FETCH_GENOME

This process fetches the genome file for a given GCA accession. If a genome file is provided as part of the metadata, it uses that file instead of downloading it. The fetched genome file is saved with the name “genome.fna”.

Process Details

Property	Value
Process	`FETCH_GENOME`
Label	`'python'`
Tag	`${meta.gca}:genome`
storeDir	`"${params.cacheDir}/${meta.gca}/ncbi_dataset"`
maxForks	`10`

Inputs

Nextflow interface

val meta

Outputs

Nextflow interface

tuple val(meta), path("*.fa"), emit: genome_file_output
path "versions.yml", emit: versions_file

Implementation Summary

Copy output files
Generate software version report

Source

/home/runner/work/ensembl-genes-nf/ensembl-genes-nf/pipelines/repeat/modules/fetch_genome.nf