Description

Download sequencing data from the NCBI Sequence Read Archive (SRA).

Input

Name (Type)
Description
Pattern

meta (map)

Groovy Map containing sample information e.g. [ id:‘test’, single_end

]

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

Name (Type)
Description
Pattern

meta (map)

Groovy Map containing sample information e.g. [ id:‘test’, single_end

]

sra (directory)

Directory containing the ETL data for the given SRA id.

*/*.sra

versions (file)

File containing software versions

versions.yml