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?
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 ignoredError 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_reportexpected by processbracken (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:
What krakendb commands are correct to properly run this module?