Merge pull request galaxyproject#17084 from galaxybot/dev_auto_update…

…_dependencies

Update Python dependencies

lib/galaxy/dependencies/dev-requirements.txt

@@ -33,7 +33,7 @@ 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"
+exceptiongroup==1.2.0 ; 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"
@@ -44,7 +44,7 @@ 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"
+idna==3.5 ; 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"
@@ -63,7 +63,7 @@ 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"
+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"
@@ -94,7 +94,7 @@ 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"
+pygments==2.17.2 ; 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"
@@ -131,7 +131,7 @@ 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"
 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"
+scipy==1.11.4 ; 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"
@@ -167,10 +167,10 @@ 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"
+wcwidth==0.2.12 ; 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"
+yarl==1.9.3 ; python_version >= "3.7" and python_version < "3.12"
 zipp==3.15.0 ; python_version >= "3.7" and python_version < "3.12"

lib/galaxy/dependencies/pinned-requirements.txt

@@ -64,7 +64,7 @@ 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"
+exceptiongroup==1.2.0 ; 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"
@@ -86,7 +86,7 @@ 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"
+idna==3.5 ; 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"
@@ -96,14 +96,14 @@ 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"
+lagom==2.6.0 ; 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"
+mercurial==6.6 ; 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"
@@ -122,15 +122,15 @@ 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"
+pastedeploy==3.1.0 ; python_version >= "3.7" and python_version < "3.12"
+pebble==5.0.4 ; 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"
+pyasn1==0.5.1 ; 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"
@@ -139,7 +139,7 @@ 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"
+pygments==2.17.2 ; 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"
@@ -205,13 +205,13 @@ 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"
+wcwidth==0.2.12 ; 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"
+yarl==1.9.3 ; 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"

lib/galaxy/dependencies/pinned-typecheck-requirements.txt

@@ -12,7 +12,7 @@ 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-paramiko==3.3.0.2 ; 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"