[SOMA][BOT-3][INFRA] skeleton: project folder structure and all package manifests

soma/backend/Dockerfile

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+FROM python:3.11-slim
+
+# System deps
+RUN apt-get update && apt-get install -y \
+    gcc \
+    libpq-dev \
+    curl \
+    && rm -rf /var/lib/apt/lists/*
+
+WORKDIR /app
+
+# Install Python dependencies before copying app code
+# (layer cache: dependencies change less often than code)
+COPY requirements.txt .
+RUN pip install --no-cache-dir -r requirements.txt
+
+# Copy application code
+COPY . .
+
+# Create uploads directory
+RUN mkdir -p /app/uploads
+
+# Non-root user for security
+RUN addgroup --system appgroup && adduser --system --group appgroup
+RUN chown -R appgroup:appgroup /app
+USER appgroup
+
+EXPOSE 8000
+
+CMD ["uvicorn", "app.main:app", "--host", "0.0.0.0", "--port", "8000", "--workers", "1"]

soma/backend/alembic.ini

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+[alembic]
+script_location = alembic
+prepend_sys_path = .
+version_path_separator = os
+sqlalchemy.url = driver://user:pass@localhost/dbname
+
+[post_write_hooks]
+
+[loggers]
+keys = root,sqlalchemy,alembic
+
+[handlers]
+keys = console
+
+[formatters]
+keys = generic
+
+[logger_root]
+level = WARN
+handlers = console
+qualname =
+
+[logger_sqlalchemy]
+level = WARN
+handlers =
+qualname = sqlalchemy.engine
+
+[logger_alembic]
+level = INFO
+handlers =
+qualname = alembic
+
+[handler_console]
+class = StreamHandler
+args = (sys.stderr,)
+level = NOTSET
+formatter = generic
+
+[formatter_generic]
+format = %(levelname)-5.5s [%(name)s] %(message)s
+datefmt = %H:%M:%S

soma/backend/app/__init__.py

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+# SOMA Backend
+# Phase 0 completion signal — this file's existence indicates the skeleton is ready.
+# Bot 1 and Bot 2 may now begin parallel work.

soma/backend/requirements.txt

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+fastapi==0.115.0
+uvicorn[standard]==0.30.0
+sqlalchemy[asyncio]==2.0.35
+alembic==1.13.0
+asyncpg==0.29.0
+redis[hiredis]==5.0.0
+python-jose[cryptography]==3.3.0
+passlib[bcrypt]==1.7.4
+pyotp==2.9.0
+qrcode[pil]==7.4.2
+pdfplumber==0.11.0
+ollama==0.3.0
+google-generativeai==0.8.0
+groq==0.9.0
+httpx==0.27.0
+apscheduler==3.10.4
+boto3==1.34.0
+python-multipart==0.0.9
+pydantic-settings==2.4.0
+chromadb==0.5.0
+psycopg2-binary==2.9.9
+pytz==2024.1