Unable to obtain DAG file.

[petemeng]

Description of the bug

nextflow run metatdenovo-1.0.0/main.nf --input samplesheet.csv --outfir result2 -profile docker -with-dag dag.html --skip_eukulele true

-[nf-core/metatdenovo] Pipeline completed successfully-
Completed at: 20-Feb-2024 18:50:32
Duration    : 1h 20m 57s
CPU hours   : 5.3
Succeeded   : 49

The command was run successfully, but no DAG file was obtained.

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[erikrikarddaniel]

The -with-dag parameter is a Nextflow parameter so should work for any pipeline. There is no code in this pipeline to deal with this.

I ran the metatdenovo test case with the parameter and it produced a diagram. Not very readable perhaps, but at least it worked.

Command: nextflow run nf-core/metatdenovo -r 1.0.0 -profile docker,test -with-dag dag.html

I note that you have misspelled --outdir in your example above. Moreover, you know that you don't need to clone or download the pipeline code? This is done automatically by Nextflow if you call it following my example above.

[petemeng]

The nextflow 23.10 version can generate dag files normally, but the nextflow 23.04 version can't generate.

[erikrikarddaniel]

OK, then I close this issue as it seems to be a Nextflow issue.