Dockerfile

# Use Python 3.10 slim image
FROM python:3.10-slim

# Set working directory
WORKDIR /app

# Install system dependencies
RUN apt-get update && apt-get install -y \
    ncbi-blast+ \
    git \
    build-essential \
    && rm -rf /var/lib/apt/lists/*

# Copy requirements
COPY requirements.txt .

# Install Python dependencies
RUN pip install --no-cache-dir -r requirements.txt

# =========================================================
# APPLICATION
# =========================================================

COPY app.py .

# =========================================================
# FRONTEND
# =========================================================

COPY static/ ./static/
COPY templates/ ./templates/

# =========================================================
# MACHINE LEARNING MODELS
# =========================================================

COPY label_encoder.pkl .
COPY best_model_LR.sav .

# =========================================================
# BLAST DATABASE
# =========================================================

COPY pathway_db.pdb .
COPY pathway_db.phr .
COPY pathway_db.pin .
COPY pathway_db.pot .
COPY pathway_db.psq .
COPY pathway_db.ptf .
COPY pathway_db.pto .

# =========================================================
# PATHWAY MAPPING
# =========================================================

COPY pathway_map.csv .

# =========================================================
# TEMPORARY DIRECTORIES
# =========================================================

RUN mkdir -p /app/data /app/temp /app/uploads

# =========================================================
# PORT
# =========================================================

EXPOSE 7860

# =========================================================
# HEALTH CHECK
# =========================================================

HEALTHCHECK --interval=30s --timeout=10s --start-period=30s --retries=3 \
    CMD python -c "import urllib.request; urllib.request.urlopen('http://localhost:7860').read()"

# =========================================================
# START
# =========================================================

CMD ["python", "app.py"]