Merge branch 'master' into remove-default-user

constraints.txt

@@ -9,8 +9,8 @@ argon2-cffi-bindings==21.2.0
 arrow==1.3.0
 asttokens==2.4.1
 async-lru==2.0.4
-attrs==24.1.0
-Babel==2.15.0
+attrs==24.2.0
+babel==2.16.0
 babelon==0.2.9
 backports.tarfile==1.2.0
 bcp47==0.1.0
@@ -21,7 +21,7 @@ bmt==1.4.4
 cachetools==5.4.0
 cattrs==23.2.3
 certifi==2024.7.4
-cffi==1.16.0
+cffi==1.17.0
 CFGraph==0.2.1
 chardet==5.2.0
 charset-normalizer==3.3.2
@@ -40,7 +40,7 @@ daff==1.3.46
 dataclasses==0.6
 dataclasses-json==0.6.7
 dataclasses-jsonschema==2.16.0
-debugpy==1.8.3
+debugpy==1.8.5
 decorator==5.1.1
 defusedxml==0.7.1
 Deprecated==1.2.14
@@ -65,8 +65,8 @@ funowl==0.2.3
 ghp-import==2.1.0
 google==3.0.0
 google-api-core==2.19.1
-google-api-python-client==2.139.0
-google-auth==2.32.0
+google-api-python-client==2.140.0
+google-auth==2.33.0
 google-auth-httplib2==0.2.0
 google-auth-oauthlib==1.2.1
 googleapis-common-protos==1.63.2
@@ -99,6 +99,7 @@ jeepney==0.8.0
 Jinja2==3.1.4
 jinjanator==24.3.0
 jinjanator-plugins==24.1.0
+jiter==0.5.0
 jsbeautifier==1.15.1
 jsobject==0.10.2
 json-flattener==0.1.9
@@ -113,7 +114,7 @@ jsonpickle==3.2.2
 jsonpointer==3.0.0
 jsonschema==4.23.0
 jsonschema-specifications==2023.12.1
-jsonschema2md==1.1.0
+jsonschema2md==1.3.0
 jsonstreams==0.6.0
 jupyter==1.0.0
 jupyter-console==6.6.3
@@ -134,17 +135,17 @@ kgx==2.4.2
 kiwisolver==1.4.5
 lark==1.1.9
 lightrdf==0.4.0
-linkml==1.8.1
+linkml==1.8.2
 linkml-dataops==0.1.0
 linkml-renderer==0.3.1
-linkml-runtime==1.8.0
+linkml-runtime==1.8.1
 llm==0.13.1
-lxml==5.2.2
+lxml==5.3.0
 Markdown==3.6
 markdown-it-py==3.0.0
 MarkupSafe==2.1.5
 marshmallow==3.21.3
-matplotlib==3.9.0
+matplotlib==3.9.1.post1
 matplotlib-inline==0.1.7
 matplotlib-venn==1.1.1
 mdurl==0.1.2
@@ -157,7 +158,7 @@ mkdocs-material-extensions==1.3.1
 mkdocs-mermaid2-plugin==1.1.1
 mkdocs-table-reader-plugin==2.2.2
 more-click==0.1.2
-more-itertools==10.3.0
+more-itertools==10.4.0
 mypy==1.11.1
 mypy-extensions==1.0.0
 nbclient==0.10.0
@@ -178,7 +179,7 @@ ontobio==2.9.3
 ontodev-cogs==0.3.3
 ontodev-gizmos==0.3.2
 ontoportal-client==0.0.4
-openai==1.38.0
+openai==1.40.3
 openpyxl==3.1.5
 ordered-set==4.1.0
 overrides==7.7.0
@@ -236,7 +237,7 @@ python-json-logger==2.0.7
 python-ulid==2.7.0
 PyTrie==0.4.0
 pytz==2024.1
-PyYAML==6.0.1
+PyYAML==6.0.2
 pyyaml_env_tag==0.1
 pyzmq==26.1.0
 qtconsole==5.5.2
@@ -258,7 +259,7 @@ rfc3986==2.0.0
 rfc3986-validator==0.1.1
 rfc3987==1.3.8
 rich==13.7.1
-rpds-py==0.19.1
+rpds-py==0.20.0
 rsa==4.9
 ruamel.yaml==0.18.6
 ruamel.yaml.clib==0.2.8
@@ -283,7 +284,7 @@ sphinxcontrib-htmlhelp==2.1.0
 sphinxcontrib-jsmath==1.0.1
 sphinxcontrib-qthelp==2.0.0
 sphinxcontrib-serializinghtml==2.0.0
-SQLAlchemy==2.0.31
+SQLAlchemy==2.0.32
 SQLAlchemy-Utils==0.38.3
 sqlite-fts4==1.0.3
 sqlite-migrate==0.1b0
@@ -300,7 +301,7 @@ terminaltables==3.1.10
 tinycss2==1.3.0
 tomli==2.0.1
 tornado==6.4.1
-tox==4.16.0
+tox==4.17.1
 tqdm==4.66.5
 traitlets==5.14.3
 tsvalid==0.0.3
@@ -316,9 +317,9 @@ url-normalize==1.4.3
 urllib3==2.2.2
 validators==0.20.0
 virtualenv==20.26.3
-watchdog==4.0.1
+watchdog==4.0.2
 wcwidth==0.2.13
-webcolors==24.6.0
+webcolors==24.8.0
 webencodings==0.5.1
 websocket-client==1.8.0
 widgetsnbextension==4.0.11