Update Python dependencies

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"

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

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"