fe353fc0bc
- 移除 Motia Streams 实时通信，改用 3 秒轮询 - 简化前端代码，移除冗余组件 - 简化后端架构，准备 FastAPI 重构 - 更新 pixi.toml 环境配置 - 保留 bttoxin_digger_v5_repro 作为参考文档 Co-Authored-By: Claude <noreply@anthropic.com>
82 lines
2.1 KiB
TOML
82 lines
2.1 KiB
TOML
[workspace]
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name = "bttoxin-pipeline"
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channels = ["conda-forge", "bioconda", "bioconda/label/cf201901"]
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platforms = ["linux-64"]
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version = "0.1.0"
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channel-priority = "disabled"
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# =========================
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# digger 环境：bioconda 依赖
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# =========================
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[feature.digger.dependencies]
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bttoxin_digger = "==1.0.10"
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perl = "==5.26.2"
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perl-file-tee = "==0.07"
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perl-list-util = "==1.38"
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blast = "==2.16.0"
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# =========================
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# pipeline 环境：Python 分析依赖
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# =========================
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[feature.pipeline.dependencies]
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python = ">=3.9"
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pandas = ">=2.0.0"
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matplotlib = ">=3.7.0"
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seaborn = ">=0.12.2"
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# =========================
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# frontend 环境：Node.js 前端依赖
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# =========================
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[feature.frontend.dependencies]
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nodejs = ">=20"
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pnpm = ">=10"
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# =========================
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# webbackend 环境：FastAPI 后端依赖
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# =========================
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[feature.webbackend.dependencies]
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python = ">=3.11"
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fastapi = "*"
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uvicorn = "*"
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pydantic = "*"
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pydantic-settings = "*"
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python-dotenv = "*"
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httpx = "*"
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pytest = "*"
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# =========================
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# 环境定义
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# =========================
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[environments]
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digger = ["digger"]
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pipeline = ["pipeline"]
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frontend = ["frontend"]
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webbackend = ["webbackend"]
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# =========================
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# pipeline tasks
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# =========================
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[feature.pipeline.tasks]
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pipeline = "python scripts/run_single_fna_pipeline.py"
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digger-only = "python scripts/run_digger_stage.py"
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shotter = "python scripts/bttoxin_shoter.py"
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plot = "python scripts/plot_shotter.py"
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# =========================
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# frontend tasks
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# =========================
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[feature.frontend.tasks]
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fe-install = { cmd = "pnpm install", cwd = "frontend" }
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fe-dev = { cmd = "pnpm dev --host", cwd = "frontend" }
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fe-build = { cmd = "pnpm build", cwd = "frontend" }
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fe-test = { cmd = "pnpm test:unit --run", cwd = "frontend" }
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fe-lint = { cmd = "pnpm lint", cwd = "frontend" }
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# =========================
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# webbackend tasks
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# =========================
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[feature.webbackend.tasks]
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api-dev = "uvicorn web.backend.main:app --reload --host 0.0.0.0 --port 8000"
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api-test = "pytest web/backend/ -v"
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web-start = "bash scripts/start_web.sh"
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