fix: fixes ontology api endpoint tests + poetry lock(#1824)

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## Description

This PR fixes the failing CI tests related to the new ontology api
endpoint.


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this PR.
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## Type of Change
<!-- Please check the relevant option -->
- [x] Bug fix (non-breaking change that fixes an issue)
- [ ] New feature (non-breaking change that adds functionality)
- [ ] Breaking change (fix or feature that would cause existing
functionality to change)
- [ ] Documentation update
- [ ] Code refactoring
- [ ] Performance improvement
- [ ] Other (please specify):

## Screenshots/Videos (if applicable)
<!-- Add screenshots or videos to help explain your changes -->

## Pre-submission Checklist
<!-- Please check all boxes that apply before submitting your PR -->
- [x] **I have tested my changes thoroughly before submitting this PR**
- [x] **This PR contains minimal changes necessary to address the
issue/feature**
- [x] My code follows the project's coding standards and style
guidelines
- [x] I have added tests that prove my fix is effective or that my
feature works
- [x] I have added necessary documentation (if applicable)
- [x] All new and existing tests pass
- [x] I have searched existing PRs to ensure this change hasn't been
submitted already
- [x] I have linked any relevant issues in the description
- [x] My commits have clear and descriptive messages

## 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.

cognee/tests/unit/api/test_ontology_endpoint.py

@@ -25,7 +25,10 @@ def mock_user():
 def mock_default_user():
     """Mock default user for testing."""
     return SimpleNamespace(
-        id=uuid.uuid4(), email="default@example.com", is_active=True, tenant_id=uuid.uuid4()
+        id=str(uuid.uuid4()),
+        email="default@example.com",
+        is_active=True,
+        tenant_id=str(uuid.uuid4()),
     )
 
 
@@ -108,6 +111,7 @@ def test_upload_multiple_ontologies(mock_get_default_user, client, mock_default_
     """Test uploading multiple ontology files in single request"""
     import io
 
+    mock_get_default_user.return_value = mock_default_user
     # Create mock files
     file1_content = b"<rdf:RDF xmlns:rdf='http://www.w3.org/1999/02/22-rdf-syntax-ns#'></rdf:RDF>"
     file2_content = b"<rdf:RDF xmlns:rdf='http://www.w3.org/1999/02/22-rdf-syntax-ns#'></rdf:RDF>"
@@ -137,6 +141,7 @@ def test_upload_endpoint_accepts_arrays(mock_get_default_user, client, mock_defa
     import io
     import json
 
+    mock_get_default_user.return_value = mock_default_user
     file_content = b"<rdf:RDF xmlns:rdf='http://www.w3.org/1999/02/22-rdf-syntax-ns#'></rdf:RDF>"
 
     files = [("ontology_file", ("single.owl", io.BytesIO(file_content), "application/xml"))]
@@ -173,6 +178,7 @@ def test_complete_multifile_workflow(mock_get_default_user, client, mock_default
     import io
     import json
 
+    mock_get_default_user.return_value = mock_default_user
     # Step 1: Upload multiple ontologies
     file1_content = b"""<?xml version="1.0"?>
     <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
@@ -253,6 +259,8 @@ def test_multifile_error_handling(mock_get_default_user, client, mock_default_us
 @patch.object(gau_mod, "get_default_user", new_callable=AsyncMock)
 def test_cognify_missing_ontology_key(mock_get_default_user, client, mock_default_user):
     """Test cognify with non-existent ontology key"""
+    mock_get_default_user.return_value = mock_default_user
+
     payload = {
         "datasets": ["test_dataset"],
         "ontology_key": ["nonexistent_key"],

poetry.lock

@@ -1,4 +1,4 @@
-# This file is automatically @generated by Poetry 2.1.3 and should not be changed by hand.
+# This file is automatically @generated by Poetry 2.2.1 and should not be changed by hand.
 
 [[package]]
 name = "accelerate"
@@ -1231,12 +1231,12 @@ version = "0.4.6"
 description = "Cross-platform colored terminal text."
 optional = false
 python-versions = "!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,!=3.5.*,!=3.6.*,>=2.7"
-groups = ["main"]
+groups = ["main", "dev"]
-markers = "(platform_system == \"Windows\" or extra == \"llama-index\" or extra == \"dev\" or extra == \"chromadb\" or sys_platform == \"win32\") and (platform_system == \"Windows\" or os_name == \"nt\" or extra == \"llama-index\" or extra == \"dev\" or sys_platform == \"win32\")"
 files = [
     {file = "colorama-0.4.6-py2.py3-none-any.whl", hash = "sha256:4f1d9991f5acc0ca119f9d443620b77f9d6b33703e51011c16baf57afb285fc6"},
     {file = "colorama-0.4.6.tar.gz", hash = "sha256:08695f5cb7ed6e0531a20572697297273c47b8cae5a63ffc6d6ed5c201be6e44"},
 ]
+markers = {main = "(platform_system == \"Windows\" or extra == \"llama-index\" or extra == \"dev\" or extra == \"chromadb\" or sys_platform == \"win32\") and (platform_system == \"Windows\" or os_name == \"nt\" or extra == \"llama-index\" or extra == \"dev\" or sys_platform == \"win32\")", dev = "sys_platform == \"win32\""}
 
 [[package]]
 name = "coloredlogs"
@@ -2347,7 +2347,7 @@ version = "1.3.0"
 description = "Backport of PEP 654 (exception groups)"
 optional = false
 python-versions = ">=3.7"
-groups = ["main"]
+groups = ["main", "dev"]
 markers = "python_version == \"3.10\""
 files = [
     {file = "exceptiongroup-1.3.0-py3-none-any.whl", hash = "sha256:4d111e6e0c13d0644cad6ddaa7ed0261a0b36971f6d23e7ec9b4b9097da78a10"},
@@ -3732,14 +3732,14 @@ type = ["pytest-mypy"]
 name = "iniconfig"
 version = "2.1.0"
 description = "brain-dead simple config-ini parsing"
-optional = true
+optional = false
 python-versions = ">=3.8"
-groups = ["main"]
+groups = ["main", "dev"]
-markers = "extra == \"deepeval\" or extra == \"dev\""
 files = [
     {file = "iniconfig-2.1.0-py3-none-any.whl", hash = "sha256:9deba5723312380e77435581c6bf4935c94cbfab9b1ed33ef8d238ea168eb760"},
     {file = "iniconfig-2.1.0.tar.gz", hash = "sha256:3abbd2e30b36733fee78f9c7f7308f2d0050e88f0087fd25c2645f63c773e1c7"},
 ]
+markers = {main = "extra == \"deepeval\" or extra == \"dev\""}
 
 [[package]]
 name = "instructor"
@@ -4196,6 +4196,8 @@ groups = ["main"]
 markers = "extra == \"dlt\""
 files = [
     {file = "jsonpath-ng-1.7.0.tar.gz", hash = "sha256:f6f5f7fd4e5ff79c785f1573b394043b39849fb2bb47bcead935d12b00beab3c"},
+    {file = "jsonpath_ng-1.7.0-py2-none-any.whl", hash = "sha256:898c93fc173f0c336784a3fa63d7434297544b7198124a68f9a3ef9597b0ae6e"},
+    {file = "jsonpath_ng-1.7.0-py3-none-any.whl", hash = "sha256:f3d7f9e848cba1b6da28c55b1c26ff915dc9e0b1ba7e752a53d6da8d5cbd00b6"},
 ]
 
 [package.dependencies]
@@ -7632,7 +7634,7 @@ version = "24.2"
 description = "Core utilities for Python packages"
 optional = false
 python-versions = ">=3.8"
-groups = ["main"]
+groups = ["main", "dev"]
 files = [
     {file = "packaging-24.2-py3-none-any.whl", hash = "sha256:09abb1bccd265c01f4a3aa3f7a7db064b36514d2cba19a2f694fe6150451a759"},
     {file = "packaging-24.2.tar.gz", hash = "sha256:c228a6dc5e932d346bc5739379109d49e8853dd8223571c7c5b55260edc0b97f"},
@@ -8287,14 +8289,14 @@ kaleido = ["kaleido (>=1.0.0)"]
 name = "pluggy"
 version = "1.6.0"
 description = "plugin and hook calling mechanisms for python"
-optional = true
+optional = false
 python-versions = ">=3.9"
-groups = ["main"]
+groups = ["main", "dev"]
-markers = "extra == \"deepeval\" or extra == \"dev\" or extra == \"dlt\" or extra == \"docling\""
 files = [
     {file = "pluggy-1.6.0-py3-none-any.whl", hash = "sha256:e920276dd6813095e9377c0bc5566d94c932c33b27a3e3945d8389c374dd4746"},
     {file = "pluggy-1.6.0.tar.gz", hash = "sha256:7dcc130b76258d33b90f61b658791dede3486c3e6bfb003ee5c9bfb396dd22f3"},
 ]
+markers = {main = "extra == \"deepeval\" or extra == \"dev\" or extra == \"dlt\" or extra == \"docling\""}
 
 [package.extras]
 dev = ["pre-commit", "tox"]
@@ -8654,6 +8656,7 @@ files = [
     {file = "psycopg2-2.9.10-cp311-cp311-win_amd64.whl", hash = "sha256:0435034157049f6846e95103bd8f5a668788dd913a7c30162ca9503fdf542cb4"},
     {file = "psycopg2-2.9.10-cp312-cp312-win32.whl", hash = "sha256:65a63d7ab0e067e2cdb3cf266de39663203d38d6a8ed97f5ca0cb315c73fe067"},
     {file = "psycopg2-2.9.10-cp312-cp312-win_amd64.whl", hash = "sha256:4a579d6243da40a7b3182e0430493dbd55950c493d8c68f4eec0b302f6bbf20e"},
+    {file = "psycopg2-2.9.10-cp313-cp313-win_amd64.whl", hash = "sha256:91fd603a2155da8d0cfcdbf8ab24a2d54bca72795b90d2a3ed2b6da8d979dee2"},
     {file = "psycopg2-2.9.10-cp39-cp39-win32.whl", hash = "sha256:9d5b3b94b79a844a986d029eee38998232451119ad653aea42bb9220a8c5066b"},
     {file = "psycopg2-2.9.10-cp39-cp39-win_amd64.whl", hash = "sha256:88138c8dedcbfa96408023ea2b0c369eda40fe5d75002c0964c78f46f11fa442"},
     {file = "psycopg2-2.9.10.tar.gz", hash = "sha256:12ec0b40b0273f95296233e8750441339298e6a572f7039da5b260e3c8b60e11"},
@@ -8715,6 +8718,7 @@ files = [
     {file = "psycopg2_binary-2.9.10-cp313-cp313-musllinux_1_2_i686.whl", hash = "sha256:bb89f0a835bcfc1d42ccd5f41f04870c1b936d8507c6df12b7737febc40f0909"},
     {file = "psycopg2_binary-2.9.10-cp313-cp313-musllinux_1_2_ppc64le.whl", hash = "sha256:f0c2d907a1e102526dd2986df638343388b94c33860ff3bbe1384130828714b1"},
     {file = "psycopg2_binary-2.9.10-cp313-cp313-musllinux_1_2_x86_64.whl", hash = "sha256:f8157bed2f51db683f31306aa497311b560f2265998122abe1dce6428bd86567"},
+    {file = "psycopg2_binary-2.9.10-cp313-cp313-win_amd64.whl", hash = "sha256:27422aa5f11fbcd9b18da48373eb67081243662f9b46e6fd07c3eb46e4535142"},
     {file = "psycopg2_binary-2.9.10-cp38-cp38-macosx_12_0_x86_64.whl", hash = "sha256:eb09aa7f9cecb45027683bb55aebaaf45a0df8bf6de68801a6afdc7947bb09d4"},
     {file = "psycopg2_binary-2.9.10-cp38-cp38-manylinux_2_17_aarch64.manylinux2014_aarch64.whl", hash = "sha256:b73d6d7f0ccdad7bc43e6d34273f70d587ef62f824d7261c4ae9b8b1b6af90e8"},
     {file = "psycopg2_binary-2.9.10-cp38-cp38-manylinux_2_17_i686.manylinux2014_i686.whl", hash = "sha256:ce5ab4bf46a211a8e924d307c1b1fcda82368586a19d0a24f8ae166f5c784864"},
@@ -9694,14 +9698,14 @@ files = [
 name = "pytest"
 version = "7.4.4"
 description = "pytest: simple powerful testing with Python"
-optional = true
+optional = false
 python-versions = ">=3.7"
-groups = ["main"]
+groups = ["main", "dev"]
-markers = "extra == \"deepeval\" or extra == \"dev\""
 files = [
     {file = "pytest-7.4.4-py3-none-any.whl", hash = "sha256:b090cdf5ed60bf4c45261be03239c2c1c22df034fbffe691abe93cd80cea01d8"},
     {file = "pytest-7.4.4.tar.gz", hash = "sha256:2cf0005922c6ace4a3e2ec8b4080eb0d9753fdc93107415332f50ce9e7994280"},
 ]
+markers = {main = "extra == \"deepeval\" or extra == \"dev\""}
 
 [package.dependencies]
 colorama = {version = "*", markers = "sys_platform == \"win32\""}
@@ -9788,6 +9792,21 @@ files = [
 packaging = ">=17.1"
 pytest = ">=6.2"
 
+[[package]]
+name = "pytest-timeout"
+version = "2.4.0"
+description = "pytest plugin to abort hanging tests"
+optional = false
+python-versions = ">=3.7"
+groups = ["dev"]
+files = [
+    {file = "pytest_timeout-2.4.0-py3-none-any.whl", hash = "sha256:c42667e5cdadb151aeb5b26d114aff6bdf5a907f176a007a30b940d3d865b5c2"},
+    {file = "pytest_timeout-2.4.0.tar.gz", hash = "sha256:7e68e90b01f9eff71332b25001f85c75495fc4e3a836701876183c4bcfd0540a"},
+]
+
+[package.dependencies]
+pytest = ">=7.0.0"
+
 [[package]]
 name = "pytest-xdist"
 version = "3.8.0"
@@ -12056,7 +12075,7 @@ version = "2.2.1"
 description = "A lil' TOML parser"
 optional = false
 python-versions = ">=3.8"
-groups = ["main"]
+groups = ["main", "dev"]
 markers = "python_version == \"3.10\""
 files = [
     {file = "tomli-2.2.1-cp311-cp311-macosx_10_9_x86_64.whl", hash = "sha256:678e4fa69e4575eb77d103de3df8a895e1591b48e740211bd1067378c69e8249"},
@@ -12528,11 +12547,12 @@ version = "4.15.0"
 description = "Backported and Experimental Type Hints for Python 3.9+"
 optional = false
 python-versions = ">=3.9"
-groups = ["main"]
+groups = ["main", "dev"]
 files = [
     {file = "typing_extensions-4.15.0-py3-none-any.whl", hash = "sha256:f0fa19c6845758ab08074a0cfa8b7aecb71c999ca73d62883bc25cc018c4e548"},
     {file = "typing_extensions-4.15.0.tar.gz", hash = "sha256:0cea48d173cc12fa28ecabc3b837ea3cf6f38c6d1136f85cbaaf598984861466"},
 ]
+markers = {dev = "python_version == \"3.10\""}
 
 [[package]]
 name = "typing-inspect"