From e00f08d4153eb1b3ef133fd3aef5ece8a5a5a98c Mon Sep 17 00:00:00 2001 From: "Michael R. Crusoe" Date: Tue, 14 Nov 2023 14:50:49 +0100 Subject: [PATCH] Poetry refresh with `make update-requirements` --- lib/galaxy/dependencies/dev-requirements.txt | 340 +++++++------- .../dependencies/pinned-lint-requirements.txt | 11 +- .../dependencies/pinned-requirements.txt | 427 +++++++++--------- .../pinned-typecheck-requirements.txt | 44 +- 4 files changed, 407 insertions(+), 415 deletions(-) diff --git a/lib/galaxy/dependencies/dev-requirements.txt b/lib/galaxy/dependencies/dev-requirements.txt index 07382f69027f..10c8fd8e0429 100644 --- a/lib/galaxy/dependencies/dev-requirements.txt +++ b/lib/galaxy/dependencies/dev-requirements.txt @@ -1,176 +1,172 @@ -aiohttp==3.8.6 ; python_version >= "3.7" and python_version < "3.12" -aiosignal==1.3.1 ; python_version >= "3.7" and python_version < "3.12" -alabaster==0.7.13 ; python_version >= "3.7" and python_version < "3.12" -amqp==5.2.0 ; python_version >= "3.7" and python_version < "3.12" -anyio==3.7.1 ; python_version >= "3.7" and python_version < "3.12" -ase==3.22.1 ; python_version >= "3.7" and python_version < "3.12" -async-timeout==4.0.3 ; python_version >= "3.7" and python_version < "3.12" -asynctest==0.13.0 ; python_version >= "3.7" and python_version < "3.8" -attrs==23.1.0 ; python_version >= "3.7" and python_version < "3.12" -axe-selenium-python==2.1.6 ; python_version >= "3.7" and python_version < "3.12" -babel==2.13.1 ; python_version >= "3.7" and python_version < "3.12" -billiard==3.6.4.0 ; python_version >= "3.7" and python_version < "3.12" -black==23.3.0 ; python_version >= "3.7" and python_version < "3.12" -bleach==6.0.0 ; python_version >= "3.7" and python_version < "3.12" -build==1.0.3 ; python_version >= "3.7" and python_version < "3.12" -cachecontrol[filecache]==0.13.1 ; python_version >= "3.7" and python_version < "3.12" -cached-property==1.5.2 ; python_version >= "3.7" and python_version < "3.8" -celery==5.2.7 ; python_version >= "3.7" and python_version < "3.12" -certifi==2023.11.17 ; python_version >= "3.7" and python_version < "3.12" -cffi==1.15.1 ; python_version >= "3.7" and python_version < "3.12" -charset-normalizer==3.3.2 ; python_version >= "3.7" and python_version < "3.12" -click-didyoumean==0.3.0 ; python_version >= "3.7" and python_version < "3.12" -click-plugins==1.1.1 ; python_version >= "3.7" and python_version < "3.12" -click-repl==0.3.0 ; python_version >= "3.7" and python_version < "3.12" -click==8.1.7 ; python_version >= "3.7" and python_version < "3.12" -codespell==2.2.5 ; python_version >= "3.7" and python_version < "3.12" -colorama==0.4.6 ; python_version >= "3.7" and python_version < "3.12" and (sys_platform == "win32" or platform_system == "Windows" or os_name == "nt") -coverage[toml]==7.2.7 ; python_version >= "3.7" and python_version < "3.12" -cryptography==41.0.5 ; python_version >= "3.7" and python_version < "3.12" -cwltest==2.3.20230825125225 ; python_version >= "3.7" and python_version < "3.12" -cycler==0.11.0 ; python_version >= "3.7" and python_version < "3.12" -darker==1.7.2 ; python_version >= "3.7" and python_version < "3.12" -defusedxml==0.7.1 ; python_version >= "3.7" and python_version < "3.12" -deprecated==1.2.14 ; python_version >= "3.7" and python_version < "3.12" -docutils==0.18.1 ; python_version >= "3.7" and python_version < "3.12" -exceptiongroup==1.1.3 ; python_version >= "3.7" and python_version < "3.11" -filelock==3.12.2 ; python_version >= "3.7" and python_version < "3.12" -fluent-logger==0.10.0 ; python_version >= "3.7" and python_version < "3.12" -fonttools==4.38.0 ; python_version >= "3.7" and python_version < "3.12" -frozenlist==1.3.3 ; python_version >= "3.7" and python_version < "3.12" -future==0.18.3 ; python_version >= "3.7" and python_version < "3.12" -galaxy-release-util==0.1.5 ; python_version >= "3.7" and python_version < "3.12" -greenlet==2.0.2 ; python_version >= "3.7" and python_version < "3.12" -h11==0.14.0 ; python_version >= "3.7" and python_version < "3.12" -httpcore==0.17.3 ; python_version >= "3.7" and python_version < "3.12" -httpx==0.24.1 ; python_version >= "3.7" and python_version < "3.12" -idna==3.4 ; python_version >= "3.7" and python_version < "3.12" -imagesize==1.4.1 ; python_version >= "3.7" and python_version < "3.12" -importlib-metadata==4.13.0 ; python_version >= "3.7" and python_version < "3.12" -importlib-resources==5.12.0 ; python_version >= "3.7" and python_version < "3.12" -iniconfig==2.0.0 ; python_version >= "3.7" and python_version < "3.12" -isodate==0.6.1 ; python_version >= "3.7" and python_version < "3.12" -isort==5.11.5 ; python_version >= "3.7" and python_version < "3.12" -jaraco-classes==3.2.3 ; python_version >= "3.7" and python_version < "3.12" -jeepney==0.8.0 ; python_version >= "3.7" and python_version < "3.12" and sys_platform == "linux" -jinja2==3.1.2 ; python_version >= "3.7" and python_version < "3.12" -junit-xml==1.9 ; python_version >= "3.7" and python_version < "3.12" -keyring==24.1.1 ; python_version >= "3.7" and python_version < "3.12" -kiwisolver==1.4.5 ; python_version >= "3.7" and python_version < "3.12" -kombu==5.2.4 ; python_version >= "3.7" and python_version < "3.12" -lxml==4.9.3 ; python_version >= "3.7" and python_version < "3.12" -markdown-it-py==2.2.0 ; python_version >= "3.7" and python_version < "3.12" -markdown-it-reporter==0.0.2 ; python_version >= "3.7" and python_version < "3.12" -markupsafe==2.1.3 ; python_version >= "3.7" and python_version < "3.12" -matplotlib==3.5.3 ; python_version >= "3.7" and python_version < "3.8" -matplotlib==3.7.3 ; python_version >= "3.8" and python_version < "3.9" +aiohttp==3.9.0 ; python_version >= "3.8" and python_version < "3.12" +aiosignal==1.3.1 ; python_version >= "3.8" and python_version < "3.12" +alabaster==0.7.13 ; python_version >= "3.8" and python_version < "3.12" +amqp==5.2.0 ; python_version >= "3.8" and python_version < "3.12" +anyio==4.1.0 ; python_version >= "3.8" and python_version < "3.12" +ase==3.22.1 ; python_version >= "3.8" and python_version < "3.12" +async-timeout==4.0.3 ; python_version >= "3.8" and python_version < "3.11" +attrs==23.1.0 ; python_version >= "3.8" and python_version < "3.12" +axe-selenium-python==2.1.6 ; python_version >= "3.8" and python_version < "3.12" +babel==2.13.1 ; python_version >= "3.8" and python_version < "3.12" +backports-zoneinfo==0.2.1 ; python_version >= "3.8" and python_version < "3.9" +backports-zoneinfo[tzdata]==0.2.1 ; python_version >= "3.8" and python_version < "3.9" +billiard==4.2.0 ; python_version >= "3.8" and python_version < "3.12" +black==23.11.0 ; python_version >= "3.8" and python_version < "3.12" +build==1.0.3 ; python_version >= "3.8" and python_version < "3.12" +cachecontrol[filecache]==0.13.1 ; python_version >= "3.8" and python_version < "3.12" +celery==5.3.6 ; python_version >= "3.8" and python_version < "3.12" +certifi==2023.11.17 ; python_version >= "3.8" and python_version < "3.12" +cffi==1.16.0 ; python_version >= "3.8" and python_version < "3.12" +charset-normalizer==3.3.2 ; python_version >= "3.8" and python_version < "3.12" +click-didyoumean==0.3.0 ; python_version >= "3.8" and python_version < "3.12" +click-plugins==1.1.1 ; python_version >= "3.8" and python_version < "3.12" +click-repl==0.3.0 ; python_version >= "3.8" and python_version < "3.12" +click==8.1.7 ; python_version >= "3.8" and python_version < "3.12" +codespell==2.2.6 ; python_version >= "3.8" and python_version < "3.12" +colorama==0.4.6 ; python_version >= "3.8" and python_version < "3.12" and (sys_platform == "win32" or platform_system == "Windows" or os_name == "nt") +contourpy==1.1.1 ; python_version >= "3.8" and python_version < "3.12" +coverage[toml]==7.3.2 ; python_version >= "3.8" and python_version < "3.12" +cryptography==41.0.5 ; python_version >= "3.8" and python_version < "3.12" +cwltest==2.4.20231031143732 ; python_version >= "3.8" and python_version < "3.12" +cycler==0.12.1 ; python_version >= "3.8" and python_version < "3.12" +darker==1.7.2 ; python_version >= "3.8" and python_version < "3.12" +defusedxml==0.7.1 ; python_version >= "3.8" and python_version < "3.12" +deprecated==1.2.14 ; python_version >= "3.8" and python_version < "3.12" +docutils==0.18.1 ; python_version >= "3.8" and python_version < "3.12" +exceptiongroup==1.2.0 ; python_version >= "3.8" and python_version < "3.11" +filelock==3.13.1 ; python_version >= "3.8" and python_version < "3.12" +fluent-logger==0.10.0 ; python_version >= "3.8" and python_version < "3.12" +fonttools==4.45.1 ; python_version >= "3.8" and python_version < "3.12" +frozenlist==1.4.0 ; python_version >= "3.8" and python_version < "3.12" +future==0.18.3 ; python_version >= "3.8" and python_version < "3.12" +galaxy-release-util==0.1.5 ; python_version >= "3.8" and python_version < "3.12" +greenlet==3.0.1 ; python_version >= "3.8" and python_version < "3.12" +h11==0.14.0 ; python_version >= "3.8" and python_version < "3.12" +httpcore==1.0.2 ; python_version >= "3.8" and python_version < "3.12" +httpx==0.25.2 ; python_version >= "3.8" and python_version < "3.12" +idna==3.4 ; python_version >= "3.8" and python_version < "3.12" +imagesize==1.4.1 ; python_version >= "3.8" and python_version < "3.12" +importlib-metadata==6.8.0 ; python_version >= "3.8" and python_version < "3.12" +importlib-resources==6.1.1 ; python_version >= "3.8" and python_version < "3.12" +iniconfig==2.0.0 ; python_version >= "3.8" and python_version < "3.12" +isodate==0.6.1 ; python_version >= "3.8" and python_version < "3.12" +isort==5.12.0 ; python_version >= "3.8" and python_version < "3.12" +jaraco-classes==3.3.0 ; python_version >= "3.8" and python_version < "3.12" +jeepney==0.8.0 ; python_version >= "3.8" and python_version < "3.12" and sys_platform == "linux" +jinja2==3.1.2 ; python_version >= "3.8" and python_version < "3.12" +junit-xml==1.9 ; python_version >= "3.8" and python_version < "3.12" +keyring==24.3.0 ; python_version >= "3.8" and python_version < "3.12" +kiwisolver==1.4.5 ; python_version >= "3.8" and python_version < "3.12" +kombu==5.3.4 ; python_version >= "3.8" and python_version < "3.12" +lxml==4.9.3 ; python_version >= "3.8" and python_version < "3.12" +markdown-it-py==3.0.0 ; python_version >= "3.8" and python_version < "3.12" +markdown-it-reporter==0.0.2 ; python_version >= "3.8" and python_version < "3.12" +markupsafe==2.1.3 ; python_version >= "3.8" and python_version < "3.12" +matplotlib==3.7.4 ; python_version >= "3.8" and python_version < "3.9" matplotlib==3.8.2 ; python_version >= "3.9" and python_version < "3.12" -mdit-py-plugins==0.3.5 ; python_version >= "3.7" and python_version < "3.12" -mdurl==0.1.2 ; python_version >= "3.7" and python_version < "3.12" -mirakuru==2.5.1 ; python_version >= "3.7" and python_version < "3.12" -mistune==2.0.5 ; python_version >= "3.7" and python_version < "3.12" -more-itertools==9.1.0 ; python_version >= "3.7" and python_version < "3.12" -msgpack==1.0.5 ; python_version >= "3.7" and python_version < "3.12" -multidict==6.0.4 ; python_version >= "3.7" and python_version < "3.12" -mypy-extensions==1.0.0 ; python_version >= "3.7" and python_version < "3.12" -myst-parser==1.0.0 ; python_version >= "3.7" and python_version < "3.12" -numpy==1.21.6 ; python_version >= "3.7" and python_version < "3.8" +mdit-py-plugins==0.4.0 ; python_version >= "3.8" and python_version < "3.12" +mdurl==0.1.2 ; python_version >= "3.8" and python_version < "3.12" +mirakuru==2.5.2 ; python_version >= "3.8" and python_version < "3.12" +mistune==2.0.5 ; python_version >= "3.8" and python_version < "3.12" +more-itertools==10.1.0 ; python_version >= "3.8" and python_version < "3.12" +msgpack==1.0.7 ; python_version >= "3.8" and python_version < "3.12" +multidict==6.0.4 ; python_version >= "3.8" and python_version < "3.12" +mypy-extensions==1.0.0 ; python_version >= "3.8" and python_version < "3.12" +myst-parser==2.0.0 ; python_version >= "3.8" and python_version < "3.12" +nh3==0.2.14 ; python_version >= "3.8" and python_version < "3.12" numpy==1.24.4 ; python_version >= "3.8" and python_version < "3.9" numpy==1.26.2 ; python_version >= "3.9" and python_version < "3.12" -outcome==1.3.0.post0 ; python_version >= "3.7" and python_version < "3.12" -packaging==23.2 ; python_version >= "3.7" and python_version < "3.12" -pathspec==0.11.2 ; python_version >= "3.7" and python_version < "3.12" -pillow==9.5.0 ; python_version >= "3.7" and python_version < "3.12" -pkce==1.0.3 ; python_version >= "3.7" and python_version < "3.12" -pkginfo==1.9.6 ; python_version >= "3.7" and python_version < "3.12" -platformdirs==4.0.0 ; python_version >= "3.7" and python_version < "3.12" -playwright==1.35.0 ; python_version >= "3.7" and python_version < "3.12" -pluggy==1.2.0 ; python_version >= "3.7" and python_version < "3.12" -port-for==0.7.1 ; python_version >= "3.7" and python_version < "3.12" -prettytable==3.7.0 ; python_version >= "3.7" and python_version < "3.12" -prompt-toolkit==3.0.41 ; python_version >= "3.7" and python_version < "3.12" -psutil==5.9.6 ; python_version >= "3.7" and python_version < "3.12" and sys_platform != "cygwin" -py==1.11.0 ; python_version >= "3.7" and python_version < "3.12" -pycparser==2.21 ; python_version >= "3.7" and python_version < "3.12" -pyee==9.0.4 ; python_version >= "3.7" and python_version < "3.12" -pygithub==2.1.1 ; python_version >= "3.7" and python_version < "3.12" -pygments==2.16.1 ; python_version >= "3.7" and python_version < "3.12" -pyjwt[crypto]==2.8.0 ; python_version >= "3.7" and python_version < "3.12" -pynacl==1.5.0 ; python_version >= "3.7" and python_version < "3.12" -pyparsing==3.0.9 ; python_version >= "3.7" and python_version < "3.12" -pyproject-hooks==1.0.0 ; python_version >= "3.7" and python_version < "3.12" -pysocks==1.7.1 ; python_version >= "3.7" and python_version < "3.12" -pytest-asyncio==0.21.1 ; python_version >= "3.7" and python_version < "3.12" -pytest-base-url==2.0.0 ; python_version >= "3.7" and python_version < "3.12" -pytest-celery==0.0.0 ; python_version >= "3.7" and python_version < "3.12" -pytest-cov==4.1.0 ; python_version >= "3.7" and python_version < "3.12" -pytest-html==3.2.0 ; python_version >= "3.7" and python_version < "3.12" -pytest-httpserver==1.0.6 ; python_version >= "3.7" and python_version < "3.12" -pytest-json-report==1.5.0 ; python_version >= "3.7" and python_version < "3.12" -pytest-metadata==3.0.0 ; python_version >= "3.7" and python_version < "3.12" -pytest-mock==3.11.1 ; python_version >= "3.7" and python_version < "3.12" -pytest-playwright==0.3.3 ; python_version >= "3.7" and python_version < "3.12" -pytest-postgresql==4.1.1 ; python_version >= "3.7" and python_version < "3.12" -pytest-shard==0.1.2 ; python_version >= "3.7" and python_version < "3.12" -pytest==7.4.3 ; python_version >= "3.7" and python_version < "3.12" -python-dateutil==2.8.2 ; python_version >= "3.7" and python_version < "3.12" -python-irodsclient==1.1.9 ; python_version >= "3.7" and python_version < "3.12" -python-slugify==8.0.1 ; python_version >= "3.7" and python_version < "3.12" -pytz==2023.3.post1 ; python_version >= "3.7" and python_version < "3.12" -pywin32-ctypes==0.2.2 ; python_version >= "3.7" and python_version < "3.12" and sys_platform == "win32" -pyyaml==6.0.1 ; python_version >= "3.7" and python_version < "3.12" -rdflib==6.2.0 ; python_version >= "3.7" and python_version < "3.12" -readme-renderer==37.3 ; python_version >= "3.7" and python_version < "3.12" -requests-toolbelt==1.0.0 ; python_version >= "3.7" and python_version < "3.12" -requests==2.31.0 ; python_version >= "3.7" and python_version < "3.12" -responses==0.23.3 ; python_version >= "3.7" and python_version < "3.12" -rfc3986==2.0.0 ; python_version >= "3.7" and python_version < "3.12" -rich==13.7.0 ; python_version >= "3.7" and python_version < "3.12" -ruamel-yaml-clib==0.2.8 ; platform_python_implementation == "CPython" and python_version < "3.11" and python_version >= "3.7" -ruamel-yaml==0.17.21 ; python_version >= "3.7" and python_version < "3.12" -schema-salad==8.4.20230808163024 ; python_version >= "3.7" and python_version < "3.12" -scipy==1.7.3 ; python_version >= "3.7" and python_version < "3.8" +outcome==1.3.0.post0 ; python_version >= "3.8" and python_version < "3.12" +packaging==23.2 ; python_version >= "3.8" and python_version < "3.12" +pathspec==0.11.2 ; python_version >= "3.8" and python_version < "3.12" +pillow==10.1.0 ; python_version >= "3.8" and python_version < "3.12" +pkce==1.0.3 ; python_version >= "3.8" and python_version < "3.12" +pkginfo==1.9.6 ; python_version >= "3.8" and python_version < "3.12" +platformdirs==4.0.0 ; python_version >= "3.8" and python_version < "3.12" +playwright==1.40.0 ; python_version >= "3.8" and python_version < "3.12" +pluggy==1.3.0 ; python_version >= "3.8" and python_version < "3.12" +port-for==0.7.2 ; python_version >= "3.8" and python_version < "3.12" +prettytable==3.9.0 ; python_version >= "3.8" and python_version < "3.12" +prompt-toolkit==3.0.41 ; python_version >= "3.8" and python_version < "3.12" +psutil==5.9.6 ; python_version >= "3.8" and python_version < "3.12" and sys_platform != "cygwin" +psycopg==3.1.13 ; python_version >= "3.8" and python_version < "3.12" +pycparser==2.21 ; python_version >= "3.8" and python_version < "3.12" +pyee==11.0.1 ; python_version >= "3.8" and python_version < "3.12" +pygithub==2.1.1 ; python_version >= "3.8" and python_version < "3.12" +pygments==2.17.2 ; python_version >= "3.8" and python_version < "3.12" +pyjwt[crypto]==2.8.0 ; python_version >= "3.8" and python_version < "3.12" +pynacl==1.5.0 ; python_version >= "3.8" and python_version < "3.12" +pyparsing==3.1.1 ; python_version >= "3.8" and python_version < "3.12" +pyproject-hooks==1.0.0 ; python_version >= "3.8" and python_version < "3.12" +pysocks==1.7.1 ; python_version >= "3.8" and python_version < "3.12" +pytest-asyncio==0.21.1 ; python_version >= "3.8" and python_version < "3.12" +pytest-base-url==2.0.0 ; python_version >= "3.8" and python_version < "3.12" +pytest-celery==0.0.0 ; python_version >= "3.8" and python_version < "3.12" +pytest-cov==4.1.0 ; python_version >= "3.8" and python_version < "3.12" +pytest-html==4.1.1 ; python_version >= "3.8" and python_version < "3.12" +pytest-httpserver==1.0.8 ; python_version >= "3.8" and python_version < "3.12" +pytest-json-report==1.5.0 ; python_version >= "3.8" and python_version < "3.12" +pytest-metadata==3.0.0 ; python_version >= "3.8" and python_version < "3.12" +pytest-mock==3.12.0 ; python_version >= "3.8" and python_version < "3.12" +pytest-playwright==0.4.3 ; python_version >= "3.8" and python_version < "3.12" +pytest-postgresql==5.0.0 ; python_version >= "3.8" and python_version < "3.12" +pytest-shard==0.1.2 ; python_version >= "3.8" and python_version < "3.12" +pytest==7.4.3 ; python_version >= "3.8" and python_version < "3.12" +python-dateutil==2.8.2 ; python_version >= "3.8" and python_version < "3.12" +python-irodsclient==1.1.9 ; python_version >= "3.8" and python_version < "3.12" +python-slugify==8.0.1 ; python_version >= "3.8" and python_version < "3.12" +pytz==2023.3.post1 ; python_version >= "3.8" and python_version < "3.9" +pywin32-ctypes==0.2.2 ; python_version >= "3.8" and python_version < "3.12" and sys_platform == "win32" +pyyaml==6.0.1 ; python_version >= "3.8" and python_version < "3.12" +rdflib==6.3.2 ; python_version >= "3.8" and python_version < "3.12" +readme-renderer==42.0 ; python_version >= "3.8" and python_version < "3.12" +requests-toolbelt==1.0.0 ; python_version >= "3.8" and python_version < "3.12" +requests==2.31.0 ; python_version >= "3.8" and python_version < "3.12" +responses==0.24.1 ; python_version >= "3.8" and python_version < "3.12" +rfc3986==2.0.0 ; python_version >= "3.8" and python_version < "3.12" +rich==13.7.0 ; python_version >= "3.8" and python_version < "3.12" +ruamel-yaml-clib==0.2.8 ; platform_python_implementation == "CPython" and python_version < "3.12" and python_version >= "3.8" +ruamel-yaml==0.18.5 ; python_version >= "3.8" and python_version < "3.12" +schema-salad==8.4.20231117150958 ; python_version >= "3.8" and python_version < "3.12" scipy==1.10.1 ; python_version >= "3.8" and python_version < "3.9" -scipy==1.11.3 ; python_version >= "3.9" and python_version < "3.12" -secretstorage==3.3.3 ; python_version >= "3.7" and python_version < "3.12" and sys_platform == "linux" -selenium==4.11.2 ; python_version >= "3.7" and python_version < "3.12" -seletools==1.4.0 ; python_version >= "3.7" and python_version < "3.12" -setuptools==68.0.0 ; python_version >= "3.7" and python_version < "3.12" -six==1.16.0 ; python_version >= "3.7" and python_version < "3.12" -sniffio==1.3.0 ; python_version >= "3.7" and python_version < "3.12" -snowballstemmer==2.2.0 ; python_version >= "3.7" and python_version < "3.12" -sortedcontainers==2.4.0 ; python_version >= "3.7" and python_version < "3.12" -sphinx-rtd-theme==1.3.0 ; python_version >= "3.7" and python_version < "3.12" -sphinx==5.3.0 ; python_version >= "3.7" and python_version < "3.12" -sphinxcontrib-applehelp==1.0.2 ; python_version >= "3.7" and python_version < "3.12" -sphinxcontrib-devhelp==1.0.2 ; python_version >= "3.7" and python_version < "3.12" -sphinxcontrib-htmlhelp==2.0.0 ; python_version >= "3.7" and python_version < "3.12" -sphinxcontrib-jquery==4.1 ; python_version >= "3.7" and python_version < "3.12" -sphinxcontrib-jsmath==1.0.1 ; python_version >= "3.7" and python_version < "3.12" -sphinxcontrib-qthelp==1.0.3 ; python_version >= "3.7" and python_version < "3.12" -sphinxcontrib-serializinghtml==1.1.5 ; python_version >= "3.7" and python_version < "3.12" -statsd==4.0.1 ; python_version >= "3.7" and python_version < "3.12" -testfixtures==7.2.2 ; python_version >= "3.7" and python_version < "3.12" -text-unidecode==1.3 ; python_version >= "3.7" and python_version < "3.12" -tinydb==4.8.0 ; python_version >= "3.7" and python_version < "3.12" -toml==0.10.2 ; python_version >= "3.7" and python_version < "3.12" -tomli==2.0.1 ; python_version >= "3.7" and python_full_version <= "3.11.0a6" -trio-websocket==0.11.1 ; python_version >= "3.7" and python_version < "3.12" -trio==0.22.2 ; python_version >= "3.7" and python_version < "3.12" -tuspy==1.0.1 ; python_version >= "3.7" and python_version < "3.12" -twill==3.1 ; python_version >= "3.7" and python_version < "3.12" -twine==4.0.2 ; python_version >= "3.7" and python_version < "3.12" -typed-ast==1.5.5 ; python_version < "3.8" and implementation_name == "cpython" and python_version >= "3.7" -types-pyyaml==6.0.12.12 ; python_version >= "3.7" and python_version < "3.12" -typing-extensions==4.7.1 ; python_version >= "3.7" and python_version < "3.12" -urllib3==1.26.18 ; python_version >= "3.7" and python_version < "3.12" -urllib3[socks]==1.26.18 ; python_version >= "3.7" and python_version < "3.12" -vine==5.1.0 ; python_version >= "3.7" and python_version < "3.12" -watchdog==3.0.0 ; python_version >= "3.7" and python_version < "3.12" -wcwidth==0.2.10 ; python_version >= "3.7" and python_version < "3.12" -webencodings==0.5.1 ; python_version >= "3.7" and python_version < "3.12" -werkzeug==2.2.3 ; python_version >= "3.7" and python_version < "3.12" -wrapt==1.16.0 ; python_version >= "3.7" and python_version < "3.12" -wsproto==1.2.0 ; python_version >= "3.7" and python_version < "3.12" -yarl==1.9.2 ; python_version >= "3.7" and python_version < "3.12" -zipp==3.15.0 ; python_version >= "3.7" and python_version < "3.12" +scipy==1.11.4 ; python_version >= "3.9" and python_version < "3.12" +secretstorage==3.3.3 ; python_version >= "3.8" and python_version < "3.12" and sys_platform == "linux" +selenium==4.15.2 ; python_version >= "3.8" and python_version < "3.12" +seletools==1.4.0 ; python_version >= "3.8" and python_version < "3.12" +setuptools==69.0.2 ; python_version >= "3.8" and python_version < "3.12" +six==1.16.0 ; python_version >= "3.8" and python_version < "3.12" +sniffio==1.3.0 ; python_version >= "3.8" and python_version < "3.12" +snowballstemmer==2.2.0 ; python_version >= "3.8" and python_version < "3.12" +sortedcontainers==2.4.0 ; python_version >= "3.8" and python_version < "3.12" +sphinx-rtd-theme==1.3.0 ; python_version >= "3.8" and python_version < "3.12" +sphinx==7.1.2 ; python_version >= "3.8" and python_version < "3.12" +sphinxcontrib-applehelp==1.0.4 ; python_version >= "3.8" and python_version < "3.12" +sphinxcontrib-devhelp==1.0.2 ; python_version >= "3.8" and python_version < "3.12" +sphinxcontrib-htmlhelp==2.0.1 ; python_version >= "3.8" and python_version < "3.12" +sphinxcontrib-jquery==4.1 ; python_version >= "3.8" and python_version < "3.12" +sphinxcontrib-jsmath==1.0.1 ; python_version >= "3.8" and python_version < "3.12" +sphinxcontrib-qthelp==1.0.3 ; python_version >= "3.8" and python_version < "3.12" +sphinxcontrib-serializinghtml==1.1.5 ; python_version >= "3.8" and python_version < "3.12" +statsd==4.0.1 ; python_version >= "3.8" and python_version < "3.12" +testfixtures==7.2.2 ; python_version >= "3.8" and python_version < "3.12" +text-unidecode==1.3 ; python_version >= "3.8" and python_version < "3.12" +tinydb==4.8.0 ; python_version >= "3.8" and python_version < "3.12" +toml==0.10.2 ; python_version >= "3.8" and python_version < "3.12" +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 < "3.12" +trio==0.23.1 ; python_version >= "3.8" and python_version < "3.12" +tuspy==1.0.1 ; python_version >= "3.8" and python_version < "3.12" +twill==3.2.1 ; python_version >= "3.8" and python_version < "3.12" +twine==4.0.2 ; python_version >= "3.8" and python_version < "3.12" +typing-extensions==4.8.0 ; python_version >= "3.8" and python_version < "3.12" +tzdata==2023.3 ; python_version >= "3.8" and python_version < "3.12" +urllib3==1.26.18 ; python_version >= "3.8" and python_version < "3.12" +urllib3[socks]==1.26.18 ; python_version >= "3.8" and python_version < "3.12" +vine==5.1.0 ; python_version >= "3.8" and python_version < "3.12" +watchdog==3.0.0 ; python_version >= "3.8" and python_version < "3.12" +wcwidth==0.2.12 ; python_version >= "3.8" and python_version < "3.12" +werkzeug==3.0.1 ; python_version >= "3.8" and python_version < "3.12" +wrapt==1.16.0 ; python_version >= "3.8" and python_version < "3.12" +wsproto==1.2.0 ; python_version >= "3.8" and python_version < "3.12" +yarl==1.9.3 ; python_version >= "3.8" and python_version < "3.12" +zipp==3.17.0 ; python_version >= "3.8" and python_version < "3.12" diff --git a/lib/galaxy/dependencies/pinned-lint-requirements.txt b/lib/galaxy/dependencies/pinned-lint-requirements.txt index 6958b57997aa..6663da463581 100644 --- a/lib/galaxy/dependencies/pinned-lint-requirements.txt +++ b/lib/galaxy/dependencies/pinned-lint-requirements.txt @@ -1,10 +1,7 @@ attrs==23.1.0 -flake8==5.0.4 -flake8-bugbear==23.3.12 -importlib-metadata==4.2.0 +flake8==6.1.0 +flake8-bugbear==23.9.16 mccabe==0.7.0 -pycodestyle==2.9.1 -pyflakes==2.5.0 +pycodestyle==2.11.1 +pyflakes==3.1.0 ruff==0.1.6 -typing_extensions==4.7.1 -zipp==3.15.0 diff --git a/lib/galaxy/dependencies/pinned-requirements.txt b/lib/galaxy/dependencies/pinned-requirements.txt index 40736329d368..4fc6225f005e 100644 --- a/lib/galaxy/dependencies/pinned-requirements.txt +++ b/lib/galaxy/dependencies/pinned-requirements.txt @@ -1,217 +1,216 @@ -a2wsgi==1.7.0 ; python_version >= "3.7" and python_version < "3.12" -adal==1.2.7 ; python_version >= "3.7" and python_version < "3.12" -aiobotocore==2.4.2 ; python_version >= "3.7" and python_version < "3.12" -aiodataloader==0.4.0 ; python_version >= "3.7" and python_version < "3.12" -aiofiles==23.2.1 ; python_version >= "3.7" and python_version < "3.12" -aiohttp==3.8.6 ; python_version >= "3.7" and python_version < "3.12" -aioitertools==0.11.0 ; python_version >= "3.7" and python_version < "3.12" -aiosignal==1.3.1 ; python_version >= "3.7" and python_version < "3.12" -alembic==1.12.1 ; python_version >= "3.7" and python_version < "3.12" -amqp==5.2.0 ; python_version >= "3.7" and python_version < "3.12" -aniso8601==9.0.1 ; python_version >= "3.7" and python_version < "3.12" -anyio==3.7.1 ; python_version >= "3.7" and python_version < "3.12" -apispec==6.3.0 ; python_version >= "3.7" and python_version < "3.12" -appdirs==1.4.4 ; python_version >= "3.7" and python_version < "3.12" -arcp==0.2.1 ; python_version >= "3.7" and python_version < "3.12" -argcomplete==3.1.2 ; python_version >= "3.7" and python_version < "3.12" -async-timeout==4.0.3 ; python_version >= "3.7" and python_version < "3.12" -asynctest==0.13.0 ; python_version >= "3.7" and python_version < "3.8" -attmap==0.13.2 ; python_version >= "3.7" and python_version < "3.12" -attrs==23.1.0 ; python_version >= "3.7" and python_version < "3.12" -babel==2.13.1 ; python_version >= "3.7" and python_version < "3.12" -backports-zoneinfo==0.2.1 ; python_version >= "3.7" and python_version < "3.9" -bagit-profile==1.3.1 ; python_version >= "3.7" and python_version < "3.12" -bagit==1.8.1 ; python_version >= "3.7" and python_version < "3.12" -bcrypt==4.0.1 ; python_version >= "3.7" and python_version < "3.12" -bdbag==1.7.1 ; python_version >= "3.7" and python_version < "3.12" -beaker==1.12.1 ; python_version >= "3.7" and python_version < "3.12" -billiard==3.6.4.0 ; python_version >= "3.7" and python_version < "3.12" -bioblend==1.2.0 ; python_version >= "3.7" and python_version < "3.12" -bleach==6.0.0 ; python_version >= "3.7" and python_version < "3.12" -boltons==23.1.1 ; python_version >= "3.7" and python_version < "3.12" -boto==2.49.0 ; python_version >= "3.7" and python_version < "3.12" -botocore==1.27.59 ; python_version >= "3.7" and python_version < "3.12" -bx-python==0.10.0 ; python_version >= "3.7" and python_version < "3.12" -cachecontrol[filecache]==0.13.1 ; python_version >= "3.7" and python_version < "3.12" -cached-property==1.5.2 ; python_version >= "3.7" and python_version < "3.8" -celery==5.2.7 ; python_version >= "3.7" and python_version < "3.12" -certifi==2023.11.17 ; python_version >= "3.7" and python_version < "3.12" -cffi==1.15.1 ; python_version >= "3.7" and python_version < "3.12" -charset-normalizer==3.3.2 ; python_version >= "3.7" and python_version < "3.12" -cheetah3==3.2.6.post1 ; python_version >= "3.7" and python_version < "3.12" -circus==0.18.0 ; python_version >= "3.7" and python_version < "3.12" -click-didyoumean==0.3.0 ; python_version >= "3.7" and python_version < "3.12" -click-plugins==1.1.1 ; python_version >= "3.7" and python_version < "3.12" -click-repl==0.3.0 ; python_version >= "3.7" and python_version < "3.12" -click==8.1.7 ; python_version >= "3.7" and python_version < "3.12" -cloudauthz==0.6.0 ; python_version >= "3.7" and python_version < "3.12" -cloudbridge==3.2.0 ; python_version >= "3.7" and python_version < "3.12" -colorama==0.4.6 ; python_version >= "3.7" and python_version < "3.12" and platform_system == "Windows" -coloredlogs==15.0.1 ; python_version >= "3.7" and python_version < "3.12" -conda-package-streaming==0.9.0 ; python_version >= "3.7" and python_version < "3.12" -cryptography==41.0.5 ; python_version >= "3.7" and python_version < "3.12" -cwl-upgrader==1.2.8 ; python_version >= "3.7" and python_version < "3.12" -cwl-utils==0.28 ; python_version >= "3.7" and python_version < "3.12" -cwltool==3.1.20221109155812 ; python_version >= "3.7" and python_version < "3.12" -decorator==5.1.1 ; python_version >= "3.7" and python_version < "3.12" -defusedxml==0.7.1 ; python_version >= "3.7" and python_version < "3.12" -deprecation==2.1.0 ; python_version >= "3.7" and python_version < "3.12" -dictobj==0.4 ; python_version >= "3.7" and python_version < "3.12" -dnspython==2.3.0 ; python_version >= "3.7" and python_version < "3.12" -docopt==0.6.2 ; python_version >= "3.7" and python_version < "3.12" -docutils==0.18.1 ; python_version >= "3.7" and python_version < "3.12" -dparse==0.6.3 ; python_version >= "3.7" and python_version < "3.12" -ecdsa==0.18.0 ; python_version >= "3.7" and python_version < "3.12" -edam-ontology==1.25.2 ; python_version >= "3.7" and python_version < "3.12" -email-validator==2.0.0.post2 ; python_version >= "3.7" and python_version < "3.12" -exceptiongroup==1.1.3 ; python_version >= "3.7" and python_version < "3.11" -fastapi-utils==0.2.1 ; python_version >= "3.7" and python_version < "3.12" -fastapi==0.98.0 ; python_version >= "3.7" and python_version < "3.12" -filelock==3.12.2 ; python_version >= "3.7" and python_version < "3.12" -frozenlist==1.3.3 ; python_version >= "3.7" and python_version < "3.12" -fs==2.4.16 ; python_version >= "3.7" and python_version < "3.12" -fsspec==2023.1.0 ; python_version >= "3.7" and python_version < "3.12" -future==0.18.3 ; python_version >= "3.7" and python_version < "3.12" -galaxy-sequence-utils==1.1.5 ; python_version >= "3.7" and python_version < "3.12" -galaxy2cwl==0.1.4 ; python_version >= "3.7" and python_version < "3.12" -graphene-sqlalchemy==3.0.0b3 ; python_version >= "3.7" and python_version < "3.12" -graphene==3.3 ; python_version >= "3.7" and python_version < "3.12" -graphql-core==3.2.3 ; python_version >= "3.7" and python_version < "3.12" -graphql-relay==3.2.0 ; python_version >= "3.7" and python_version < "3.12" -gravity==1.0.4 ; python_version >= "3.7" and python_version < "3.12" -greenlet==2.0.2 ; python_version >= "3.7" and (platform_machine == "aarch64" or platform_machine == "ppc64le" or platform_machine == "x86_64" or platform_machine == "amd64" or platform_machine == "AMD64" or platform_machine == "win32" or platform_machine == "WIN32") and python_version < "3.12" -gunicorn==21.2.0 ; python_version >= "3.7" and python_version < "3.12" -gxformat2==0.18.0 ; python_version >= "3.7" and python_version < "3.12" -h11==0.14.0 ; python_version >= "3.7" and python_version < "3.12" -h5grove==1.3.0 ; python_version >= "3.7" and python_version < "3.12" -h5py==3.8.0 ; python_version >= "3.7" and python_version < "3.12" -humanfriendly==10.0 ; python_version >= "3.7" and python_version < "3.12" -idna==3.4 ; python_version >= "3.7" and python_version < "3.12" -importlib-metadata==4.13.0 ; python_version >= "3.7" and python_version < "3.12" -importlib-resources==5.12.0 ; python_version >= "3.7" and python_version < "3.12" -isa-rwval==0.10.10 ; python_version >= "3.7" and python_version < "3.12" -isodate==0.6.1 ; python_version >= "3.7" and python_version < "3.12" -jinja2==3.1.2 ; python_version >= "3.7" and python_version < "3.12" -jmespath==1.0.1 ; python_version >= "3.7" and python_version < "3.12" -jsonref==1.1.0 ; python_version >= "3.7" and python_version < "3.12" -jsonschema==4.17.3 ; python_version >= "3.7" and python_version < "3.12" -kombu==5.2.4 ; python_version >= "3.7" and python_version < "3.12" -lagom==2.5.0 ; python_version >= "3.7" and python_version < "3.12" -lxml==4.9.3 ; python_version >= "3.7" and python_version < "3.12" -mako==1.2.4 ; python_version >= "3.7" and python_version < "3.12" -markdown-it-py==2.2.0 ; python_version >= "3.7" and python_version < "3.12" -markdown==3.4.4 ; python_version >= "3.7" and python_version < "3.12" -markupsafe==2.1.3 ; python_version >= "3.7" and python_version < "3.12" -mdurl==0.1.2 ; python_version >= "3.7" and python_version < "3.12" -mercurial==6.5.3 ; python_version >= "3.7" and python_version < "3.12" -mistune==2.0.5 ; python_version >= "3.7" and python_version < "3.12" -mrcfile==1.4.3 ; python_version >= "3.7" and python_version < "3.12" -msal==1.25.0 ; python_version >= "3.7" and python_version < "3.12" -msgpack==1.0.5 ; python_version >= "3.7" and python_version < "3.12" -multidict==6.0.4 ; python_version >= "3.7" and python_version < "3.12" -mypy-extensions==1.0.0 ; python_version >= "3.7" and python_version < "3.12" -networkx==2.5 ; python_version >= "3.7" and python_version < "3.12" -nodeenv==1.8.0 ; python_version >= "3.7" and python_version < "3.12" -numpy==1.21.6 ; python_version >= "3.7" and python_version < "3.8" +a2wsgi==1.8.0 ; python_version >= "3.8" and python_version < "3.12" +adal==1.2.7 ; python_version >= "3.8" and python_version < "3.12" +aiobotocore==2.7.0 ; python_version >= "3.8" and python_version < "3.12" +aiodataloader==0.4.0 ; python_version >= "3.8" and python_version < "3.12" +aiofiles==23.2.1 ; python_version >= "3.8" and python_version < "3.12" +aiohttp==3.9.0 ; python_version >= "3.8" and python_version < "3.12" +aioitertools==0.11.0 ; python_version >= "3.8" and python_version < "3.12" +aiosignal==1.3.1 ; python_version >= "3.8" and python_version < "3.12" +alembic==1.12.1 ; python_version >= "3.8" and python_version < "3.12" +amqp==5.2.0 ; python_version >= "3.8" and python_version < "3.12" +aniso8601==9.0.1 ; python_version >= "3.8" and python_version < "3.12" +anyio==4.1.0 ; python_version >= "3.8" and python_version < "3.12" +apispec==6.3.0 ; python_version >= "3.8" and python_version < "3.12" +appdirs==1.4.4 ; python_version >= "3.8" and python_version < "3.12" +arcp==0.2.1 ; python_version >= "3.8" and python_version < "3.12" +argcomplete==3.1.6 ; python_version >= "3.8" and python_version < "3.12" +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 < "3.12" +attrs==23.1.0 ; python_version >= "3.8" and python_version < "3.12" +babel==2.13.1 ; python_version >= "3.8" and python_version < "3.12" +backports-zoneinfo==0.2.1 ; python_version >= "3.8" and python_version < "3.9" +backports-zoneinfo[tzdata]==0.2.1 ; python_version >= "3.8" and python_version < "3.9" +bagit-profile==1.3.1 ; python_version >= "3.8" and python_version < "3.12" +bagit==1.8.1 ; python_version >= "3.8" and python_version < "3.12" +bcrypt==4.0.1 ; python_version >= "3.8" and python_version < "3.12" +bdbag==1.7.1 ; python_version >= "3.8" and python_version < "3.12" +beaker==1.12.1 ; python_version >= "3.8" and python_version < "3.12" +billiard==4.2.0 ; python_version >= "3.8" and python_version < "3.12" +bioblend==1.2.0 ; python_version >= "3.8" and python_version < "3.12" +bleach==6.1.0 ; python_version >= "3.8" and python_version < "3.12" +boltons==23.1.1 ; python_version >= "3.8" and python_version < "3.12" +boto==2.49.0 ; python_version >= "3.8" and python_version < "3.12" +botocore==1.31.64 ; python_version >= "3.8" and python_version < "3.12" +bx-python==0.10.0 ; python_version >= "3.8" and python_version < "3.12" +cachecontrol[filecache]==0.13.1 ; python_version >= "3.8" and python_version < "3.12" +celery==5.3.6 ; python_version >= "3.8" and python_version < "3.12" +certifi==2023.11.17 ; python_version >= "3.8" and python_version < "3.12" +cffi==1.16.0 ; python_version >= "3.8" and python_version < "3.12" +charset-normalizer==3.3.2 ; python_version >= "3.8" and python_version < "3.12" +cheetah3==3.2.6.post1 ; python_version >= "3.8" and python_version < "3.12" +circus==0.18.0 ; python_version >= "3.8" and python_version < "3.12" +click-didyoumean==0.3.0 ; python_version >= "3.8" and python_version < "3.12" +click-plugins==1.1.1 ; python_version >= "3.8" and python_version < "3.12" +click-repl==0.3.0 ; python_version >= "3.8" and python_version < "3.12" +click==8.1.7 ; python_version >= "3.8" and python_version < "3.12" +cloudauthz==0.6.0 ; python_version >= "3.8" and python_version < "3.12" +cloudbridge==3.2.0 ; python_version >= "3.8" and python_version < "3.12" +colorama==0.4.6 ; python_version >= "3.8" and python_version < "3.12" and platform_system == "Windows" +coloredlogs==15.0.1 ; python_version >= "3.8" and python_version < "3.12" +conda-package-streaming==0.9.0 ; python_version >= "3.8" and python_version < "3.12" +cryptography==41.0.5 ; python_version >= "3.8" and python_version < "3.12" +cwl-upgrader==1.2.10 ; python_version >= "3.8" and python_version < "3.12" +cwl-utils==0.31 ; python_version >= "3.8" and python_version < "3.12" +cwltool==3.1.20231114134824 ; python_version >= "3.8" and python_version < "3.12" +decorator==5.1.1 ; python_version >= "3.8" and python_version < "3.12" +defusedxml==0.7.1 ; python_version >= "3.8" and python_version < "3.12" +deprecation==2.1.0 ; python_version >= "3.8" and python_version < "3.12" +dictobj==0.4 ; python_version >= "3.8" and python_version < "3.12" +dnspython==2.4.2 ; python_version >= "3.8" and python_version < "3.12" +docopt==0.6.2 ; python_version >= "3.8" and python_version < "3.12" +docutils==0.18.1 ; python_version >= "3.8" and python_version < "3.12" +dparse==0.6.3 ; python_version >= "3.8" and python_version < "3.12" +ecdsa==0.18.0 ; python_version >= "3.8" and python_version < "3.12" +edam-ontology==1.25.2 ; python_version >= "3.8" and python_version < "3.12" +email-validator==2.1.0.post1 ; python_version >= "3.8" and python_version < "3.12" +exceptiongroup==1.2.0 ; python_version >= "3.8" and python_version < "3.11" +fastapi-utils==0.2.1 ; python_version >= "3.8" and python_version < "3.12" +fastapi==0.98.0 ; python_version >= "3.8" and python_version < "3.12" +filelock==3.13.1 ; python_version >= "3.8" and python_version < "3.12" +frozenlist==1.4.0 ; python_version >= "3.8" and python_version < "3.12" +fs==2.4.16 ; python_version >= "3.8" and python_version < "3.12" +fsspec==2023.10.0 ; python_version >= "3.8" and python_version < "3.12" +future==0.18.3 ; python_version >= "3.8" and python_version < "3.12" +galaxy-sequence-utils==1.1.5 ; python_version >= "3.8" and python_version < "3.12" +galaxy2cwl==0.1.4 ; python_version >= "3.8" and python_version < "3.12" +graphene-sqlalchemy==3.0.0b3 ; python_version >= "3.8" and python_version < "3.12" +graphene==3.3 ; python_version >= "3.8" and python_version < "3.12" +graphql-core==3.2.3 ; python_version >= "3.8" and python_version < "3.12" +graphql-relay==3.2.0 ; python_version >= "3.8" and python_version < "3.12" +gravity==1.0.4 ; python_version >= "3.8" and python_version < "3.12" +greenlet==3.0.1 ; python_version >= "3.8" and (platform_machine == "aarch64" or platform_machine == "ppc64le" or platform_machine == "x86_64" or platform_machine == "amd64" or platform_machine == "AMD64" or platform_machine == "win32" or platform_machine == "WIN32") and python_version < "3.12" +gunicorn==21.2.0 ; python_version >= "3.8" and python_version < "3.12" +gxformat2==0.18.0 ; python_version >= "3.8" and python_version < "3.12" +h11==0.14.0 ; python_version >= "3.8" and python_version < "3.12" +h5grove==1.3.0 ; python_version >= "3.8" and python_version < "3.12" +h5py==3.10.0 ; python_version >= "3.8" and python_version < "3.12" +humanfriendly==10.0 ; python_version >= "3.8" and python_version < "3.12" +idna==3.4 ; python_version >= "3.8" and python_version < "3.12" +importlib-metadata==6.8.0 ; python_version >= "3.8" and python_version < "3.12" +importlib-resources==6.1.1 ; python_version >= "3.8" and python_version < "3.12" +isa-rwval==0.10.10 ; python_version >= "3.8" and python_version < "3.12" +isodate==0.6.1 ; python_version >= "3.8" and python_version < "3.12" +jinja2==3.1.2 ; python_version >= "3.8" and python_version < "3.12" +jmespath==1.0.1 ; python_version >= "3.8" and python_version < "3.12" +jsonref==1.1.0 ; python_version >= "3.8" and python_version < "3.12" +jsonschema-specifications==2023.11.1 ; python_version >= "3.8" and python_version < "3.12" +jsonschema==4.20.0 ; python_version >= "3.8" and python_version < "3.12" +kombu==5.3.4 ; python_version >= "3.8" and python_version < "3.12" +lagom==2.6.0 ; python_version >= "3.8" and python_version < "3.12" +lxml==4.9.3 ; python_version >= "3.8" and python_version < "3.12" +mako==1.3.0 ; python_version >= "3.8" and python_version < "3.12" +markdown-it-py==3.0.0 ; python_version >= "3.8" and python_version < "3.12" +markdown==3.5.1 ; python_version >= "3.8" and python_version < "3.12" +markupsafe==2.1.3 ; python_version >= "3.8" and python_version < "3.12" +mdurl==0.1.2 ; python_version >= "3.8" and python_version < "3.12" +mercurial==6.6 ; python_version >= "3.8" and python_version < "3.12" +mistune==2.0.5 ; python_version >= "3.8" and python_version < "3.12" +mrcfile==1.4.3 ; python_version >= "3.8" and python_version < "3.12" +msal==1.25.0 ; python_version >= "3.8" and python_version < "3.12" +msgpack==1.0.7 ; python_version >= "3.8" and python_version < "3.12" +multidict==6.0.4 ; python_version >= "3.8" and python_version < "3.12" +mypy-extensions==1.0.0 ; python_version >= "3.8" and python_version < "3.12" +networkx==2.5 ; python_version >= "3.8" and python_version < "3.12" +nodeenv==1.8.0 ; python_version >= "3.8" and python_version < "3.12" numpy==1.24.4 ; python_version >= "3.8" and python_version < "3.9" numpy==1.26.2 ; python_version >= "3.9" and python_version < "3.12" -oauthlib==3.2.2 ; python_version >= "3.7" and python_version < "3.12" -orjson==3.9.7 ; python_version >= "3.7" and python_version < "3.12" -oyaml==1.0 ; python_version >= "3.7" and python_version < "3.12" -packaging==23.2 ; python_version >= "3.7" and python_version < "3.12" -paramiko==3.3.1 ; python_version >= "3.7" and python_version < "3.12" -parsley==1.3 ; python_version >= "3.7" and python_version < "3.12" -paste==3.7.1 ; python_version >= "3.7" and python_version < "3.12" -pastedeploy==3.0.1 ; python_version >= "3.7" and python_version < "3.12" -pebble==5.0.3 ; python_version >= "3.7" and python_version < "3.12" -pkgutil-resolve-name==1.3.10 ; python_version >= "3.7" and python_version < "3.9" -promise==2.3 ; python_version >= "3.7" and python_version < "3.12" -prompt-toolkit==3.0.41 ; python_version >= "3.7" and python_version < "3.12" -prov==1.5.1 ; python_version >= "3.7" and python_version < "3.12" -psutil==5.9.6 ; python_version >= "3.7" and python_version < "3.12" -pulsar-galaxy-lib==0.15.5 ; python_version >= "3.7" and python_version < "3.12" -pyasn1==0.5.0 ; python_version >= "3.7" and python_version < "3.12" -pycparser==2.21 ; python_version >= "3.7" and python_version < "3.12" -pycryptodome==3.19.0 ; python_version >= "3.7" and python_version < "3.12" -pydantic-tes==0.1.5 ; python_version >= "3.7" and python_version < "3.12" -pydantic==1.10.13 ; python_version >= "3.7" and python_version < "3.12" -pydantic[email]==1.10.13 ; python_version >= "3.7" and python_version < "3.12" -pydot==1.4.2 ; python_version >= "3.7" and python_version < "3.12" -pyeventsystem==0.1.0 ; python_version >= "3.7" and python_version < "3.12" -pyfaidx==0.7.2.2 ; python_version >= "3.7" and python_version < "3.12" -pygments==2.16.1 ; python_version >= "3.7" and python_version < "3.12" -pyjwt==2.8.0 ; python_version >= "3.7" and python_version < "3.12" -pyjwt[crypto]==2.8.0 ; python_version >= "3.7" and python_version < "3.12" -pykwalify==1.8.0 ; python_version >= "3.7" and python_version < "3.12" -pylibmagic==0.5.0 ; python_version >= "3.7" and python_version < "3.12" -pynacl==1.5.0 ; python_version >= "3.7" and python_version < "3.12" -pyparsing==3.0.9 ; python_version >= "3.7" and python_version < "3.12" +oauthlib==3.2.2 ; python_version >= "3.8" and python_version < "3.12" +orjson==3.9.10 ; python_version >= "3.8" and python_version < "3.12" +oyaml==1.0 ; python_version >= "3.8" and python_version < "3.12" +packaging==23.2 ; python_version >= "3.8" and python_version < "3.12" +paramiko==3.3.1 ; python_version >= "3.8" and python_version < "3.12" +parsley==1.3 ; python_version >= "3.8" and python_version < "3.12" +paste==3.7.1 ; python_version >= "3.8" and python_version < "3.12" +pastedeploy==3.1.0 ; python_version >= "3.8" and python_version < "3.12" +pebble==5.0.4 ; python_version >= "3.8" and python_version < "3.12" +pkgutil-resolve-name==1.3.10 ; python_version >= "3.8" and python_version < "3.9" +promise==2.3 ; python_version >= "3.8" and python_version < "3.12" +prompt-toolkit==3.0.41 ; python_version >= "3.8" and python_version < "3.12" +prov==1.5.1 ; python_version >= "3.8" and python_version < "3.12" +psutil==5.9.6 ; python_version >= "3.8" and python_version < "3.12" +pulsar-galaxy-lib==0.15.5 ; python_version >= "3.8" and python_version < "3.12" +pyasn1==0.5.1 ; python_version >= "3.8" and python_version < "3.12" +pycparser==2.21 ; python_version >= "3.8" and python_version < "3.12" +pycryptodome==3.19.0 ; python_version >= "3.8" and python_version < "3.12" +pydantic-tes==0.1.5 ; python_version >= "3.8" and python_version < "3.12" +pydantic==1.10.13 ; python_version >= "3.8" and python_version < "3.12" +pydantic[email]==1.10.13 ; python_version >= "3.8" and python_version < "3.12" +pydot==1.4.2 ; python_version >= "3.8" and python_version < "3.12" +pyeventsystem==0.1.0 ; python_version >= "3.8" and python_version < "3.12" +pyfaidx==0.7.2.2 ; python_version >= "3.8" and python_version < "3.12" +pygments==2.17.2 ; python_version >= "3.8" and python_version < "3.12" +pyjwt==2.8.0 ; python_version >= "3.8" and python_version < "3.12" +pyjwt[crypto]==2.8.0 ; python_version >= "3.8" and python_version < "3.12" +pykwalify==1.8.0 ; python_version >= "3.8" and python_version < "3.12" +pylibmagic==0.5.0 ; python_version >= "3.8" and python_version < "3.12" +pynacl==1.5.0 ; python_version >= "3.8" and python_version < "3.12" +pyparsing==3.1.1 ; python_version >= "3.8" and python_version < "3.12" pyreadline3==3.4.1 ; sys_platform == "win32" and python_version >= "3.8" and python_version < "3.12" -pyreadline==2.1 ; sys_platform == "win32" and python_version < "3.8" and python_version >= "3.7" -pyrsistent==0.19.3 ; python_version >= "3.7" and python_version < "3.12" -pysam==0.22.0 ; python_version >= "3.7" and python_version < "3.12" -python-dateutil==2.8.2 ; python_version >= "3.7" and python_version < "3.12" -python-jose==3.3.0 ; python_version >= "3.7" and python_version < "3.12" -python-magic==0.4.27 ; python_version >= "3.7" and python_version < "3.12" -python-multipart==0.0.6 ; python_version >= "3.7" and python_version < "3.12" -python3-openid==3.2.0 ; python_version >= "3.7" and python_version < "3.12" -pytz==2023.3.post1 ; python_version >= "3.7" and python_version < "3.12" -pyyaml==6.0.1 ; python_version >= "3.7" and python_version < "3.12" -pyzmq==25.1.1 ; python_version >= "3.7" and python_version < "3.12" -rdflib==6.2.0 ; python_version >= "3.7" and python_version < "3.12" -refgenconf==0.12.2 ; python_version >= "3.7" and python_version < "3.12" -regex==2023.10.3 ; python_version >= "3.7" and python_version < "3.12" -repoze-lru==0.7 ; python_version >= "3.7" and python_version < "3.12" -requests-oauthlib==1.3.1 ; python_version >= "3.7" and python_version < "3.12" -requests-toolbelt==1.0.0 ; python_version >= "3.7" and python_version < "3.12" -requests-unixsocket==0.3.0 ; python_version >= "3.7" and python_version < "3.12" -requests==2.31.0 ; python_version >= "3.7" and python_version < "3.12" -rich==13.7.0 ; python_version >= "3.7" and python_version < "3.12" -rocrate==0.9.0 ; python_version >= "3.7" and python_version < "3.12" -routes==2.5.1 ; python_version >= "3.7" and python_version < "3.12" -rsa==4.9 ; python_version >= "3.7" and python_version < "3.12" -ruamel-yaml-clib==0.2.8 ; platform_python_implementation == "CPython" and python_version < "3.11" and python_version >= "3.7" -ruamel-yaml==0.17.21 ; python_version >= "3.7" and python_version < "3.12" -s3fs==2023.1.0 ; python_version >= "3.7" and python_version < "3.12" -schema-salad==8.4.20230808163024 ; python_version >= "3.7" and python_version < "3.12" -setuptools-scm==5.0.2 ; python_version >= "3.7" and python_version < "3.12" -setuptools==68.0.0 ; python_version >= "3.7" and python_version < "3.12" -shellescape==3.8.1 ; python_version >= "3.7" and python_version < "3.12" -six==1.16.0 ; python_version >= "3.7" and python_version < "3.12" -sniffio==1.3.0 ; python_version >= "3.7" and python_version < "3.12" -social-auth-core[openidconnect]==4.0.3 ; python_version >= "3.7" and python_version < "3.12" -sortedcontainers==2.4.0 ; python_version >= "3.7" and python_version < "3.12" -sqlalchemy==1.4.50 ; python_version >= "3.7" and python_version < "3.12" -sqlitedict==2.1.0 ; python_version >= "3.7" and python_version < "3.12" -sqlparse==0.4.4 ; python_version >= "3.7" and python_version < "3.12" -starlette-context==0.3.5 ; python_version >= "3.7" and python_version < "3.12" -starlette-graphene3==0.6.0 ; python_version >= "3.7" and python_version < "3.12" -starlette==0.27.0 ; python_version >= "3.7" and python_version < "3.12" -supervisor==4.2.5 ; python_version >= "3.7" and python_version < "3.12" -svgwrite==1.4.3 ; python_version >= "3.7" and python_version < "3.12" -tenacity==8.2.3 ; python_version >= "3.7" and python_version < "3.12" -tifffile==2021.11.2 ; python_version >= "3.7" and python_version < "3.12" -tinydb==4.8.0 ; python_version >= "3.7" and python_version < "3.12" -tomli==2.0.1 ; python_version >= "3.7" and python_version < "3.11" -tornado==6.2 ; python_version >= "3.7" and python_version < "3.12" -tqdm==4.66.1 ; python_version >= "3.7" and python_version < "3.12" -tuspy==1.0.1 ; python_version >= "3.7" and python_version < "3.12" -tuswsgi==0.5.5 ; python_version >= "3.7" and python_version < "3.12" -typing-extensions==4.7.1 ; python_version >= "3.7" and python_version < "3.12" -tzdata==2023.3 ; python_version >= "3.7" and python_version < "3.12" and platform_system == "Windows" -tzlocal==5.1 ; python_version >= "3.7" and python_version < "3.12" -ubiquerg==0.6.3 ; python_version >= "3.7" and python_version < "3.12" -urllib3==1.26.18 ; python_version >= "3.7" and python_version < "3.12" -uvicorn==0.22.0 ; python_version >= "3.7" and python_version < "3.12" -uvloop==0.18.0 ; python_version >= "3.7" and python_version < "3.12" -vine==5.1.0 ; python_version >= "3.7" and python_version < "3.12" -wcwidth==0.2.10 ; python_version >= "3.7" and python_version < "3.12" -webencodings==0.5.1 ; python_version >= "3.7" and python_version < "3.12" -webob==1.8.7 ; python_version >= "3.7" and python_version < "3.12" -whoosh==2.7.4 ; python_version >= "3.7" and python_version < "3.12" -wrapt==1.16.0 ; python_version >= "3.7" and python_version < "3.12" -yacman==0.9.2 ; python_version >= "3.7" and python_version < "3.12" -yarl==1.9.2 ; python_version >= "3.7" and python_version < "3.12" -zipp==3.15.0 ; python_version >= "3.7" and python_version < "3.12" -zipstream-new==1.1.8 ; python_version >= "3.7" and python_version < "3.12" -zstandard==0.21.0 ; python_version >= "3.7" and python_version < "3.12" +pysam==0.22.0 ; python_version >= "3.8" and python_version < "3.12" +python-dateutil==2.8.2 ; python_version >= "3.8" and python_version < "3.12" +python-jose==3.3.0 ; python_version >= "3.8" and python_version < "3.12" +python-magic==0.4.27 ; python_version >= "3.8" and python_version < "3.12" +python-multipart==0.0.6 ; python_version >= "3.8" and python_version < "3.12" +python3-openid==3.2.0 ; python_version >= "3.8" and python_version < "3.12" +pytz==2023.3.post1 ; python_version >= "3.8" and python_version < "3.12" +pyyaml==6.0.1 ; python_version >= "3.8" and python_version < "3.12" +pyzmq==25.1.1 ; python_version >= "3.8" and python_version < "3.12" +rdflib==6.3.2 ; python_version >= "3.8" and python_version < "3.12" +referencing==0.31.0 ; python_version >= "3.8" and python_version < "3.12" +refgenconf==0.12.2 ; python_version >= "3.8" and python_version < "3.12" +regex==2023.10.3 ; python_version >= "3.8" and python_version < "3.12" +repoze-lru==0.7 ; python_version >= "3.8" and python_version < "3.12" +requests-oauthlib==1.3.1 ; python_version >= "3.8" and python_version < "3.12" +requests-toolbelt==1.0.0 ; python_version >= "3.8" and python_version < "3.12" +requests-unixsocket==0.3.0 ; python_version >= "3.8" and python_version < "3.12" +requests==2.31.0 ; python_version >= "3.8" and python_version < "3.12" +rich==13.7.0 ; python_version >= "3.8" and python_version < "3.12" +rocrate==0.9.0 ; python_version >= "3.8" and python_version < "3.12" +routes==2.5.1 ; python_version >= "3.8" and python_version < "3.12" +rpds-py==0.13.1 ; python_version >= "3.8" and python_version < "3.12" +rsa==4.9 ; python_version >= "3.8" and python_version < "3.12" +ruamel-yaml-clib==0.2.8 ; platform_python_implementation == "CPython" and python_version < "3.12" and python_version >= "3.8" +ruamel-yaml==0.18.5 ; python_version >= "3.8" and python_version < "3.12" +s3fs==2023.10.0 ; python_version >= "3.8" and python_version < "3.12" +schema-salad==8.4.20231117150958 ; python_version >= "3.8" and python_version < "3.12" +setuptools-scm==5.0.2 ; python_version >= "3.8" and python_version < "3.12" +setuptools==69.0.2 ; python_version >= "3.8" and python_version < "3.12" +shellescape==3.8.1 ; python_version >= "3.8" and python_version < "3.12" +six==1.16.0 ; python_version >= "3.8" and python_version < "3.12" +sniffio==1.3.0 ; python_version >= "3.8" and python_version < "3.12" +social-auth-core[openidconnect]==4.0.3 ; python_version >= "3.8" and python_version < "3.12" +sortedcontainers==2.4.0 ; python_version >= "3.8" and python_version < "3.12" +sqlalchemy==1.4.50 ; python_version >= "3.8" and python_version < "3.12" +sqlitedict==2.1.0 ; python_version >= "3.8" and python_version < "3.12" +sqlparse==0.4.4 ; python_version >= "3.8" and python_version < "3.12" +starlette-context==0.3.6 ; python_version >= "3.8" and python_version < "3.12" +starlette-graphene3==0.6.0 ; python_version >= "3.8" and python_version < "3.12" +starlette==0.27.0 ; python_version >= "3.8" and python_version < "3.12" +supervisor==4.2.5 ; python_version >= "3.8" and python_version < "3.12" +svgwrite==1.4.3 ; python_version >= "3.8" and python_version < "3.12" +tenacity==8.2.3 ; python_version >= "3.8" and python_version < "3.12" +tifffile==2023.7.10 ; python_version >= "3.8" and python_version < "3.12" +tinydb==4.8.0 ; python_version >= "3.8" and python_version < "3.12" +tomli==2.0.1 ; python_version >= "3.8" and python_version < "3.11" +tornado==6.3.3 ; python_version >= "3.8" and python_version < "3.12" +tqdm==4.66.1 ; python_version >= "3.8" and python_version < "3.12" +tuspy==1.0.1 ; python_version >= "3.8" and python_version < "3.12" +tuswsgi==0.5.5 ; python_version >= "3.8" and python_version < "3.12" +typing-extensions==4.8.0 ; python_version >= "3.8" and python_version < "3.12" +tzdata==2023.3 ; python_version >= "3.8" and python_version < "3.12" +tzlocal==5.2 ; python_version >= "3.8" and python_version < "3.12" +ubiquerg==0.6.3 ; python_version >= "3.8" and python_version < "3.12" +urllib3==1.26.18 ; python_version >= "3.8" and python_version < "3.12" +uvicorn==0.24.0.post1 ; python_version >= "3.8" and python_version < "3.12" +uvloop==0.19.0 ; python_version >= "3.8" and python_version < "3.12" +vine==5.1.0 ; python_version >= "3.8" and python_version < "3.12" +wcwidth==0.2.12 ; python_version >= "3.8" and python_version < "3.12" +webencodings==0.5.1 ; python_version >= "3.8" and python_version < "3.12" +webob==1.8.7 ; python_version >= "3.8" and python_version < "3.12" +whoosh==2.7.4 ; python_version >= "3.8" and python_version < "3.12" +wrapt==1.16.0 ; python_version >= "3.8" and python_version < "3.12" +yacman==0.9.2 ; python_version >= "3.8" and python_version < "3.12" +yarl==1.9.3 ; python_version >= "3.8" and python_version < "3.12" +zipp==3.17.0 ; python_version >= "3.8" and python_version < "3.12" +zipstream-new==1.1.8 ; python_version >= "3.8" and python_version < "3.12" +zstandard==0.22.0 ; python_version >= "3.8" and python_version < "3.12" diff --git a/lib/galaxy/dependencies/pinned-typecheck-requirements.txt b/lib/galaxy/dependencies/pinned-typecheck-requirements.txt index 2960e4a5427a..01ec61acafa8 100644 --- a/lib/galaxy/dependencies/pinned-typecheck-requirements.txt +++ b/lib/galaxy/dependencies/pinned-typecheck-requirements.txt @@ -1,22 +1,22 @@ -cffi==1.15.1 ; python_version >= "3.7" and python_version < "3.12" -cryptography==41.0.5 ; python_version >= "3.7" and python_version < "3.12" -mypy-extensions==1.0.0 ; python_version >= "3.7" and python_version < "3.12" -mypy==1.4.1 ; python_version >= "3.7" and python_version < "3.12" -pycparser==2.21 ; python_version >= "3.7" and python_version < "3.12" -pydantic==1.10.13 ; python_version >= "3.7" and python_version < "3.12" -tomli==2.0.1 ; python_version >= "3.7" and python_version < "3.11" -typed-ast==1.5.5 ; python_version >= "3.7" and python_version < "3.8" -types-bleach==6.1.0.1 ; python_version >= "3.7" and python_version < "3.12" -types-boto==2.49.18.9 ; python_version >= "3.7" and python_version < "3.12" -types-contextvars==2.4.7.3 ; python_version >= "3.7" and python_version < "3.12" -types-dataclasses==0.6.6 ; python_version >= "3.7" and python_version < "3.12" -types-docutils==0.20.0.3 ; python_version >= "3.7" and python_version < "3.12" -types-markdown==3.5.0.3 ; python_version >= "3.7" and python_version < "3.12" -types-paramiko==3.3.0.0 ; python_version >= "3.7" and python_version < "3.12" -types-pkg-resources==0.1.3 ; python_version >= "3.7" and python_version < "3.12" -types-python-dateutil==2.8.19.14 ; python_version >= "3.7" and python_version < "3.12" -types-pyyaml==6.0.12.12 ; python_version >= "3.7" and python_version < "3.12" -types-requests==2.31.0.6 ; python_version >= "3.7" and python_version < "3.12" -types-six==1.16.21.9 ; python_version >= "3.7" and python_version < "3.12" -types-urllib3==1.26.25.14 ; python_version >= "3.7" and python_version < "3.12" -typing-extensions==4.7.1 ; python_version >= "3.7" and python_version < "3.12" +cffi==1.16.0 ; python_version >= "3.8" and python_version < "3.12" +cryptography==41.0.5 ; python_version >= "3.8" and python_version < "3.12" +lxml-stubs==0.4.0 ; python_version >= "3.8" and python_version < "3.12" +mypy-extensions==1.0.0 ; python_version >= "3.8" and python_version < "3.12" +mypy==1.7.1 ; python_version >= "3.8" and python_version < "3.12" +pycparser==2.21 ; python_version >= "3.8" and python_version < "3.12" +pydantic==1.10.13 ; python_version >= "3.8" and python_version < "3.12" +tomli==2.0.1 ; python_version >= "3.8" and python_version < "3.11" +types-bleach==6.1.0.1 ; python_version >= "3.8" and python_version < "3.12" +types-boto==2.49.18.9 ; python_version >= "3.8" and python_version < "3.12" +types-contextvars==2.4.7.3 ; python_version >= "3.8" and python_version < "3.12" +types-dataclasses==0.6.6 ; python_version >= "3.8" and python_version < "3.12" +types-docutils==0.20.0.3 ; python_version >= "3.8" and python_version < "3.12" +types-markdown==3.5.0.3 ; python_version >= "3.8" and python_version < "3.12" +types-paramiko==3.3.0.1 ; python_version >= "3.8" and python_version < "3.12" +types-pkg-resources==0.1.3 ; python_version >= "3.8" and python_version < "3.12" +types-python-dateutil==2.8.19.14 ; python_version >= "3.8" and python_version < "3.12" +types-pyyaml==6.0.12.12 ; python_version >= "3.8" and python_version < "3.12" +types-requests==2.31.0.6 ; python_version >= "3.8" and python_version < "3.12" +types-six==1.16.21.9 ; python_version >= "3.8" and python_version < "3.12" +types-urllib3==1.26.25.14 ; python_version >= "3.8" and python_version < "3.12" +typing-extensions==4.8.0 ; python_version >= "3.8" and python_version < "3.12"