team113sanger/t113-singularity:deago__1.0.0

$ singularity pull shub://team113sanger/t113-singularity:deago__1.0.0

Singularity Recipe

Bootstrap: shub
From: team113sanger/t113-singularity:r-3.6.0.base-1.0.0
IncludeCmd: no

%help
Help message

%labels
        Maintainer Victoria Offord, Wellcome Sanger Institute
        Version v1.0.0
        R_Version 3.6.0

%environment
        export LC_ALL=en_US.UTF-8
        export LANG=en_US.UTF-8

%post
        yum install -y perl-core perl-App-cpanminus
        rpm -Uvh http://repo.openfusion.net/centos7-x86_64/openfusion-release-0.7-1.of.el7.noarch.rpm
        yum install -y perl-Dist-Zilla
        
        yum -y install epel-release
        yum -y install haskell-platform
        yum -y install pandoc

        Rscript -e "install.packages('BiocManager', repos='https://www.stats.bris.ac.uk/R/', dependencies=TRUE, clean = TRUE)"
        Rscript -e "BiocManager::install(c('DESeq2', 'genefilter', 'GenomicRanges', 'graph', 'limma', 'S4Vectors', 'SummarizedExperiment', 'topGO'))"
        Rscript -e "library(devtools); install_github('vaofford/deago')"

        git clone https://github.com/sanger-pathogens/Bio-Deago.git
        cd Bio-Deago
        cpanm aliased File::pushd
        dzil authordeps --missing | cpanm --notest -f
        cpanm CPAN::Meta::Requirements
        dzil listdeps --missing | cpanm
        dzil test
        dzil install

Collection


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key value
id /containers/team113sanger-t113-singularity-deago__1.0.0
collection name team113sanger/t113-singularity
branch master
tag deago__1.0.0
commit 82940c59cb98386ca041c1da7f1628d830b9ceb2
version (container hash) ebe81407470f38b9afb1699f2833ec4b
build date 2019-08-22T16:37:35.420Z
size (MB) 3444
size (bytes) 1094705183
SIF Download URL (please use pull with shub://)
Datalad URL View on Datalad
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