From 4418a1be88178145965f24555ba1c606d7529098 Mon Sep 17 00:00:00 2001 From: Damien Goutte-Gattat Date: Wed, 29 May 2024 11:36:11 +0100 Subject: [PATCH] Update Python constraints. --- CHANGELOG.md | 2 +- constraints.txt | 99 ++++++++++++++++++++++++------------------------- 2 files changed, 50 insertions(+), 51 deletions(-) diff --git a/CHANGELOG.md b/CHANGELOG.md index 48bef4fc..61235622 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -4,7 +4,7 @@ - KGCL plugin for ROBOT updated to version 0.4.0 - SSSOM command-line tool and plugin for ROBOT updated to version 0.7.7 - Several Python packages updated, including: - - `oaklib` (OAK) 0.6.5 + - `oaklib` (OAK) 0.6.6 - `sssom` 0.4.8 and `sssom-schema` 0.15.2 - Bufgixes: - Added back `class-count-by-prefix.sparql` ([https://github.com/INCATools/ontology-development-kit/issues/1030](#1030)) diff --git a/constraints.txt b/constraints.txt index c3a91fee..c2e725ef 100644 --- a/constraints.txt +++ b/constraints.txt @@ -1,8 +1,8 @@ airium==0.2.6 alabaster==0.7.16 -annotated-types==0.6.0 +annotated-types==0.7.0 antlr4-python3-runtime==4.9.3 -anyio==4.3.0 +anyio==4.4.0 appdirs==1.4.4 argon2-cffi==23.1.0 argon2-cffi-bindings==21.2.0 @@ -10,14 +10,14 @@ arrow==1.3.0 asttokens==2.4.1 async-lru==2.0.4 attrs==23.2.0 -Babel==2.14.0 +Babel==2.15.0 babelon==0.2.9 backports.tarfile==1.1.1 -bcp47==0.0.4 +bcp47==0.1.0 beautifulsoup4==4.12.3 bidict==0.23.1 bleach==6.1.0 -bmt==1.4.0 +bmt==1.4.1 cachetools==5.3.3 cattrs==23.2.3 certifi==2024.2.2 @@ -32,13 +32,13 @@ colorama==0.4.6 comm==0.2.2 commonmark==0.9.1 contourpy==1.2.1 -cryptography==42.0.5 +cryptography==42.0.7 curies==0.7.9 cycler==0.12.1 dacite==1.8.1 daff==1.3.46 dataclasses==0.6 -dataclasses-json==0.6.5 +dataclasses-json==0.6.6 dataclasses-jsonschema==2.16.0 debugpy==1.8.1 decorator==5.1.1 @@ -59,20 +59,20 @@ executing==2.0.1 fastjsonschema==2.19.1 fastobo==0.12.3 filelock==3.14.0 -fonttools==4.51.0 +fonttools==4.52.1 fqdn==1.5.1 funowl==0.2.3 ghp-import==2.1.0 google==3.0.0 -google-api-core==2.18.0 -google-api-python-client==2.127.0 +google-api-core==2.19.0 +google-api-python-client==2.130.0 google-auth==2.29.0 google-auth-httplib2==0.2.0 google-auth-oauthlib==1.2.0 googleapis-common-protos==1.63.0 graphviz==0.20.3 greenlet==3.0.3 -gspread==6.1.0 +gspread==6.1.2 gspread-formatting==1.1.2 h11==0.14.0 hbreader==0.9.1 @@ -97,7 +97,7 @@ jaraco.context==5.3.0 jaraco.functools==4.0.1 jedi==0.19.1 jeepney==0.8.0 -Jinja2==3.1.3 +Jinja2==3.1.4 jsbeautifier==1.15.1 jsobject==0.10.2 json-flattener==0.1.9 @@ -110,7 +110,7 @@ jsonpath-ng==1.6.1 jsonpath-rw==1.4.0 jsonpickle==3.0.4 jsonpointer==2.4 -jsonschema==4.21.1 +jsonschema==4.22.0 jsonschema-specifications==2023.12.1 jsonschema2md==1.1.0 jsonstreams==0.6.0 @@ -118,32 +118,32 @@ jupyter==1.0.0 jupyter-console==6.6.3 jupyter-events==0.10.0 jupyter-lsp==2.2.5 -jupyter_client==8.6.1 +jupyter_client==8.6.2 jupyter_core==5.7.2 jupyter_server==2.14.0 jupyter_server_terminals==0.5.3 -jupyterlab==4.1.8 +jupyterlab==4.2.1 jupyterlab_pygments==0.3.0 -jupyterlab_server==2.27.1 +jupyterlab_server==2.27.2 jupyterlab_widgets==3.0.10 -keyring==25.2.0 +keyring==25.2.1 kgcl-rdflib==0.5.0 kgcl_schema==0.6.8 kgx==2.4.0 kiwisolver==1.4.5 lark==1.1.9 lightrdf==0.4.0 -linkml==1.7.8 +linkml==1.7.10 linkml-dataops==0.1.0 linkml-renderer==0.3.0 linkml-runtime==1.7.5 llm==0.13.1 -lxml==5.2.1 +lxml==5.2.2 Markdown==3.6 markdown-it-py==3.0.0 MarkupSafe==2.1.5 -marshmallow==3.21.1 -matplotlib==3.8.4 +marshmallow==3.21.2 +matplotlib==3.9.0 matplotlib-inline==0.1.7 matplotlib-venn==0.11.10 mdurl==0.1.2 @@ -151,10 +151,10 @@ mergedeep==1.3.4 mistune==3.0.2 mkdocs==1.6.0 mkdocs-get-deps==0.2.0 -mkdocs-material==9.5.20 +mkdocs-material==9.5.25 mkdocs-material-extensions==1.3.1 mkdocs-mermaid2-plugin==1.1.1 -mkdocs-table-reader-plugin==2.1.0 +mkdocs-table-reader-plugin==2.2.2 more-click==0.1.2 more-itertools==10.2.0 mypy==1.10.0 @@ -167,17 +167,17 @@ neo4j==4.4.12 nest-asyncio==1.6.0 networkx==3.3 nh3==0.2.17 -notebook==7.1.3 +notebook==7.2.0 notebook_shim==0.2.4 numpy==1.26.4 -oaklib==0.6.5 +oaklib==0.6.6 oauthlib==3.2.2 ols-client==0.1.4 -ontobio==2.8.24 +ontobio==2.9.0 ontodev-cogs==0.3.3 ontodev-gizmos==0.3.2 ontoportal-client==0.0.4 -openai==1.23.6 +openai==1.30.3 openpyxl==3.1.2 ordered-set==4.1.0 overrides==7.7.0 @@ -192,8 +192,8 @@ pathspec==0.12.1 pexpect==4.9.0 pillow==10.3.0 pkginfo==1.10.0 -platformdirs==4.2.1 -plotly==5.21.0 +platformdirs==4.2.2 +plotly==5.22.0 pluggy==1.5.0 ply==3.11 prefixcommons==0.1.12 @@ -215,7 +215,7 @@ pydantic==2.7.1 pydantic_core==2.18.2 pydotplus==2.0.2 PyGithub==2.3.0 -Pygments==2.17.2 +Pygments==2.18.0 PyJSG==0.11.10 PyJWT==2.8.0 pymdown-extensions==10.8.1 @@ -227,18 +227,18 @@ PyShExC==0.9.1 pysolr==3.9.0 pyspellchecker==0.8.1 pystow==0.5.4 -pytest==8.2.0 +pytest==8.2.1 pytest-logging==2015.11.4 python-dateutil==2.9.0.post0 python-dotenv==1.0.1 python-json-logger==2.0.7 -python-ulid==2.5.0 +python-ulid==2.6.0 PyTrie==0.4.0 pytz==2024.1 PyYAML==6.0.1 pyyaml_env_tag==0.1 -pyzmq==26.0.2 -qtconsole==5.5.1 +pyzmq==26.0.3 +qtconsole==5.5.2 QtPy==2.4.1 ratelimit==2.2.1 rdflib==7.0.0 @@ -246,9 +246,9 @@ rdflib-jsonld==0.6.1 rdflib-shim==1.0.3 readme_renderer==43.0 recommonmark==0.7.1 -referencing==0.35.0 -regex==2024.4.28 -requests==2.31.0 +referencing==0.35.1 +regex==2024.5.15 +requests==2.32.2 requests-cache==1.2.0 requests-oauthlib==2.0.0 requests-toolbelt==1.0.0 @@ -257,14 +257,14 @@ rfc3986==2.0.0 rfc3986-validator==0.1.1 rfc3987==1.3.8 rich==13.7.1 -rpds-py==0.18.0 +rpds-py==0.18.1 rsa==4.9 ruamel.yaml==0.18.6 ruamel.yaml.clib==0.2.8 -scipy==1.13.0 +scipy==1.13.1 seaborn==0.13.2 SecretStorage==3.3.3 -semsimian==0.2.15 +semsimian==0.2.16 semsql==0.3.3 Send2Trash==1.8.3 ShExJSG==0.8.2 @@ -282,18 +282,17 @@ sphinxcontrib-htmlhelp==2.0.5 sphinxcontrib-jsmath==1.0.1 sphinxcontrib-qthelp==1.0.7 sphinxcontrib-serializinghtml==1.1.10 -SQLAlchemy==2.0.29 +SQLAlchemy==2.0.30 SQLAlchemy-Utils==0.38.3 sqlite-fts4==1.0.3 sqlite-migrate==0.1b0 sqlite-utils==3.36 -sssom==0.4.8 +sssom==0.4.9 sssom-schema==0.15.2 stack-data==0.6.3 -StrEnum==0.4.15 stringcase==1.2.0 tabulate==0.9.0 -tenacity==8.2.3 +tenacity==8.3.0 termcolor==2.4.0 terminado==0.18.1 terminaltables==3.1.10 @@ -301,13 +300,13 @@ tinycss2==1.3.0 tomli==2.0.1 tornado==6.4 tox==4.15.0 -tqdm==4.66.2 +tqdm==4.66.4 traitlets==5.14.3 tsvalid==0.0.3 -twine==5.0.0 +twine==5.1.0 types-python-dateutil==2.9.0.20240316 typing-inspect==0.9.0 -typing_extensions==4.11.0 +typing_extensions==4.12.0 tzdata==2024.1 UpSetPlot==0.9.0 uri-template==1.3.0 @@ -315,8 +314,8 @@ uritemplate==4.1.1 url-normalize==1.4.3 urllib3==2.2.1 validators==0.20.0 -virtualenv==20.26.1 -watchdog==4.0.0 +virtualenv==20.26.2 +watchdog==4.0.1 wcwidth==0.2.13 webcolors==1.13 webencodings==0.5.1 @@ -325,4 +324,4 @@ widgetsnbextension==4.0.10 wrapt==1.16.0 xmltodict==0.13.0 yamldown==0.1.8 -zipp==3.18.1 +zipp==3.19.0