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krakendb library error #2

@slives-lab

Description

@slives-lab

error encountered when running the following:

nextflow run maxibor/kraken-nf --reads "file_*{1,2}.fastq.gz" --krakendb "/folder/k2_pluspfp_08gb_20240605.tar.gz"

Here is the error:

[8d/ba0ab6] NOTE: Process kraken2 (file_rep1) terminated with an error exit status (255) -- Error is ignored

Error is likely due to --krakendb, but when I tar unzip, and specify as just the folder/, another error persists.

Error executing process > 'bracken
Caused by:
Missing output file(s) *.bracken_report expected by process bracken (file_rep1)
Command executed:

bracken
-d kraken_metagenomics
-i file_rep1.kreport
-o file_rep1.bracken_report
-w file_rep1.new_bracken_report
-r 35
-l S
-t 10 \

Command exit status:
0

Command output:

Checking for Valid Options...
ERROR: kraken_metagenomics/database35mers.kmer_distrib does not exist
Run bracken-build to generate the kmer distribution file.

What krakendb commands are correct to properly run this module?

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