diff --git a/lib/galaxy/dependencies/dev-requirements.txt b/lib/galaxy/dependencies/dev-requirements.txt index 36a001dc59ed..07382f69027f 100644 --- a/lib/galaxy/dependencies/dev-requirements.txt +++ b/lib/galaxy/dependencies/dev-requirements.txt @@ -16,7 +16,7 @@ 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==2023.7.22 ; 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" @@ -64,7 +64,7 @@ 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" -matplotlib==3.8.1 ; python_version >= "3.9" and python_version < "3.12" +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" @@ -76,7 +76,7 @@ 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" numpy==1.24.4 ; python_version >= "3.8" and python_version < "3.9" -numpy==1.26.1 ; python_version >= "3.9" and python_version < "3.12" +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" @@ -88,7 +88,7 @@ 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==3.0.40 ; 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" @@ -125,7 +125,7 @@ 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==13.6.0 ; 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" @@ -167,7 +167,7 @@ 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==0.2.9 ; 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" diff --git a/lib/galaxy/dependencies/pinned-lint-requirements.txt b/lib/galaxy/dependencies/pinned-lint-requirements.txt index a9ca39ccec92..6958b57997aa 100644 --- a/lib/galaxy/dependencies/pinned-lint-requirements.txt +++ b/lib/galaxy/dependencies/pinned-lint-requirements.txt @@ -5,6 +5,6 @@ importlib-metadata==4.2.0 mccabe==0.7.0 pycodestyle==2.9.1 pyflakes==2.5.0 -ruff==0.1.5 +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 ee536b39ca33..40736329d368 100644 --- a/lib/galaxy/dependencies/pinned-requirements.txt +++ b/lib/galaxy/dependencies/pinned-requirements.txt @@ -35,7 +35,7 @@ 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==2023.7.22 ; 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" @@ -114,7 +114,7 @@ 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" numpy==1.24.4 ; python_version >= "3.8" and python_version < "3.9" -numpy==1.26.1 ; python_version >= "3.9" and python_version < "3.12" +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" @@ -126,7 +126,7 @@ 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==3.0.40 ; 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" @@ -166,7 +166,7 @@ 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==13.6.0 ; 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" @@ -205,7 +205,7 @@ 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==0.2.9 ; 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" diff --git a/lib/galaxy/dependencies/pinned-typecheck-requirements.txt b/lib/galaxy/dependencies/pinned-typecheck-requirements.txt index 3982ee5349c6..2960e4a5427a 100644 --- a/lib/galaxy/dependencies/pinned-typecheck-requirements.txt +++ b/lib/galaxy/dependencies/pinned-typecheck-requirements.txt @@ -11,7 +11,7 @@ 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==3.5.0.1 ; 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"