fix: hotfix 0.1.38 (topoteretes#765)

<!-- .github/pull_request_template.md -->

## Description
- db_engine was not dynamically gathered, with this a change in system
directory will be handled correctly
- Added top_k to all search types
- Reduced delete test threshold 
- Updated MCP version and info

## DCO Affirmation
I affirm that all code in every commit of this pull request conforms to
the terms of the Topoteretes Developer Certificate of Origin.

---------

Co-authored-by: Boris <boris@topoteretes.com>

cognee-mcp/pyproject.toml

@@ -1,19 +1,19 @@
 [project]
 name = "cognee-mcp"
-version = "0.2.2"
+version = "0.2.3"
 description = "A MCP server project"
 readme = "README.md"
 requires-python = ">=3.10"
 
 dependencies = [
-    "cognee[postgres,codegraph,gemini,huggingface]==0.1.37",
+    "cognee[postgres,codegraph,gemini,huggingface]==0.1.38",
     "mcp==1.5.0",
     "uv>=0.6.3",
 ]
 
 [[project.authors]]
-name = "Rita Aleksziev"
-email = "rita@topoteretes.com"
+name = "Boris Arzentar"
+email = "boris@topoteretes.com"
 
 [build-system]
 requires = [ "hatchling", ]

cognee/infrastructure/databases/graph/graph_db_interface.py

@@ -21,10 +21,10 @@
 
 def record_graph_changes(func):
     """Decorator to record graph changes in the relationship database."""
-    db_engine = get_relational_engine()
 
     @wraps(func)
     async def wrapper(self, *args, **kwargs):
+        db_engine = get_relational_engine()
         frame = inspect.currentframe()
         while frame:
             if frame.f_back and frame.f_back.f_code.co_name != "wrapper":

cognee/modules/retrieval/code_retriever.py

@@ -19,9 +19,9 @@ class CodeQueryInfo(BaseModel):
         filenames: List[str] = []
         sourcecode: str
 
-    def __init__(self, limit: int = 3):
+    def __init__(self, top_k: int = 3):
         """Initialize retriever with search parameters."""
-        self.limit = limit
+        self.top_k = top_k
         self.file_name_collections = ["CodeFile_name"]
         self.classes_and_functions_collections = [
             "ClassDefinition_source_code",
@@ -60,7 +60,7 @@ async def get_context(self, query: str) -> Any:
         if not files_and_codeparts.filenames or not files_and_codeparts.sourcecode:
             for collection in self.file_name_collections:
                 search_results_file = await vector_engine.search(
-                    collection, query, limit=self.limit
+                    collection, query, limit=self.top_k
                 )
                 for res in search_results_file:
                     similar_filenames.append(
@@ -69,7 +69,7 @@ async def get_context(self, query: str) -> Any:
 
             for collection in self.classes_and_functions_collections:
                 search_results_code = await vector_engine.search(
-                    collection, query, limit=self.limit
+                    collection, query, limit=self.top_k
                 )
                 for res in search_results_code:
                     similar_codepieces.append(
@@ -79,7 +79,7 @@ async def get_context(self, query: str) -> Any:
             for collection in self.file_name_collections:
                 for file_from_query in files_and_codeparts.filenames:
                     search_results_file = await vector_engine.search(
-                        collection, file_from_query, limit=self.limit
+                        collection, file_from_query, limit=self.top_k
                     )
                     for res in search_results_file:
                         similar_filenames.append(
@@ -88,7 +88,7 @@ async def get_context(self, query: str) -> Any:
 
             for collection in self.classes_and_functions_collections:
                 search_results_code = await vector_engine.search(
-                    collection, files_and_codeparts.sourcecode, limit=self.limit
+                    collection, files_and_codeparts.sourcecode, limit=self.top_k
                 )
                 for res in search_results_code:
                     similar_codepieces.append(

cognee/modules/retrieval/summaries_retriever.py

@@ -9,17 +9,17 @@
 class SummariesRetriever(BaseRetriever):
     """Retriever for handling summary-based searches."""
 
-    def __init__(self, limit: int = 5):
+    def __init__(self, top_k: int = 5):
         """Initialize retriever with search parameters."""
-        self.limit = limit
+        self.top_k = top_k
 
     async def get_context(self, query: str) -> Any:
         """Retrieves summary context based on the query."""
         vector_engine = get_vector_engine()
 
         try:
             summaries_results = await vector_engine.search(
-                "TextSummary_text", query, limit=self.limit
+                "TextSummary_text", query, limit=self.top_k
             )
         except CollectionNotFoundError as error:
             raise NoDataError("No data found in the system, please add data first.") from error

cognee/modules/search/methods/search.py

@@ -59,9 +59,9 @@ async def specific_search(
     top_k: int = 10,
 ) -> list:
     search_tasks: dict[SearchType, Callable] = {
-        SearchType.SUMMARIES: SummariesRetriever().get_completion,
+        SearchType.SUMMARIES: SummariesRetriever(top_k=top_k).get_completion,
         SearchType.INSIGHTS: InsightsRetriever(top_k=top_k).get_completion,
-        SearchType.CHUNKS: ChunksRetriever().get_completion,
+        SearchType.CHUNKS: ChunksRetriever(top_k=top_k).get_completion,
         SearchType.RAG_COMPLETION: CompletionRetriever(
             system_prompt_path=system_prompt_path,
             top_k=top_k,
@@ -71,9 +71,9 @@ async def specific_search(
             top_k=top_k,
         ).get_completion,
         SearchType.GRAPH_SUMMARY_COMPLETION: GraphSummaryCompletionRetriever(
-            system_prompt_path=system_prompt_path,
+            system_prompt_path=system_prompt_path, top_k=top_k
         ).get_completion,
-        SearchType.CODE: CodeRetriever().get_completion,
+        SearchType.CODE: CodeRetriever(top_k=top_k).get_completion,
         SearchType.CYPHER: CypherSearchRetriever().get_completion,
         SearchType.NATURAL_LANGUAGE: NaturalLanguageRetriever().get_completion,
     }

cognee/tests/test_deletion.py

@@ -57,7 +57,7 @@ async def main():
 
     graph_engine = await get_graph_engine()
     nodes, edges = await graph_engine.get_graph_data()
-    assert len(nodes) > 15 and len(edges) > 15, "Graph database is not loaded."
+    assert len(nodes) > 10 and len(edges) > 10, "Graph database is not loaded."
 
     await cognee.delete([text_1, text_2], mode="hard")
     nodes, edges = await graph_engine.get_graph_data()