Problem running test

[vicho33]

Hi everyone! I have problems running the test specifically with Kraken I think, this is report:

N E X T F L O W ~ version 22.10.2 Launching main.nf [disturbed_heisenberg] DSL1 - revision: 3ef505f614 WARN: Access to undefined parameter multiqc_config -- Initialise it to a default value eg. params.multiqc_config = some_value WARN: Access to undefined parameter reads_rt -- Initialise it to a default value eg. params.reads_rt = some_value

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|\ | | / / \ |__) |__ } { | \| | \__, \__/ | \ |___ \-.,--, .,._,' nf-core/rtnanopipeline v1.0dev

Run Name : test-run-32-noBLAST Reads : /Users/vicentearriagada/nanotar/NanoRTax/test_data/minimock.fastq Max Resources : 128 GB memory, 16 cpus, 10d time per job Container : docker - hecrp/nanortax:latest Output dir : ./results Launch dir : /Users/vicentearriagada/nanotar/NanoRTax Working dir : /Users/vicentearriagada/nanotar/NanoRTax/work Script dir : /Users/vicentearriagada/nanotar/NanoRTax User : vicentearriagada Config Profile : test,docker

WARN: Access to undefined parameter hostnames -- Initialise it to a default value eg. params.hostnames = some_value executor > local (4) executor > local (4) executor > local (4) [8f/c5f421] process > QC (1) [100%] 1 of 1 ✔ [- ] process > qc_reporting [ 0%] 0 of 1 [a9/dcf93b] process > read_binning_cntrf (1) [100%] 1 of 1, failed: 1 ✘ [- ] process > agg_centrifuge - [- ] process > cntrf_push - [- ] process > agg_cntrf_diversity - [ee/4cdfe6] process > read_binning_kraken (1) [100%] 1 of 1, failed: 1 ✘ [- ] process > agg_kraken - [- ] process > kraken_push - [- ] process > agg_kraken_diversity - [- ] process > read_binning_blast [ 0%] 0 of 1 [- ] process > agg_blast - [- ] process > blast_push - [- ] process > agg_blast_diversity - [6a/90f7e1] process > output_documentation [100%] 1 of 1 ✔ Execution cancelled -- Finishing pending tasks before exit -[nf-core/rtnanopipeline] Pipeline completed with errors- WARN: There's no process matching config selector: get_software_versions Error executing process > 'read_binning_kraken (1)'

Caused by: Process read_binning_kraken (1) terminated with an error exit status (2)

Command executed:

sed '/^@/s/. ./_/g' test_data_qced_reads.fastq > krkinput.fastq kraken2 --db /tmp/db/16S_RDP_k2db --use-names --threads 4 krkinput.fastq > krakenreport.txt echo "seq_id" > seq_ids.txt awk -F "\t" '{print $2}' krakenreport.txt >> seq_ids.txt
gawk -F "\t" 'match($0, /(taxid ([0-9]+))/, ary) {print ary[1]}' krakenreport.txt | taxonkit lineage > lineage.txt cat lineage.txt | taxonkit reformat | csvtk -H -t cut -f 1,3 | csvtk -H -t sep -f 2 -s ';' -R > seq_tax.txt cat lineage.txt | taxonkit reformat -P | csvtk -H -t cut -f 1,3 > seq_tax_otu.txt paste seq_ids.txt seq_tax.txt > kraken_report_annotated.txt paste seq_ids.txt seq_tax_otu.txt > kraken_report_annotated_otu.txt

Command exit status: 2

Command output: (empty)

Command error: WARNING: The requested image's platform (linux/amd64) does not match the detected host platform (linux/arm64/v8) and no specific platform was requested kraken2: database ("/tmp/db/16S_RDP_k2db") does not contain necessary file taxo.k2d

Work dir: /Users/vicentearriagada/nanotar/NanoRTax/work/ee/4cdfe6e558e047b71f91f85d3ecbf7

Tip: view the complete command output by changing to the process work dir and entering the command cat .command.out

please help!

Have a nice day