Singularity.genomicranges-1480

BootStrap: docker
From: ubuntu:bionic

%help

    This singularity installs R v 4.1.1 and required packages

%post
    # ~~~~~~ General setup and folder creation ~~~~~~ #
    
    apt-get update && apt-get install -y wget build-essential libxml2
    
    export LC_ALL=C
    export LC_CTYPE=C 
    export LC_COLLATE=C 
    export LC_TIME=C
    export LC_MESSAGES=C
    export LC_MONETARY=C
    export LC_PAPER=C 
    export LC_MEASUREMENT=C
    
    # ~~~~~ MINICONDA ~~~~~ #
    wget https://repo.continuum.io/miniconda/Miniconda3-4.7.12.1-Linux-x86_64.sh && \
    bash Miniconda3-4.7.12.1-Linux-x86_64.sh -b -p /conda && \
    rm -f Miniconda3-4.7.12.1-Linux-x86_64.sh
    export PATH="/conda/bin:${PATH}"
    
    # ~~~~~ R v 4.1.1 ~~~~~ #
    conda install -c conda-forge r-base=4.1.1
    
    # ~~~~~ R packages ~~~~~ #
    R --slave -e 'install.packages("BiocManager", repos="https://cloud.r-project.org/")'
    R --slave -e 'BiocManager::install("GenomicRanges")'
    
%environment
    export PATH="${PATH}:/conda/bin"
    export LC_ALL=C
    export LC_CTYPE=C 
    export LC_COLLATE=C 
    export LC_TIME=C
    export LC_MESSAGES=C
    export LC_MONETARY=C
    export LC_PAPER=C 
    export LC_MEASUREMENT=C

%labels
    Author Nicolas Descostes
    Version v0.0.1