nedrexapi_v2d/Dockerfile at dev · repotrial/nedrexapi_v2d · GitHub

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FROM ubuntu:noble as nedrexapi_base
ENV PYTHONDONTWRITEBYTECODE 1
ENV PYTHONUNBUFFERED 1
ENV LC_ALL=C.UTF-8
ENV LANG=C.UTF-8
ENV TZ=Europe/Berlin
RUN ln -snf /usr/share/zoneinfo/$TZ /etc/localtime && echo $TZ > /etc/timezone

RUN apt-get update && apt-get dist-upgrade -y && apt-get install -y supervisor libgtk-3-dev wget apt-utils
RUN apt-get update && apt-get install -y apt-transport-https ca-certificates curl gnupg lsb-release software-properties-common build-essential
RUN apt-get autoclean -y && apt-get autoremove -y && apt-get clean -y

RUN curl -fsSL https://download.docker.com/linux/ubuntu/gpg | apt-key add -

RUN add-apt-repository \
   "deb [arch=amd64] https://download.docker.com/linux/ubuntu \
   lunar \
   stable"

RUN apt-get update && apt-get install -y docker-ce docker-ce-cli containerd.io zip unzip openjdk-11-jre-headless

ENV CONDA_DIR /opt/conda
RUN wget "https://github.com/conda-forge/miniforge/releases/latest/download/Miniforge3-$(uname)-$(uname -m).sh"
RUN bash Miniforge3-$(uname)-$(uname -m).sh -b -p "${CONDA_DIR}"
ENV PATH=$CONDA_DIR/bin:$PATH
RUN chmod +x "${CONDA_DIR}/etc/profile.d/conda.sh"
RUN "${CONDA_DIR}/etc/profile.d/conda.sh"
RUN chmod +x "${CONDA_DIR}/etc/profile.d/mamba.sh"
RUN "${CONDA_DIR}/etc/profile.d/mamba.sh"

RUN conda init bash

RUN mamba update -n base -c defaults mamba conda
RUN mamba install -y python=3.11
RUN mamba update -y --all
RUN pip install pip==23
RUN pip install --upgrade pip requests cryptography pyopenssl
RUN chmod 777 -R /opt/conda

FROM nedrexapi_base
RUN apt-get update && apt-get upgrade -y && apt-get autoclean -y && apt-get autoremove -y && apt-get clean -y

RUN mamba install -c conda-forge graph-tool==2.97 poetry

WORKDIR /app/nedrexapi

RUN mamba create -n bicon python=3.8
RUN mamba run -n bicon pip install git+https://github.com/daisybio/BiCoN.git
RUN mamba run -n bicon pip install click
RUN mamba run -n bicon pip install networkx==2.8.8

COPY pyproject.toml poetry.lock ./
RUN poetry config virtualenvs.create false
RUN poetry install --without dev --no-root

COPY . ./