TomHarrop/singularity-containers:bioconductor_3.7

$ singularity pull shub://TomHarrop/singularity-containers:bioconductor_3.7

Singularity Recipe

Bootstrap: docker
From: bioconductor/release_core2:R3.5.1_Bioc3.7

%help

    R 3.5.1 with Bioconductor 3.7, DESeq2_1.20.0 and Mfuzz_2.40.0
    
%labels

    MAINTAINER "Tom Harrop (twharrop@gmail.com)"
    VERSION "Bioconductor 3.7"

%post

    # install depenedencies
    apt-get update
    apt-get install -y \
        libbz2-dev \
        liblzma-dev \
        libpcre++-dev \
        tk-dev \
        tcl-dev

    # install packages from bioconductor
    Rscript -e "options(Ncpus=8); \
        BiocInstaller::biocLite(c( \
            'adegenet', \
            'DESeq2', \
            'Mfuzz', \
            'pheatmap', \
            'phyloseq', \
            'SNPRelate', \
            'systemPipeR', \
            'valr', \
            'VariantAnnotation' \
            ), \
        type='source', ask=FALSE)"

%runscript

    exec /usr/local/bin/R "$@"

Collection


View on Datalad

Metrics

key value
id /containers/TomHarrop-singularity-containers-bioconductor_3.7
collection name TomHarrop/singularity-containers
branch master
tag bioconductor_3.7
commit a78f80e501dc9a2fb8c5bf0a0a01328964f68472
version (container hash) dc548d01d69b512cd9da6b331263c9d3
build date 2019-10-09T22:28:12.838Z
size (MB) 2358
size (bytes) 852619295
SIF Download URL (please use pull with shub://)
Datalad URL View on Datalad
Singularity Recipe Singularity Recipe on Datalad
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