feat: support multiple input formats for --docs argument

- Add support for multiple directories: --docs ./src ./tests ./config
- Add support for individual files: --docs ./file1.py ./file2.txt
- Add support for mixed files and directories: --docs ./README.md ./src/ ./config.json
- Add git ls-files integration: --docs $(git ls-files)
- Add git submodule detection and skip logic to avoid indexing third-party dependencies
- Add comprehensive error handling for path resolution issues
- Update MCP README with advanced usage examples including git integration
- Fix ruff linting issues with closure variable binding

Breaking changes: None - fully backward compatible with existing single directory usage

Examples:
  leann build my-repo --docs $(git ls-files) --embedding-mode sentence-transformers --embedding-model all-MiniLM-L6-v2 --backend hnsw
  leann build my-code --docs ./src ./tests ./docs --embedding-mode sentence-transformers --embedding-model all-MiniLM-L6-v2 --backend hnsw
  leann build my-configs --docs ./package.json ./tsconfig.json ./webpack.config.js --embedding-mode sentence-transformers --embedding-model all-MiniLM-L6-v2 --backend hnsw

packages/leann-backend-diskann/pyproject.toml

@@ -4,8 +4,8 @@ build-backend = "scikit_build_core.build"
 
 [project]
 name = "leann-backend-diskann"
-version = "0.2.8"
-dependencies = ["leann-core==0.2.8", "numpy", "protobuf>=3.19.0"]
+version = "0.2.7"
+dependencies = ["leann-core==0.2.7", "numpy", "protobuf>=3.19.0"]
 
 [tool.scikit-build]
 # Key: simplified CMake path

packages/leann-backend-hnsw/pyproject.toml

@@ -6,10 +6,10 @@ build-backend = "scikit_build_core.build"
 
 [project]
 name = "leann-backend-hnsw"
-version = "0.2.8"
+version = "0.2.7"
 description = "Custom-built HNSW (Faiss) backend for the Leann toolkit."
 dependencies = [
-    "leann-core==0.2.8",
+    "leann-core==0.2.7",
     "numpy",
     "pyzmq>=23.0.0",
     "msgpack>=1.0.0",

packages/leann-core/pyproject.toml

@@ -4,7 +4,7 @@ build-backend = "setuptools.build_meta"
 
 [project]
 name = "leann-core"
-version = "0.2.8"
+version = "0.2.7"
 description = "Core API and plugin system for LEANN"
 readme = "README.md"
 requires-python = ">=3.9"

packages/leann/pyproject.toml

@@ -4,7 +4,7 @@ build-backend = "setuptools.build_meta"
 
 [project]
 name = "leann"
-version = "0.2.8"
+version = "0.2.7"
 description = "LEANN - The smallest vector index in the world. RAG Everything with LEANN!"
 readme = "README.md"
 requires-python = ">=3.9"