yuifu / download-sra

A simple download tool to download .sra file from Sequence Read Archive

Download SRA

A simple download tool to download .sra file from a repository of INSDC members.

Why not prefetch?

Because we are living far away from Maryland. download-sra can choose a repository to be used.

Prerequisites

• wget
• curl
• jq

Usage

$ download-sra SRR000001
$ download-sra SRR000001 NCBI
$ download-sra SRR000001 EBI
$ download-sra SRR000001 DDBJ

Docker Container

Available on Quay.io

$ docker run --rm -it -v $(pwd):/work -w /work quay.io/inutano/download-sra:0.1.2 download-sra "DRR000001" "NCBI"
$ docker run --rm -it -v $(pwd):/work -w /work quay.io/inutano/download-sra:0.1.2 download-sra "DRR000001" "EBI"
$ docker run --rm -it -v $(pwd):/work -w /work quay.io/inutano/download-sra:0.1.2 download-sra "DRR000001" "DDBJ"