TomHarrop/singularity-containers:sra_2.9.2

$ singularity pull shub://TomHarrop/singularity-containers:sra_2.9.2

Singularity Recipe

Bootstrap: docker
From: ubuntu:18.04

%help

    NCBI SRA 2.9.2
    https://github.com/ncbi/sra-tools

%labels

    MAINTAINER "Tom Harrop (twharrop@gmail.com)"
    VERSION "SRA 2.9.2"

%post

    # install dependencies
    apt-get update
    apt-get install -y \
        wget

    # download SRA
    wget -O "sra.tar.gz" \
        --no-check-certificate \
        https://ftp-trace.ncbi.nlm.nih.gov/sra/sdk/2.9.2/sratoolkit.2.9.2-ubuntu64.tar.gz
    mkdir sra
    tar -zxf sra.tar.gz \
        -C sra \
        --strip-components 1
    rm sra.tar.gz

%environment

    export PATH="${PATH}:/sra/bin"

%runscript

    exec /sra/bin/fasterq-dump "$@"

Collection


View on Datalad

Metrics

key value
id /containers/TomHarrop-singularity-containers-sra_2.9.2
collection name TomHarrop/singularity-containers
branch master
tag sra_2.9.2
commit b6d12582e87c27ef90a1f715b3bee2056b32fa60
version (container hash) b71cbf3616415afeaa92776656633485
build date 2019-10-01T22:41:31.754Z
size (MB) 317
size (bytes) 144699423
SIF Download URL (please use pull with shub://)
Datalad URL View on Datalad
Singularity Recipe Singularity Recipe on Datalad
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