from ubuntu:latest


# Update apt-get packages
RUN apt-get update &&\
    apt-get -y upgrade


# Install package needed and update pip
RUN apt-get install -y \
        wget \
        python3 \
        python3-pip \
        git

RUN pip3 install --upgrade pip


# Install mmseqs2
WORKDIR /tmp
RUN apt-get install -y \
        cmake\
        git &&\
    wget https://mmseqs.com/latest/mmseqs-static_sse41.tar.gz &&\
    tar xf mmseqs-static_sse41.tar.gz &&\
    rm mmseqs-static_sse41.tar.gz &&\
    mv /tmp/mmseqs2/bin/mmseqs /usr/local/bin &&\
    # remove useless files
    rm -r /tmp/mmseqs2


# Install FastME
WORKDIR /tmp
RUN apt-get install -y automake  &&\
    git clone https://gite.lirmm.fr/atgc/FastME.git
WORKDIR /tmp/FastME
RUN ./configure &&\
    make &&\
    make install