Upload 3 files
Browse files- Dockerfile +38 -0
- app.py +104 -0
- requirements.txt +7 -0
Dockerfile
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FROM python:3.10-slim
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ENV DEBIAN_FRONTEND=noninteractive \
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PYTHONDONTWRITEBYTECODE=1 \
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PYTHONUNBUFFERED=1 \
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PIP_NO_CACHE_DIR=1 \
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PYSTOW_HOME=/app/cache/pystow \
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PYTHONIOENCODING=UTF-8 \
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PORT=7860
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RUN apt-get update && apt-get install -y --no-install-recommends \
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curl ca-certificates \
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libstdc++6 libgomp1 \
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libxrender1 libxext6 \
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tini \
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&& rm -rf /var/lib/apt/lists/*
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WORKDIR /app
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RUN useradd -m -u 1000 user
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COPY requirements.txt /app/requirements.txt
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RUN pip install --upgrade pip && \
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pip install -r requirements.txt
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# 创建缓存目录并赋予权限
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RUN mkdir -p /app/cache/pystow && chown -R user:user /app/cache
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COPY --chown=user:user . /app
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# 切换到非root用户执行后续操作
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USER user
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# 预下载STOUT模型权重,避免API首次请求超时
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RUN python -c "from STOUT import translate_forward; print('Pre-loading model...'); translate_forward('C'); print('Complete.')"
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EXPOSE $PORT
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ENTRYPOINT ["/usr/bin/tini", "--"]
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CMD ["sh", "-c", "uvicorn app:app --host 0.0.0.0 --port ${PORT:-7860}"]
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app.py
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# -*- coding: utf-8 -*-
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import os
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import gradio as gr
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from fastapi import FastAPI
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from fastapi.middleware.cors import CORSMiddleware
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from pydantic import BaseModel
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from typing import List
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from rdkit import Chem
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from rdkit.Chem import MolToSmiles
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from STOUT import translate_forward
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app = FastAPI(title="SMILES → IUPAC (STOUT-V2)")
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app.add_middleware(
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CORSMiddleware,
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allow_origins=["*"],
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allow_methods=["*"],
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allow_headers=["*"],
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)
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def canonicalize_smiles(s: str) -> str:
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mol = Chem.MolFromSmiles(s)
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if mol is None:
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raise ValueError(f"非法SMILES,RDKit无法解析:{s!r}")
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return MolToSmiles(mol, canonical=True)
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class SMILESItem(BaseModel):
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smiles: str
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canonicalize: bool = True
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class BatchRequest(BaseModel):
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inputs: List[SMILESItem]
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@app.get("/healthz")
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def healthz():
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return {"ok": True}
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@app.post("/api/smiles2iupac")
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def api_smiles2iupac(req: SMILESItem):
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try:
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s = (req.smiles or "").strip()
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if not s:
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return {"success": False, "error": "输入为空"}
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s_norm = canonicalize_smiles(s) if req.canonicalize else s
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name = translate_forward(s_norm)
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return {
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"success": True,
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"input": s,
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"smiles_processed": s_norm,
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"iupac": name,
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}
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except Exception as e:
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return {"success": False, "error": str(e)}
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@app.post("/api/smiles2iupac/batch")
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def api_smiles2iupac_batch(req: BatchRequest):
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out = []
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for item in req.inputs:
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try:
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s = (item.smiles or "").strip()
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if not s:
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out.append({"success": False, "error": "输入为空"})
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continue
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s_norm = canonicalize_smiles(s) if item.canonicalize else s
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name = translate_forward(s_norm)
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out.append({
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"success": True,
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"input": s,
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"smiles_processed": s_norm,
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"iupac": name,
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})
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except Exception as e:
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out.append({"success": False, "input": item.smiles, "error": str(e)})
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return out
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def gradio_fn(s: str, canonicalize: bool):
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if not (s or "").strip():
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return "", "输入为空"
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try:
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s_norm = canonicalize_smiles(s) if canonicalize else s
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name = translate_forward(s_norm)
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return name, f"输入SMILES: {s}\n规范化SMILES: {s_norm}"
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except Exception as e:
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return "", f"Error: {e}"
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demo = gr.Interface(
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fn=gradio_fn,
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inputs=[
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gr.Textbox(label="输入SMILES", placeholder="支持任意合法SMILES写法"),
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gr.Checkbox(label="自动RDKit规范化", value=True),
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],
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outputs=[
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gr.Textbox(label="IUPAC名称", interactive=True),
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gr.Textbox(label="调试信息"),
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],
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title="SMILES → IUPAC (STOUT-V2)",
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description="Model: Kohulan/STOUT-V2 | 基于TensorFlow的翻译模型",
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)
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app = gr.mount_gradio_app(app, demo, path="/")
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requirements.txt
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fastapi
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uvicorn
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gradio>=4.0
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pydantic
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rdkit-pypi
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STOUT-pypi
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tensorflow-cpu
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