READemption installation script

reademption_install.sh

main(){
    upgrade_and_install_packages
    install_segemehl
    install_reademption
}

upgrade_and_install_packages(){
    sudo apt-get update
    sudo apt-get upgrade --assume-yes
    sudo apt-get install --assume-yes \
        htop make gcc-4.7-base build-essential \
        zlib1g-dev libncurses5-dev samtools bedtools \
        emacs msmtp python3-dev python3-setuptools \
        python3-pip cython3 python3-matplotlib cython3 \
        zlib1g-dev  make libncurses5-dev r-base \
        libxml2-dev tmux mosh
}

install_segemehl(){
    wget http://www.bioinf.uni-leipzig.de/Software/segemehl/segemehl_0_1_9.tar.gz
    tar xfz segemehl_0_1_9.tar.gz
    cd segemehl_0_1_9/segemehl/ && make && cd ../..
    sudo cp segemehl_0_1_9/segemehl/segemehl.x segemehl_0_1_9/segemehl/lack.x /usr/bin/
    rm -rf segemehl_0_1_9* segemehl_0_1_9*
}

install_reademption(){
    sudo pip3 install biopython
    sudo pip3 install pysam
    sudo pip3 install READemption
}