CAT_CAT & FASTK_FASTK in KMER causing naming issues

[DLBPointon]

Description of the bug

Whilst updating the yaml and its references I have come across a bug where the file isn't being renamed as expected, the string to represent the file location is however being changed. So CAT_CAT is outputting ${meta.id}.gz, the string representation is updated to ${meta.id}.fa.gz but the file is not updated, therefore causing FASTK_FASTK to error out.

I don't expect anything done so far to be negatively affected. As this is only an issue post yaml update (which is odd in and of itself).

To fix this, I have added some config for CAT_CAT that outputs a file named ${meta.id}_merged.fasta.gz which circumvents the renaming that was happening.

Command used and terminal output

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Relevant files

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System information

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