c75c85c53b
- Backend: Refactored tasks.py to directly invoke run_single_fna_pipeline.py for consistency. - Backend: Changed output format to ZIP and added auto-cleanup of intermediate files. - Backend: Fixed language parameter passing in API and tasks. - Frontend: Removed CRISPR Fusion UI elements from Submit and Monitor views. - Frontend: Implemented simulated progress bar for better UX. - Frontend: Restored One-click load button and added result file structure documentation. - Docker: Fixed critical Restarting loop by removing incorrect image directive in docker-compose.yml. - Docker: Optimized Dockerfile to correct .pixi environment path issues and prevent accidental deletion of frontend assets.
77 lines
2.3 KiB
Docker
77 lines
2.3 KiB
Docker
# BtToxin Pipeline - Production Dockerfile
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# Optimized for Traefik deployment with unified context
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# ===========================
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# Stage 1: Builder (Environment & Code)
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# ===========================
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FROM ghcr.io/prefix-dev/pixi:latest AS builder
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WORKDIR /app
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# Copy entire project context (filtered by .dockerignore)
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COPY . .
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# Install dependencies
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RUN pixi install
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# Setup external database for BtToxin_Digger
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# Using the copy from tools directory included in COPY . .
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RUN DIGGER_PREFIX=$(pixi info --json | grep -A 5 '"name": "digger"' | grep '"prefix":' | cut -d '"' -f 4) && \
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mkdir -p $DIGGER_PREFIX/bin/BTTCMP_db/bt_toxin && \
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rm -rf $DIGGER_PREFIX/bin/BTTCMP_db/bt_toxin/* && \
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cp -r /app/tools/bttoxin_digger/external_dbs/bt_toxin/* $DIGGER_PREFIX/bin/BTTCMP_db/bt_toxin/ && \
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echo "Overwrote internal database with version from external_dbs"
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# Create shell hook for webbackend environment
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RUN pixi shell-hook -e webbackend > /shell-hook.sh && \
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echo 'exec "$@"' >> /shell-hook.sh
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# ===========================
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# Stage 2: Frontend Builder
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# ===========================
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FROM docker.m.daocloud.io/library/node:20 AS frontend-builder
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WORKDIR /app
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ENV CI=true
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# Copy only frontend source
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COPY frontend/ .
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RUN npm install -g pnpm && \
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pnpm install --no-frozen-lockfile && \
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pnpm build
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# ===========================
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# Stage 3: Production (Runtime)
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# ===========================
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FROM docker.m.daocloud.io/library/ubuntu:20.04 AS production
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WORKDIR /app
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# Install runtime dependencies
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RUN apt-get update && apt-get install -y --no-install-recommends \
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curl \
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&& rm -rf /var/lib/apt/lists/*
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# Copy pixi executable
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COPY --from=builder /usr/local/bin/pixi /usr/local/bin/pixi
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RUN chmod +x /usr/local/bin/pixi
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# Copy entire prepared application directory (Code + Environment + Data)
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COPY --from=builder /app /app
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# Copy shell hook
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COPY --from=builder /shell-hook.sh /shell-hook.sh
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# Copy built frontend assets
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COPY --from=frontend-builder /app/dist /app/frontend/dist
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# Set permissions and cleanup
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RUN chmod -R 755 /app/frontend/dist && \
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mkdir -p /app/jobs && chmod 777 /app/jobs
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EXPOSE 8000
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HEALTHCHECK --interval=30s --timeout=10s --start-period=5s --retries=3 \
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CMD curl -f http://localhost:8000/health || exit 1
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ENTRYPOINT ["/bin/bash", "/shell-hook.sh"]
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CMD ["uvicorn", "backend.app.main_spa:app", "--host", "0.0.0.0", "--port", "8000"]
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