Nextflow Registry | nf-core/fastqdl@0.0.0-0c7146d

nf-core/fastqdl @ 0.0.0-0c7146d

Download FASTQ files from SRA or ENA repositories.

download ena fastq sra

Latest version: 0.0.0-6c4ed3a

Total downloads: 6

Source: nf-core/modules

Authors: @camlloyd

Maintainers: @camlloyd

Download FASTQ files from SRA or ENA repositories.

Add the following snippet to your workflow script to include this module.

include { FASTQDL } from 'nf-core/fastqdl'

MIT License

Process

`Name`	`FASTQDL`

Input 1 channel

#1 tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`accession` string	ENA/SRA accession to query

Output 4 channels

#1 fastq tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`*.fastq.gz` file	FASTQ files downloaded from ENA or SRA `*.fastq.gz`

#2 runinfo tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`*-run-info.tsv` file	Tab-delimited file containing metadata for each Run downloaded `*-run-info.tsv`

#3 runmergers tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`*-run-mergers.tsv` file	Tab-delimited file merge information from --group-by-experiment or --group-by-sample `*-run-mergers.tsv`

#4 versions_fastqdl tuple

`${task.process}` string	The name of the process
`fastq-dl` string	The name of the tool
`fastq-dl --version \|& sed "s/.* //"` eval	The expression to obtain the version of the tool

Tool	Description	Homepage
fastqdl	A tool to download FASTQs associated with Study, Experiment, or Run accessions.	https://github.com/rpetit3/fastq-dl

Version	0.0.0-0c7146d
Commit ID	6c4ed3a220310b905a1fc9d04f05be2e0837142b
Release Date	08 Apr 2026 18:59:37 (UTC)
Download URL	https://registry.nextflow.io/api/v1/modules/nf-core%2Ffastqdl/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/fastqdl/blobs/sha256:0e5849354d6f94c9fc5217627fd212234c349a9d06df34eccd248f02dfeb5705
Size	2.7 KB
Checksum	sha256:0e5849354d6f94c9fc5217627fd212234c349a9d06df34eccd248f02dfeb5705
Downloads	3

Version	Date	Status	Downloads	Size
0.0.0-6c4ed3a	23 Apr 2026 15:16:52 (UTC)		3	2.7 KB
0.0.0-0c7146d	08 Apr 2026 18:59:37 (UTC)		3	2.7 KB