Dockerfile

FROM python:3.9-slim-bullseye

# Install system dependencies
RUN apt-get update --fix-missing && \
    apt-get install -y --no-install-recommends \
    wget \
    bzip2 \
    curl \
    git \
    libgfortran5 \
    libxt6 \
    libgl1-mesa-dev && \
    apt-get clean && \
    rm -rf /var/lib/apt/lists/*

# Set up virtual environment
ENV VIRTUAL_ENV=/opt/venv
RUN python3 -m venv $VIRTUAL_ENV && \
    /opt/venv/bin/python3 -m pip install --upgrade pip
ENV PATH="$VIRTUAL_ENV/bin:$PATH"

# Install Python dependencies
RUN pip install numpy matplotlib scikit-image torch torchvision nibabel pydicom

# Create application directory
WORKDIR /app

# Copy the entire project structure
COPY ccta/ /app/ccta/
COPY docker/ /app/docker/
COPY models/ /app/models/
COPY run.py /app/
COPY __init__.py /app/

# Set the working directory for data (if needed for input/output)
WORKDIR /data

# Set the entry point to your main run.py file
ENTRYPOINT ["/opt/venv/bin/python3", "-u", "/app/run.py"]
CMD ["-h"]