diff --git a/cognee/api/v1/cognify/code_graph_pipeline.py b/cognee/api/v1/cognify/code_graph_pipeline.py
index 66b8568fa..fb3612857 100644
--- a/cognee/api/v1/cognify/code_graph_pipeline.py
+++ b/cognee/api/v1/cognify/code_graph_pipeline.py
@@ -1,6 +1,7 @@
 import os
 import pathlib
 import asyncio
+from typing import Optional
 from cognee.shared.logging_utils import get_logger, setup_logging
 from cognee.modules.observability.get_observe import get_observe
 
@@ -28,7 +29,12 @@ logger = get_logger("code_graph_pipeline")
 
 
 @observe
-async def run_code_graph_pipeline(repo_path, include_docs=False, excluded_paths=None):
+async def run_code_graph_pipeline(
+    repo_path,
+    include_docs=False,
+    excluded_paths: Optional[list[str]] = None,
+    supported_languages: Optional[list[str]] = None,
+):
     import cognee
     from cognee.low_level import setup
 
@@ -40,8 +46,6 @@ async def run_code_graph_pipeline(repo_path, include_docs=False, excluded_paths=
     user = await get_default_user()
     detailed_extraction = True
 
-    # Multi-language support: allow passing supported_languages
-    supported_languages = None  # defer to task defaults
     tasks = [
         Task(
             get_repo_file_dependencies,
@@ -95,7 +99,7 @@ async def run_code_graph_pipeline(repo_path, include_docs=False, excluded_paths=
 if __name__ == "__main__":
 
     async def main():
-        async for run_status in run_code_graph_pipeline("/Users/igorilic/Desktop/cognee/examples"):
+        async for run_status in run_code_graph_pipeline("REPO_PATH"):
             print(f"{run_status.pipeline_run_id}: {run_status.status}")
 
         file_path = os.path.join(
diff --git a/cognee/modules/retrieval/code_retriever.py b/cognee/modules/retrieval/code_retriever.py
index 6e819d8a7..76b5e758c 100644
--- a/cognee/modules/retrieval/code_retriever.py
+++ b/cognee/modules/retrieval/code_retriever.py
@@ -94,7 +94,15 @@ class CodeRetriever(BaseRetriever):
                         {"id": res.id, "score": res.score, "payload": res.payload}
                     )
 
+            existing_collection = []
             for collection in self.classes_and_functions_collections:
+                if await vector_engine.has_collection(collection):
+                    existing_collection.append(collection)
+
+            if not existing_collection:
+                raise RuntimeError("No collection found for code retriever")
+
+            for collection in existing_collection:
                 logger.debug(f"Searching {collection} collection with general query")
                 search_results_code = await vector_engine.search(
                     collection, query, limit=self.top_k
diff --git a/cognee/tasks/repo_processor/get_repo_file_dependencies.py b/cognee/tasks/repo_processor/get_repo_file_dependencies.py
index 3ebf1fcb1..06cc3bddb 100644
--- a/cognee/tasks/repo_processor/get_repo_file_dependencies.py
+++ b/cognee/tasks/repo_processor/get_repo_file_dependencies.py
@@ -1,6 +1,7 @@
 import asyncio
 import math
 import os
+from pathlib import Path
 from typing import Set
 from typing import AsyncGenerator, Optional, List
 from uuid import NAMESPACE_OID, uuid5
@@ -78,15 +79,22 @@ async def get_source_code_files(
             if lang is None:
                 continue
             # Exclude tests, common build/venv directories and files provided in exclude_paths
-            excluded_dirs = EXCLUDED_DIRS | set(excluded_paths or [])
-            root_parts = set(os.path.normpath(root).split(os.sep))
+            excluded_dirs = EXCLUDED_DIRS
+            excluded_paths = {Path(p).resolve() for p in (excluded_paths or [])}  # full paths
+
+            root_path = Path(root).resolve()
+            root_parts = set(root_path.parts)  # same as before
             base_name, _ext = os.path.splitext(file)
             if (
                 base_name.startswith("test_")
-                or base_name.endswith("_test")  # catches Go's *_test.go and similar
+                or base_name.endswith("_test")
                 or ".test." in file
                 or ".spec." in file
-                or (excluded_dirs & root_parts)
+                or (excluded_dirs & root_parts)  # name match
+                or any(
+                    root_path.is_relative_to(p)  # full-path match
+                    for p in excluded_paths
+                )
             ):
                 continue
             file_path = os.path.abspath(os.path.join(root, file))
@@ -164,6 +172,7 @@ async def get_repo_file_dependencies(
         "go": [".go"],
         "rust": [".rs"],
         "cpp": [".cpp", ".c", ".h", ".hpp"],
+        "c": [".c", ".h"],
     }
     if supported_languages is not None:
         language_config = {