BootStrap: docker
From: ubuntu:bionic

%help

	This singularity installs picard tools v 2.22.1

%post
    # ~~~~~~ General setup and folder creation ~~~~~~ #
    
    apt-get update && apt-get install -y wget libreadline-dev
        
    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-latest-Linux-x86_64.sh && \
    bash Miniconda3-latest-Linux-x86_64.sh -b -p /conda && \
    rm -f Miniconda3-latest-Linux-x86_64.sh
    export PATH="/conda/bin:${PATH}"
    
    # ~~~~ R v 4.1.2 ~~~~~~ #
    conda install -c conda-forge r-base=4.1.2
    
    # ~~~~~ PICARD TOOLS ~~~~~ #
	conda install -y -c bioconda picard=2.22.1
	
	
%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