Dockerfile

FROM python:3.11-slim as build

ENV PIP_DEFAULT_TIMEOUT=100 \
    # Allow statements and log messages to immediately appear
    PYTHONUNBUFFERED=1 \
    # disable a pip version check to reduce run-time & log-spam
    PIP_DISABLE_PIP_VERSION_CHECK=1 \
    # cache is useless in docker image, so disable to reduce image size
    PIP_NO_CACHE_DIR=1

### Final stage
FROM python:3.11-slim as final

COPY requirements.txt .

RUN set -ex \
    # Upgrade the package index and install security upgrades
    && apt-get update \
    && apt-get upgrade -y \
    # Install dependencies
    && apt-get install procps -y \
    && apt-get install wget -y \
    && apt-get install unzip -y \
    && pip install -r requirements.txt \
    # Clean up
    && apt-get autoremove -y \
    && apt-get clean -y \
    && rm -rf /var/lib/apt/lists/*

RUN wget http://downloads.openmicroscopy.org/latest/bio-formats7.0/artifacts/bftools.zip \
	&& unzip bftools.zip -x '*.bat' -d /usr/local/bin/