAT" {
        ext.prefix      = { "${meta.id}_merged.fasta.gz" }
    }

Command used and terminal output

No response

Relevant files

No response

System information

No response