diff --git a/lib/galaxy/dependencies/dev-requirements.txt b/lib/galaxy/dependencies/dev-requirements.txt index a56cad0c8c3b..23bbb7c25683 100644 --- a/lib/galaxy/dependencies/dev-requirements.txt +++ b/lib/galaxy/dependencies/dev-requirements.txt @@ -45,8 +45,8 @@ httpcore==1.0.4 ; python_version >= "3.8" and python_version < "3.13" httpx==0.27.0 ; python_version >= "3.8" and python_version < "3.13" idna==3.6 ; python_version >= "3.8" and python_version < "3.13" imagesize==1.4.1 ; python_version >= "3.8" and python_version < "3.13" -importlib-metadata==7.0.1 ; python_version >= "3.8" and python_version < "3.13" -importlib-resources==6.1.2 ; python_version >= "3.8" and python_version < "3.10" +importlib-metadata==7.0.2 ; python_version >= "3.8" and python_version < "3.13" +importlib-resources==6.1.3 ; python_version >= "3.8" and python_version < "3.10" iniconfig==2.0.0 ; python_version >= "3.8" and python_version < "3.13" isodate==0.6.1 ; python_version >= "3.8" and python_version < "3.13" isort==5.13.2 ; python_version >= "3.8" and python_version < "3.13" @@ -76,13 +76,13 @@ nh3==0.2.15 ; python_version >= "3.8" and python_version < "3.13" numpy==1.24.4 ; python_version >= "3.8" and python_version < "3.9" numpy==1.26.4 ; python_version >= "3.9" and python_version < "3.13" outcome==1.3.0.post0 ; python_version >= "3.8" and python_version < "3.13" -packaging==23.2 ; python_version >= "3.8" and python_version < "3.13" +packaging==24.0 ; python_version >= "3.8" and python_version < "3.13" pathspec==0.12.1 ; python_version >= "3.8" and python_version < "3.13" pillow==10.2.0 ; python_version >= "3.8" and python_version < "3.13" pkce==1.0.3 ; python_version >= "3.8" and python_version < "3.13" pkginfo==1.10.0 ; python_version >= "3.8" and python_version < "3.13" platformdirs==4.2.0 ; python_version >= "3.8" and python_version < "3.13" -playwright==1.41.2 ; python_version >= "3.8" and python_version < "3.13" +playwright==1.42.0 ; python_version >= "3.8" and python_version < "3.13" pluggy==1.4.0 ; python_version >= "3.8" and python_version < "3.13" port-for==0.7.2 ; python_version >= "3.8" and python_version < "3.13" prettytable==3.10.0 ; python_version >= "3.8" and python_version < "3.13" @@ -95,10 +95,10 @@ pygithub==2.2.0 ; python_version >= "3.8" and python_version < "3.13" pygments==2.17.2 ; python_version >= "3.8" and python_version < "3.13" pyjwt[crypto]==2.8.0 ; python_version >= "3.8" and python_version < "3.13" pynacl==1.5.0 ; python_version >= "3.8" and python_version < "3.13" -pyparsing==3.1.1 ; python_version >= "3.8" and python_version < "3.13" +pyparsing==3.1.2 ; python_version >= "3.8" and python_version < "3.13" pyproject-hooks==1.0.0 ; python_version >= "3.8" and python_version < "3.13" pysocks==1.7.1 ; python_version >= "3.8" and python_version < "3.13" -pytest-asyncio==0.23.5 ; python_version >= "3.8" and python_version < "3.13" +pytest-asyncio==0.23.5.post1 ; python_version >= "3.8" and python_version < "3.13" pytest-base-url==2.1.0 ; python_version >= "3.8" and python_version < "3.13" pytest-celery==0.0.0 ; python_version >= "3.8" and python_version < "3.13" pytest-cov==4.1.0 ; python_version >= "3.8" and python_version < "3.13" @@ -108,7 +108,7 @@ pytest-json-report==1.5.0 ; python_version >= "3.8" and python_version < "3.13" pytest-metadata==3.1.1 ; python_version >= "3.8" and python_version < "3.13" pytest-mock==3.12.0 ; python_version >= "3.8" and python_version < "3.13" pytest-playwright==0.4.4 ; python_version >= "3.8" and python_version < "3.13" -pytest-postgresql==5.1.0 ; python_version >= "3.8" and python_version < "3.13" +pytest-postgresql==5.1.1 ; python_version >= "3.8" and python_version < "3.13" pytest-shard==0.1.2 ; python_version >= "3.8" and python_version < "3.13" pytest==7.4.4 ; python_version >= "3.8" and python_version < "3.13" python-dateutil==2.9.0.post0 ; python_version >= "3.8" and python_version < "3.13" @@ -155,7 +155,7 @@ tomli==2.0.1 ; python_version >= "3.8" and python_full_version <= "3.11.0a6" trio-websocket==0.11.1 ; python_version >= "3.8" and python_version < "3.13" trio==0.24.0 ; python_version >= "3.8" and python_version < "3.13" tuspy==1.0.3 ; python_version >= "3.8" and python_version < "3.13" -twill==3.2.2 ; python_version >= "3.8" and python_version < "3.13" +twill==3.2.3 ; python_version >= "3.8" and python_version < "3.13" twine==5.0.0 ; python_version >= "3.8" and python_version < "3.13" typing-extensions==4.10.0 ; python_version >= "3.8" and python_version < "3.13" tzdata==2024.1 ; python_version >= "3.8" and python_version < "3.13" diff --git a/lib/galaxy/dependencies/pinned-lint-requirements.txt b/lib/galaxy/dependencies/pinned-lint-requirements.txt index 6f7b4d233339..5535c679d0b5 100644 --- a/lib/galaxy/dependencies/pinned-lint-requirements.txt +++ b/lib/galaxy/dependencies/pinned-lint-requirements.txt @@ -4,4 +4,4 @@ flake8-bugbear==24.2.6 mccabe==0.7.0 pycodestyle==2.11.1 pyflakes==3.2.0 -ruff==0.3.0 +ruff==0.3.2 diff --git a/lib/galaxy/dependencies/pinned-requirements.txt b/lib/galaxy/dependencies/pinned-requirements.txt index 606b59c2be50..ac54d81da9f5 100644 --- a/lib/galaxy/dependencies/pinned-requirements.txt +++ b/lib/galaxy/dependencies/pinned-requirements.txt @@ -2,7 +2,7 @@ a2wsgi==1.10.2 ; python_version >= "3.8" and python_version < "3.13" adal==1.2.7 ; python_version >= "3.8" and python_version < "3.13" -aiobotocore==2.12.0 ; python_version >= "3.8" and python_version < "3.13" +aiobotocore==2.12.1 ; python_version >= "3.8" and python_version < "3.13" aiodataloader==0.4.0 ; python_version >= "3.8" and python_version < "3.13" aiofiles==23.2.1 ; python_version >= "3.8" and python_version < "3.13" aiohttp==3.9.3 ; python_version >= "3.8" and python_version < "3.13" @@ -16,7 +16,7 @@ anyio==4.3.0 ; python_version >= "3.8" and python_version < "3.13" apispec==6.5.0 ; python_version >= "3.8" and python_version < "3.13" appdirs==1.4.4 ; python_version >= "3.8" and python_version < "3.13" arcp==0.2.1 ; python_version >= "3.8" and python_version < "3.13" -argcomplete==3.2.2 ; python_version >= "3.8" and python_version < "3.13" +argcomplete==3.2.3 ; python_version >= "3.8" and python_version < "3.13" async-timeout==4.0.3 ; python_version >= "3.8" and python_version < "3.11" attmap==0.13.2 ; python_version >= "3.8" and python_version < "3.13" attrs==23.2.0 ; python_version >= "3.8" and python_version < "3.13" @@ -87,8 +87,8 @@ h5grove==2.0.0 ; python_version >= "3.8" and python_version < "3.13" h5py==3.10.0 ; python_version >= "3.8" and python_version < "3.13" humanfriendly==10.0 ; python_version >= "3.8" and python_version < "3.13" idna==3.6 ; python_version >= "3.8" and python_version < "3.13" -importlib-metadata==7.0.1 ; python_version >= "3.8" and python_version < "3.13" -importlib-resources==6.1.2 ; python_version >= "3.8" and python_version < "3.9" +importlib-metadata==7.0.2 ; python_version >= "3.8" and python_version < "3.13" +importlib-resources==6.1.3 ; python_version >= "3.8" and python_version < "3.9" isa-rwval==0.10.10 ; python_version >= "3.8" and python_version < "3.13" isal==1.6.0 ; python_version >= "3.8" and python_version < "3.13" isodate==0.6.1 ; python_version >= "3.8" and python_version < "3.13" @@ -119,7 +119,7 @@ numpy==1.26.4 ; python_version >= "3.9" and python_version < "3.13" oauthlib==3.2.2 ; python_version >= "3.8" and python_version < "3.13" orjson==3.9.15 ; python_version >= "3.8" and python_version < "3.13" oyaml==1.0 ; python_version >= "3.8" and python_version < "3.13" -packaging==23.2 ; python_version >= "3.8" and python_version < "3.13" +packaging==24.0 ; python_version >= "3.8" and python_version < "3.13" paramiko==3.4.0 ; python_version >= "3.8" and python_version < "3.13" parsley==1.3 ; python_version >= "3.8" and python_version < "3.13" paste==3.7.1 ; python_version >= "3.8" and python_version < "3.13" @@ -147,7 +147,7 @@ pyjwt[crypto]==2.8.0 ; python_version >= "3.8" and python_version < "3.13" pykwalify==1.8.0 ; python_version >= "3.8" and python_version < "3.13" pylibmagic==0.5.0 ; python_version >= "3.8" and python_version < "3.13" pynacl==1.5.0 ; python_version >= "3.8" and python_version < "3.13" -pyparsing==3.1.1 ; python_version >= "3.8" and python_version < "3.13" +pyparsing==3.1.2 ; python_version >= "3.8" and python_version < "3.13" pyreadline3==3.4.1 ; sys_platform == "win32" and python_version >= "3.8" and python_version < "3.13" pysam==0.22.0 ; python_version >= "3.8" and python_version < "3.13" python-dateutil==2.9.0.post0 ; python_version >= "3.8" and python_version < "3.13" @@ -179,10 +179,10 @@ setuptools==69.1.1 ; python_version >= "3.8" and python_version < "3.13" shellescape==3.8.1 ; python_version >= "3.8" and python_version < "3.13" six==1.16.0 ; python_version >= "3.8" and python_version < "3.13" sniffio==1.3.1 ; python_version >= "3.8" and python_version < "3.13" -social-auth-core[openidconnect]==4.5.3 ; python_version >= "3.8" and python_version < "3.13" +social-auth-core==4.5.3 ; python_version >= "3.8" and python_version < "3.13" sortedcontainers==2.4.0 ; python_version >= "3.8" and python_version < "3.13" spython==0.3.13 ; python_version >= "3.8" and python_version < "3.13" -sqlalchemy==1.4.51 ; python_version >= "3.8" and python_version < "3.13" +sqlalchemy==1.4.52 ; python_version >= "3.8" and python_version < "3.13" sqlitedict==2.1.0 ; python_version >= "3.8" and python_version < "3.13" sqlparse==0.4.4 ; python_version >= "3.8" and python_version < "3.13" starlette-context==0.3.6 ; python_version >= "3.8" and python_version < "3.13" @@ -203,7 +203,7 @@ tzdata==2024.1 ; python_version >= "3.8" and python_version < "3.13" tzlocal==5.2 ; python_version >= "3.8" and python_version < "3.13" ubiquerg==0.7.0 ; python_version >= "3.8" and python_version < "3.13" urllib3==1.26.18 ; python_version >= "3.8" and python_version < "3.13" -uvicorn==0.27.1 ; python_version >= "3.8" and python_version < "3.13" +uvicorn==0.28.0 ; python_version >= "3.8" and python_version < "3.13" uvloop==0.19.0 ; python_version >= "3.8" and python_version < "3.13" vine==5.1.0 ; python_version >= "3.8" and python_version < "3.13" wcwidth==0.2.13 ; python_version >= "3.8" and python_version < "3.13" diff --git a/lib/galaxy/dependencies/pinned-typecheck-requirements.txt b/lib/galaxy/dependencies/pinned-typecheck-requirements.txt index e39291a2e71d..877c102c0d28 100644 --- a/lib/galaxy/dependencies/pinned-typecheck-requirements.txt +++ b/lib/galaxy/dependencies/pinned-typecheck-requirements.txt @@ -3,7 +3,7 @@ cffi==1.16.0 ; python_version >= "3.8" and python_version < "3.13" and platform_ cryptography==42.0.5 ; python_version >= "3.8" and python_version < "3.13" lxml-stubs==0.5.1 ; python_version >= "3.8" and python_version < "3.13" mypy-extensions==1.0.0 ; python_version >= "3.8" and python_version < "3.13" -mypy==1.8.0 ; python_version >= "3.8" and python_version < "3.13" +mypy==1.9.0 ; python_version >= "3.8" and python_version < "3.13" pycparser==2.21 ; python_version >= "3.8" and python_version < "3.13" and platform_python_implementation != "PyPy" pydantic-core==2.14.6 ; python_version >= "3.8" and python_version < "3.13" pydantic==2.5.3 ; python_version >= "3.8" and python_version < "3.13" @@ -12,7 +12,7 @@ types-bleach==6.1.0.20240222 ; python_version >= "3.8" and python_version < "3.1 types-boto==2.49.18.20240205 ; python_version >= "3.8" and python_version < "3.13" types-contextvars==2.4.7.3 ; python_version >= "3.8" and python_version < "3.13" types-dataclasses==0.6.6 ; python_version >= "3.8" and python_version < "3.13" -types-docutils==0.20.0.20240304 ; python_version >= "3.8" and python_version < "3.13" +types-docutils==0.20.0.20240310 ; python_version >= "3.8" and python_version < "3.13" types-html5lib==1.1.11.20240228 ; python_version >= "3.8" and python_version < "3.13" types-markdown==3.5.0.20240129 ; python_version >= "3.8" and python_version < "3.13" types-paramiko==3.4.0.20240205 ; python_version >= "3.8" and python_version < "3.13" @@ -20,6 +20,6 @@ types-pkg-resources==0.1.3 ; python_version >= "3.8" and python_version < "3.13" types-python-dateutil==2.8.19.20240106 ; python_version >= "3.8" and python_version < "3.13" types-pyyaml==6.0.12.12 ; python_version >= "3.8" and python_version < "3.13" types-requests==2.31.0.6 ; python_version >= "3.8" and python_version < "3.13" -types-six==1.16.21.20240301 ; python_version >= "3.8" and python_version < "3.13" +types-six==1.16.21.20240310 ; python_version >= "3.8" and python_version < "3.13" types-urllib3==1.26.25.14 ; python_version >= "3.8" and python_version < "3.13" typing-extensions==4.10.0 ; python_version >= "3.8" and python_version < "3.13"