update

pyproject.toml

@@ -1,3 +1,4 @@
+
 [project]
 name = "mole-embedding-atlas"
 version = "0.1.0"
@@ -12,4 +13,31 @@ dependencies = [
     "rdkit",
     "pandas",
     "selfies==2.1.1",
+    "fastapi>=0.111",
+    "uvicorn[standard]>=0.29",
+    "fastmcp>=2.11",
+    "docker>=7.1",
+    "httpx>=0.27",
+    "pydantic-settings>=2.2",
 ]
+
+[project.scripts]
+embedding-backend = "embedding_backend.main:main"
+embedding-backend-api = "embedding_backend.main:run_api"
+embedding-backend-mcp = "embedding_backend.main:run_mcp_stdio"
+
+[tool.uv.pip]
+index-url = "https://mirrors.tuna.tsinghua.edu.cn/pypi/web/simple"
+
+[tool.setuptools]
+package-dir = {"" = "src"}
+
+[tool.setuptools.packages.find]
+where = ["src"]
+
+[build-system]
+requires = ["setuptools>=68", "wheel"]
+build-backend = "setuptools.build_meta"
+
+[tool.uv]
+package = true