BEFH/docker_sra-tools

sra-tools docker container with bash

This is a repo that adds bash to ncbi/sra-tools.

The original repository can be found at https://github.com/ncbi/sra-tools

Installation

To install the container, run the following using docker:

docker pull befh/sra-tools

or the following with singularity:

singularity pull --name sra-tools.sif docker://befh/sra-tools:latest

To use with Snakemake, you do not need to install. Just put the following in the Snakefile:

container: 'docker://befh/sra-tools:latest'

Then run with snakemake --use-singularity see https://snakemake.readthedocs.io/en/stable/snakefiles/deployment.html for more info.

Usage

To run with docker, docker run sra-tools [ARGS].

To run with singularity, singularity run sra-tools.sif [ARGS].