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KEGG warn message

Open vruggieri opened this issue 2 years ago • 3 comments

Thanks for providing this nice pipeline! I run an analysis with the following command: ./nextflow run TransPi.nf --all --maxReadLen 143 --k 25,35,55,75,85 --reads '/media/server2/Data_2Gb/Melongena/Data/Trimmed/Trimmed/provaR673_HP/R673HP831val_R[1,2].fastq.gz' --outdir /media/server2/Data_2Gb/Melongena/TransPi_R673_HP8 -profile docker --skipQC

Everthing was ok, except that the pipeline ended with a KEGG warning message: "WARN: Access to undefined parameter skipKegg -- Initialise it to a default value eg. params.skipKegg = some_value" annotation. Indedd in the trinotate folder the KEGG report file is empty as well as the kegg section in the html.

Any suggestion for that issue?

Thank you in advance

vruggieri avatar Mar 09 '22 10:03 vruggieri