dpsplant.def

Bootstrap: library
From: ubuntu:18.04

%environment
    export PATH="/usr/local/bin:$PATH"
%help 

This container launches DeepSignalPlant software used for the identification of modified nucleotides from nanopore sequencing data.

======================================================================================


	usage (help)	: singularity run dsplant.sif
	
	building container : singularity build dsplant.sif dsplant.def 


======================================================================================
%post
    # ================================
    # PREPARE the system
    # ================================
    export DEBIAN_FRONTEND=noninteractive
    apt-get update
    apt-get install -y software-properties-common
    apt-add-repository universe
    apt-get update
    export LC_ALL=C.UTF-8
    export LANG=C.UTF-8
    echo 'export LC_ALL=C.UTF-8' >> "$SINGULARITY_ENVIRONMENT"
    echo 'export LANG=C.UTF-8' >> "$SINGULARITY_ENVIRONMENT"

    apt-get install -y \
        wget \
        build-essential

    libboostVERSION="1.62.0"
    apt-get install -y \
        libidn11 \
        libidn11-dev \
        libgssapi-krb5-2 \
        libboost-atomic${libboostVERSION} \
        libboost-chrono${libboostVERSION}  \
        libboost-date-time${libboostVERSION} \
        libboost-filesystem${libboostVERSION} \
        libboost-program-options${libboostVERSION} \
        libboost-regex${libboostVERSION} \
        libboost-system${libboostVERSION} \
        libboost-log${libboostVERSION}
        
    # ================================
    # INSTALL python3.8
    # ================================

	apt-get -y install software-properties-common
	add-apt-repository ppa:deadsnakes/ppa
	apt-get -y install python3.8-distutils
	apt-get -y install python3.8
	ln -s /usr/bin/python3.8 /usr/bin/python
	
	
	
	#curl installation
	apt-get -y install curl
	
	#pip installation
	wget https://bootstrap.pypa.io/get-pip.py
	python3.8 get-pip.py
	
    # ================================
    # INSTALL DeepSignal-plant
    # ================================
	pip install deepsignal-plant