From e55f4013bc0623d8f964072f765ac1c9dabfebe6 Mon Sep 17 00:00:00 2001
From: shixi-li <shixi.li@outlook.com>
Date: Sat, 25 Jul 2026 01:26:46 +0800
Subject: [PATCH] fix: preserve inverted gitignore traversal

---
 pyproject.toml          |  2 +-
 tests/test_file_walk.py | 41 +++++++++++++++++++++++++++++++++++++++++
 uv.lock                 |  8 ++++----
 3 files changed, 46 insertions(+), 5 deletions(-)
 create mode 100644 tests/test_file_walk.py

diff --git a/pyproject.toml b/pyproject.toml
index b8858bb..7e3bb6d 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -30,7 +30,7 @@ dependencies = [
     "einops>=0.8.2",
     "typer>=0.9.0",
     "msgspec>=0.19.0",
-    "pathspec>=0.12.1",
+    "pathspec>=0.12.1,<1.0",
     "pyyaml>=6.0",
     "questionary>=2.0.0",
 ]
diff --git a/tests/test_file_walk.py b/tests/test_file_walk.py
new file mode 100644
index 0000000..0859a07
--- /dev/null
+++ b/tests/test_file_walk.py
@@ -0,0 +1,41 @@
+"""Tests for shared source-file walking and gitignore filtering."""
+
+from pathlib import Path
+
+from cocoindex_code.file_walk import build_matcher, iter_included_files
+
+
+def test_inverted_gitignore_keeps_source_directories_traversable(tmp_path: Path) -> None:
+    """An ignore-all file can reopen directories and selected source extensions."""
+    (tmp_path / ".gitignore").write_text(
+        "\n".join(
+            [
+                "*",
+                "!*/",
+                "!*.cpp",
+                "!*.h",
+                "Content/",
+                "",
+            ]
+        )
+    )
+
+    files = {
+        "Root.cpp": "int root;\n",
+        "Engine/Source/kept.cpp": "int kept;\n",
+        "Engine/Source/kept.h": "#pragma once\n",
+        "Engine/Source/ignored.bin": "generated\n",
+        "Content/reignored.cpp": "int generated;\n",
+    }
+    for relative_path, contents in files.items():
+        path = tmp_path / relative_path
+        path.parent.mkdir(parents=True, exist_ok=True)
+        path.write_text(contents)
+
+    matcher = build_matcher(tmp_path, ["**/*.cpp", "**/*.h"], [])
+    included = {
+        relative_path.as_posix()
+        for _, relative_path in iter_included_files(tmp_path, tmp_path, matcher)
+    }
+
+    assert included == {"Root.cpp", "Engine/Source/kept.cpp", "Engine/Source/kept.h"}
diff --git a/uv.lock b/uv.lock
index f6946d8..c92f9e3 100644
--- a/uv.lock
+++ b/uv.lock
@@ -445,7 +445,7 @@ requires-dist = [
     { name = "msgspec", specifier = ">=0.19.0" },
     { name = "mypy", marker = "extra == 'dev'", specifier = ">=1.0.0" },
     { name = "numpy", specifier = ">=1.24.0" },
-    { name = "pathspec", specifier = ">=0.12.1" },
+    { name = "pathspec", specifier = ">=0.12.1,<1.0" },
     { name = "prek", marker = "extra == 'dev'", specifier = ">=0.1.0" },
     { name = "pydantic", specifier = ">=2.0.0" },
     { name = "pytest", marker = "extra == 'dev'", specifier = ">=7.0.0" },
@@ -1852,11 +1852,11 @@ wheels = [
 
 [[package]]
 name = "pathspec"
-version = "1.0.4"
+version = "0.12.1"
 source = { registry = "https://pypi.org/simple" }
-sdist = { url = "https://files.pythonhosted.org/packages/fa/36/e27608899f9b8d4dff0617b2d9ab17ca5608956ca44461ac14ac48b44015/pathspec-1.0.4.tar.gz", hash = "sha256:0210e2ae8a21a9137c0d470578cb0e595af87edaa6ebf12ff176f14a02e0e645", size = 131200, upload-time = "2026-01-27T03:59:46.938Z" }
+sdist = { url = "https://files.pythonhosted.org/packages/ca/bc/f35b8446f4531a7cb215605d100cd88b7ac6f44ab3fc94870c120ab3adbf/pathspec-0.12.1.tar.gz", hash = "sha256:a482d51503a1ab33b1c67a6c3813a26953dbdc71c31dacaef9a838c4e29f5712", size = 51043, upload-time = "2023-12-10T22:30:45Z" }
 wheels = [
-    { url = "https://files.pythonhosted.org/packages/ef/3c/2c197d226f9ea224a9ab8d197933f9da0ae0aac5b6e0f884e2b8d9c8e9f7/pathspec-1.0.4-py3-none-any.whl", hash = "sha256:fb6ae2fd4e7c921a165808a552060e722767cfa526f99ca5156ed2ce45a5c723", size = 55206, upload-time = "2026-01-27T03:59:45.137Z" },
+    { url = "https://files.pythonhosted.org/packages/cc/20/ff623b09d963f88bfde16306a54e12ee5ea43e9b597108672ff3a408aad6/pathspec-0.12.1-py3-none-any.whl", hash = "sha256:a0d503e138a4c123b27490a4f7beda6a01c6f288df0e4a8b79c7eb0dc7b4cc08", size = 31191, upload-time = "2023-12-10T22:30:43.14Z" },
 ]
 
 [[package]]