nf-core/sratools/prefetch @ 0.0.0-0c7146d
Summary
Download sequencing data from the NCBI Sequence Read Archive (SRA).
Get started
Add the following snippet to your workflow script to include this module.
include { SRATOOLS_PREFETCH } from 'nf-core/sratools/prefetch'
License
MIT License
Process
Name
|
SRATOOLS_PREFETCH |
|---|
Input
3 channels
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
id
string
|
A string denoting an SRA id. |
ncbi_settings
file
|
An NCBI user settings file. *.mkfg
|
|---|
certificate
file
|
Path to a JWT cart file used to access protected dbGAP data on SRA using the sra-toolkit *.cart
|
|---|
Output
3 channels
#1
sra
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
${id}
directory
|
Directory containing SRA data files */*.sra
|
#2
versions_curl
tuple
${task.process}
string
|
The name of the process |
|---|---|
curl
string
|
The name of the tool |
curl --version | sed '1!d;s/^curl //; s/ .*//'
eval
|
The expression to obtain the version of the tool |
#3
versions_sratools
tuple
${task.process}
string
|
The name of the process |
|---|---|
sratools
string
|
The name of the tool |
prefetch --version 2>&1 | grep -Eo '[0-9.]+'
eval
|
The expression to obtain the version of the tool |
| Tool | Description | Homepage |
|---|---|---|
| sratools | SRA Toolkit and SDK from NCBI | https://github.com/ncbi/sra-tools |
| Version | 0.0.0-0c7146d |
|---|---|
| Commit ID | 135d883a43b1a2324b4112cd270cf22e20835533 |
| Release Date | 08 Apr 2026 19:16:17 (UTC) |
| Download URL | https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fsratools%2Fprefetch/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/sratools/prefetch/blobs/sha256:f764955f7e8d9843ea58dc62fac35d2aaabf6818a737ac406fd828634339e156 |
| Size | 3.3 KB |
| Checksum | sha256:f764955f7e8d9843ea58dc62fac35d2aaabf6818a737ac406fd828634339e156 |
| Downloads | 1 |
| Version | Date | Status | Downloads | Size | Diff |
|---|---|---|---|---|---|
| 0.0.0-0c7146d | 08 Apr 2026 19:16:17 (UTC) | 1 | 3.3 KB | - |