diff --git a/lib/galaxy/dependencies/dev-requirements.txt b/lib/galaxy/dependencies/dev-requirements.txt index 6f5be35b08b..c1318d40ec7 100644 --- a/lib/galaxy/dependencies/dev-requirements.txt +++ b/lib/galaxy/dependencies/dev-requirements.txt @@ -35,9 +35,9 @@ bx-python==0.8.13; python_version >= "3.7" cachecontrol==0.12.11; python_version >= "3.6" and python_version < "4" cached-property==1.5.2; python_version < "3.8" and python_version >= "3.7" celery==5.2.7; python_version >= "3.7" -certifi==2022.6.15; python_version >= "3.7" and python_full_version < "3.0.0" and python_version < "4" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") or python_full_version >= "3.6.0" and python_version < "4" and python_version >= "3.7" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") +certifi==2022.6.15; python_version >= "3.7" and python_full_version < "3.0.0" and python_version < "4" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") or python_full_version >= "3.5.0" and python_version < "4" and python_version >= "3.7" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") cffi==1.15.1 -charset-normalizer==2.1.0; python_version >= "3.7" and python_version < "4" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") and python_full_version >= "3.6.0" +charset-normalizer==2.1.1; python_version >= "3.7" and python_version < "4" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") and python_full_version >= "3.6.0" cheetah3==3.2.6.post1; (python_version >= "2.7" and python_full_version < "3.0.0") or (python_full_version >= "3.4.0") circus==0.17.1 click-didyoumean==0.3.0; python_full_version >= "3.6.2" and python_full_version < "4.0.0" and python_version >= "3.7" @@ -45,12 +45,12 @@ click-plugins==1.1.1; python_version >= "3.7" click-repl==0.2.0; python_version >= "3.7" click==8.1.3; python_version >= "3.7" and python_full_version >= "3.6.2" and python_full_version < "4.0.0" cloudauthz==0.6.0 -cloudbridge==3.0.0 +cloudbridge==3.1.0 colorama==0.4.5; sys_platform == "win32" and python_version >= "3.7" and python_full_version >= "3.6.2" and platform_system == "Windows" and (python_version >= "2.7" and python_full_version < "3.0.0" and platform_system == "Windows" or python_full_version >= "3.5.0" and platform_system == "Windows") and (python_version >= "3.7" and python_full_version < "3.0.0" and sys_platform == "win32" or sys_platform == "win32" and python_version >= "3.7" and python_full_version >= "3.5.0") and (python_version >= "3.6" and python_full_version < "3.0.0" and sys_platform == "win32" and (python_version >= "3.6" and python_full_version < "3.0.0" or python_full_version >= "3.4.0" and python_version >= "3.6") or sys_platform == "win32" and python_version >= "3.6" and (python_version >= "3.6" and python_full_version < "3.0.0" or python_full_version >= "3.4.0" and python_version >= "3.6") and python_full_version >= "3.5.0") coloredlogs==15.0.1; python_version >= "3.6" and python_full_version < "3.0.0" and python_version < "4" or python_version >= "3.6" and python_version < "4" and python_full_version >= "3.5.0" commonmark==0.9.1; python_full_version >= "3.6.3" and python_full_version < "4.0.0" -coverage==6.4.3; python_version >= "3.7" -cryptography==37.0.4; python_version >= "3.7" and python_full_version < "3.0.0" and python_version < "4" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") or python_full_version >= "3.6.0" and python_version < "4" and python_version >= "3.7" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") +coverage==6.4.4; python_version >= "3.7" +cryptography==37.0.4; python_version >= "3.6" cwltest==2.2.20210901154959; python_version >= "3.6" and python_version < "4" cwltool==3.1.20211107152837; python_version >= "3.6" and python_version < "4" cycler==0.11.0; python_version >= "3.7" @@ -65,9 +65,9 @@ docutils==0.16; (python_version >= "2.7" and python_full_version < "3.0.0") or ( ecdsa==0.18.0; python_version >= "2.6" and python_full_version < "3.0.0" or python_full_version >= "3.3.0" edam-ontology==1.25.2 fastapi-utils==0.2.1; python_version >= "3.6" and python_version < "4.0" -fastapi==0.79.0; python_full_version >= "3.6.1" +fastapi==0.79.1; python_full_version >= "3.6.1" fluent-logger==0.10.0; python_version >= "3.5" -fonttools==4.34.4; python_version >= "3.7" +fonttools==4.36.0; python_version >= "3.7" frozenlist==1.3.1; python_version >= "3.7" fs==2.4.16 funcsigs==1.0.2 @@ -82,7 +82,7 @@ h5py==3.7.0; python_version >= "3.7" httpcore==0.15.0; python_version >= "3.7" httpx==0.23.0; python_version >= "3.7" humanfriendly==10.0; python_version >= "3.6" and python_full_version < "3.0.0" and python_version < "4" or python_version >= "3.6" and python_version < "4" and python_full_version >= "3.5.0" -idna==3.3; python_version >= "3.7" and python_version < "4" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") and (python_version >= "3.7" and python_full_version < "3.0.0" and python_version < "4" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") or python_full_version >= "3.6.0" and python_version < "4" and python_version >= "3.7" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4")) and python_full_version >= "3.6.2" +idna==3.3; python_version >= "3.7" and python_version < "4" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") and python_full_version >= "3.6.2" imagesize==1.4.1; python_version >= "3.6" and python_full_version < "3.0.0" or python_full_version >= "3.4.0" and python_version >= "3.6" importlib-metadata==4.12.0; python_version == "3.7" and (python_version >= "3.7" and python_full_version < "3.0.0" and python_version < "3.8" or python_full_version >= "3.6.0" and python_version < "3.8" and python_version >= "3.7") and python_full_version >= "3.6.2" and (python_version >= "3.6" and python_full_version < "3.0.0" or python_full_version >= "3.4.0" and python_version >= "3.6") importlib-resources==5.9.0; python_version >= "3.7" @@ -92,7 +92,7 @@ isodate==0.6.1; python_version >= "3.7" and python_version < "4" isort==5.10.1; python_full_version >= "3.6.1" and python_version < "4.0" jinja2==3.1.2; python_version >= "3.7" and python_full_version < "3.0.0" or python_full_version >= "3.4.0" and python_version >= "3.7" jsonref==0.2; python_version >= "3.6" -jsonschema==4.9.1; python_version >= "3.7" +jsonschema==4.13.0; python_version >= "3.7" junit-xml==1.9; python_version >= "3.6" and python_version < "4" kiwisolver==1.4.4; python_version >= "3.7" kombu==5.2.4; python_version >= "3.7" @@ -122,7 +122,7 @@ oyaml==1.0 packaging==21.3; python_version >= "3.7" and python_full_version < "3.0.0" or python_full_version >= "3.4.0" and python_version >= "3.7" paramiko==2.11.0 parsley==1.3 -paste==3.5.1 +paste==3.5.2 pastedeploy==2.1.1 pathspec==0.9.0; python_full_version >= "3.6.2" and python_version >= "3.7" pbr==5.10.0; python_version >= "2.6" @@ -146,12 +146,11 @@ pydot==1.4.2; python_version >= "3.6" and python_full_version < "3.0.0" and pyth pyeventsystem==0.1.0 pyfaidx==0.7.1 pygithub==1.55; python_version >= "3.6" -pygments==2.12.0; python_full_version >= "3.6.3" and python_full_version < "4.0.0" and python_version >= "3.6" and (python_version >= "3.6" and python_full_version < "3.0.0" or python_full_version >= "3.4.0" and python_version >= "3.6") +pygments==2.13.0; python_full_version >= "3.6.3" and python_full_version < "4.0.0" and python_version >= "3.6" and (python_version >= "3.6" and python_full_version < "3.0.0" or python_full_version >= "3.4.0" and python_version >= "3.6") pyjwt==2.4.0; python_version >= "3.6" pykwalify==1.8.0 pylibmagic==0.2.1; python_version >= "3.7" pynacl==1.5.0; python_version >= "3.6" -pyopenssl==22.0.0; python_version >= "3.7" and python_full_version < "3.0.0" and python_version < "4" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") or python_full_version >= "3.6.0" and python_version < "4" and python_version >= "3.7" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") pyparsing==3.0.9; python_full_version >= "3.6.8" pyreadline3==3.4.1; sys_platform == "win32" and python_version >= "3.8" and (python_version >= "3.6" and python_full_version < "3.0.0" and python_version < "4" or python_version >= "3.6" and python_version < "4" and python_full_version >= "3.5.0") pyreadline==2.1; sys_platform == "win32" and python_version < "3.8" and (python_version >= "3.6" and python_full_version < "3.0.0" and python_version < "4" or python_version >= "3.6" and python_version < "4" and python_full_version >= "3.5.0") @@ -193,7 +192,7 @@ ruamel.yaml.clib==0.2.6 ruamel.yaml==0.17.17 schema-salad==8.3.20220801194920; python_version >= "3.6" scipy==1.7.3; python_version >= "3.7" and python_version < "3.11" -selenium==4.4.0; python_version >= "3.7" and python_version < "4.0" +selenium==4.4.3; python_version >= "3.7" and python_version < "4.0" setuptools-scm==5.0.2; python_version >= "3.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4" and python_version >= "3.7" shellescape==3.8.1; python_version >= "3.6" and python_version < "4" six==1.16.0; python_version >= "3.7" and python_full_version < "3.0.0" and python_version < "4" or python_full_version >= "3.3.0" and python_version >= "3.7" and python_version < "4" diff --git a/lib/galaxy/dependencies/pinned-lint-requirements.txt b/lib/galaxy/dependencies/pinned-lint-requirements.txt index e05372f1c56..edae394749a 100644 --- a/lib/galaxy/dependencies/pinned-lint-requirements.txt +++ b/lib/galaxy/dependencies/pinned-lint-requirements.txt @@ -12,7 +12,7 @@ typed-ast==1.5.4 types-bleach==5.0.3 types-boto==2.49.17 types-contextvars==2.4.7 -types-cryptography==3.3.21 +types-cryptography==3.3.22 types-dataclasses==0.6.6 types-docutils==0.19.0 types-Markdown==3.4.0 @@ -20,8 +20,8 @@ types-paramiko==2.11.3 types-pkg-resources==0.1.3 types-python-dateutil==2.8.19 types-PyYAML==6.0.11 -types-requests==2.28.8 +types-requests==2.28.9 types-six==1.16.18 -types-urllib3==1.26.22 +types-urllib3==1.26.23 typing_extensions==4.3.0 zipp==3.8.1 diff --git a/lib/galaxy/dependencies/pinned-requirements.txt b/lib/galaxy/dependencies/pinned-requirements.txt index 725cb7a90b7..a6fd60e43c7 100644 --- a/lib/galaxy/dependencies/pinned-requirements.txt +++ b/lib/galaxy/dependencies/pinned-requirements.txt @@ -30,9 +30,9 @@ bx-python==0.8.13; python_version >= "3.7" cachecontrol==0.12.11; python_version >= "3.6" and python_version < "4" cached-property==1.5.2; python_version < "3.8" and python_version >= "3.7" celery==5.2.7; python_version >= "3.7" -certifi==2022.6.15; python_version >= "3.7" and python_full_version < "3.0.0" and python_version < "4" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") or python_full_version >= "3.6.0" and python_version < "4" and python_version >= "3.7" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") +certifi==2022.6.15; python_version >= "3.7" and python_full_version < "3.0.0" and python_version < "4" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") or python_full_version >= "3.5.0" and python_version < "4" and python_version >= "3.7" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") cffi==1.15.1; implementation_name == "pypy" and python_version >= "3.6" -charset-normalizer==2.1.0; python_version >= "3.7" and python_version < "4" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") and python_full_version >= "3.6.0" +charset-normalizer==2.1.1; python_version >= "3.7" and python_version < "4" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") and python_full_version >= "3.6.0" cheetah3==3.2.6.post1; (python_version >= "2.7" and python_full_version < "3.0.0") or (python_full_version >= "3.4.0") circus==0.17.1 click-didyoumean==0.3.0; python_full_version >= "3.6.2" and python_full_version < "4.0.0" and python_version >= "3.7" @@ -40,11 +40,11 @@ click-plugins==1.1.1; python_version >= "3.7" click-repl==0.2.0; python_version >= "3.7" click==8.1.3; python_full_version >= "3.6.2" and python_full_version < "4.0.0" and python_version >= "3.7" cloudauthz==0.6.0 -cloudbridge==3.0.0 +cloudbridge==3.1.0 colorama==0.4.5; python_version >= "3.7" and python_full_version < "3.0.0" and platform_system == "Windows" or platform_system == "Windows" and python_version >= "3.7" and python_full_version >= "3.5.0" coloredlogs==15.0.1; python_version >= "3.6" and python_full_version < "3.0.0" and python_version < "4" or python_version >= "3.6" and python_version < "4" and python_full_version >= "3.5.0" commonmark==0.9.1; python_full_version >= "3.6.3" and python_full_version < "4.0.0" -cryptography==37.0.4; python_version >= "3.7" and python_full_version < "3.0.0" and python_version < "4" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") or python_full_version >= "3.6.0" and python_version < "4" and python_version >= "3.7" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") +cryptography==37.0.4; python_version >= "3.6" cwltool==3.1.20211107152837; python_version >= "3.6" and python_version < "4" decorator==5.1.1; python_version >= "3.6" and python_version < "4" defusedxml==0.7.1; python_version >= "3.0" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version >= "3.0" @@ -55,7 +55,7 @@ docutils==0.16; (python_version >= "2.7" and python_full_version < "3.0.0") or ( ecdsa==0.18.0; python_version >= "2.6" and python_full_version < "3.0.0" or python_full_version >= "3.3.0" edam-ontology==1.25.2 fastapi-utils==0.2.1; python_version >= "3.6" and python_version < "4.0" -fastapi==0.79.0; python_full_version >= "3.6.1" +fastapi==0.79.1; python_full_version >= "3.6.1" frozenlist==1.3.1; python_version >= "3.7" fs==2.4.16 funcsigs==1.0.2 @@ -68,13 +68,13 @@ gxformat2==0.15.0 h11==0.12.0; python_version >= "3.7" h5py==3.7.0; python_version >= "3.7" humanfriendly==10.0; python_version >= "3.6" and python_full_version < "3.0.0" and python_version < "4" or python_version >= "3.6" and python_version < "4" and python_full_version >= "3.5.0" -idna==3.3; python_version >= "3.7" and python_version < "4" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") and (python_version >= "3.7" and python_full_version < "3.0.0" and python_version < "4" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") or python_full_version >= "3.6.0" and python_version < "4" and python_version >= "3.7" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4")) and python_full_version >= "3.6.2" +idna==3.3; python_version >= "3.7" and python_version < "4" and (python_version >= "2.7" and python_full_version < "3.0.0" or python_full_version >= "3.5.0" and python_version < "4") and python_full_version >= "3.6.2" importlib-metadata==4.12.0; python_version == "3.7" and (python_version >= "3.7" and python_full_version < "3.0.0" and python_version < "3.8" or python_full_version >= "3.6.0" and python_version < "3.8" and python_version >= "3.7") importlib-resources==5.9.0; python_version >= "3.7" isa-rwval==0.10.10 isodate==0.6.1; python_version >= "3.7" and python_version < "4" jsonref==0.2; python_version >= "3.6" -jsonschema==4.9.1; python_version >= "3.7" +jsonschema==4.13.0; python_version >= "3.7" kombu==5.2.4; python_version >= "3.7" lagom==1.7.1; python_version >= "3.6" and python_version < "4.0" lockfile==0.12.2; python_version >= "3.6" and python_version < "4" @@ -97,7 +97,7 @@ oyaml==1.0 packaging==21.3; python_version >= "3.6" paramiko==2.11.0 parsley==1.3 -paste==3.5.1 +paste==3.5.2 pastedeploy==2.1.1 pbr==5.10.0; python_version >= "2.6" pebble==4.6.3 @@ -114,7 +114,7 @@ pydantic==1.9.2; python_full_version >= "3.6.1" pydot==1.4.2; python_version >= "3.6" and python_full_version < "3.0.0" and python_version < "4" or python_version >= "3.6" and python_version < "4" and python_full_version >= "3.4.0" pyeventsystem==0.1.0 pyfaidx==0.7.1 -pygments==2.12.0; python_full_version >= "3.6.3" and python_full_version < "4.0.0" and python_version >= "3.6" +pygments==2.13.0; python_full_version >= "3.6.3" and python_full_version < "4.0.0" and python_version >= "3.6" pyjwt==2.4.0; python_version >= "3.6" pykwalify==1.8.0 pylibmagic==0.2.1; python_version >= "3.7"