diff --git a/lib/galaxy/dependencies/dev-requirements.txt b/lib/galaxy/dependencies/dev-requirements.txt index 07382f69027f..52ed8a5e480e 100644 --- a/lib/galaxy/dependencies/dev-requirements.txt +++ b/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" diff --git a/lib/galaxy/dependencies/pinned-requirements.txt b/lib/galaxy/dependencies/pinned-requirements.txt index 40736329d368..d0c127d7b1b4 100644 --- a/lib/galaxy/dependencies/pinned-requirements.txt +++ b/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" diff --git a/lib/galaxy/dependencies/pinned-typecheck-requirements.txt b/lib/galaxy/dependencies/pinned-typecheck-requirements.txt index 2960e4a5427a..a898a0a2c2a1 100644 --- a/lib/galaxy/dependencies/pinned-typecheck-requirements.txt +++ b/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"