Test under Python 3.13

N.B.: Don't bump maximum python version for `ruamel-yaml-clib==0.2.8`
as this comes from ruamel-yaml 0.18.6:
https://sourceforge.net/p/ruamel-yaml/code/ci/default/tree/__init__.py#l17

.github/workflows/first_startup.yaml

@@ -23,7 +23,7 @@ jobs:
     strategy:
       fail-fast: false
       matrix:
-        python-version: ['3.8', '3.12']
+        python-version: ['3.8', '3.13']
     defaults:
       run:
         shell: bash -l {0}

.github/workflows/lint.yaml

@@ -22,7 +22,7 @@ jobs:
     strategy:
       fail-fast: false
       matrix:
-        python-version: ['3.8', '3.12']
+        python-version: ['3.8', '3.13']
     env:
       LINT_PATH: 'lib/galaxy/dependencies/pinned-lint-requirements.txt'
       TYPE_PATH: 'lib/galaxy/dependencies/pinned-typecheck-requirements.txt'

.github/workflows/lint_openapi_schema.yml

@@ -20,7 +20,7 @@ jobs:
     strategy:
       fail-fast: false
       matrix:
-        python-version: ['3.8', '3.12']
+        python-version: ['3.8', '3.13']
     steps:
       - uses: actions/checkout@v4
         with:

.github/workflows/osx_startup.yaml

@@ -21,7 +21,7 @@ jobs:
     strategy:
       fail-fast: false
       matrix:
-        python-version: ['3.8', '3.12']
+        python-version: ['3.8', '3.13']
     defaults:
       run:
         shell: bash -l {0}

.github/workflows/reports_startup.yaml

@@ -18,7 +18,7 @@ jobs:
     strategy:
       fail-fast: false
       matrix:
-        python-version: ['3.8', '3.12']
+        python-version: ['3.8', '3.13']
     defaults:
       run:
         shell: bash -l {0}

.github/workflows/test_galaxy_packages.yaml

@@ -18,7 +18,7 @@ jobs:
     strategy:
       fail-fast: false
       matrix:
-        python-version: ['3.8', '3.12']
+        python-version: ['3.8', '3.13']
     steps:
       - uses: actions/checkout@v4
         with:

.github/workflows/toolshed.yaml

@@ -21,7 +21,7 @@ jobs:
     strategy:
       fail-fast: false
       matrix:
-        python-version: ['3.8', '3.12']
+        python-version: ['3.8', '3.13']
         shed-api: ['v1', 'v2']
         test-install-client: ['galaxy_api', 'standalone']
     services:

.github/workflows/unit.yaml

@@ -20,7 +20,7 @@ jobs:
     strategy:
       fail-fast: false
       matrix:
-        python-version: ['3.8', '3.12']
+        python-version: ['3.8', '3.13']
     steps:
       - uses: actions/checkout@v4
         with:

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

@@ -1,30 +1,30 @@
-annotated-types==0.7.0 ; python_version >= "3.8" and python_version < "3.13"
-boto3-stubs[s3]==1.35.24 ; python_version >= "3.8" and python_version < "3.13"
-botocore-stubs==1.35.24 ; python_version >= "3.8" and python_version < "3.13"
-cffi==1.17.1 ; python_version >= "3.8" and python_version < "3.13" and platform_python_implementation != "PyPy"
-cryptography==43.0.1 ; python_version >= "3.8" and python_version < "3.13"
-lxml-stubs==0.5.1 ; python_version >= "3.8" and python_version < "3.13"
-mypy-boto3-s3==1.35.22 ; python_version >= "3.8" and python_version < "3.13"
-mypy-extensions==1.0.0 ; python_version >= "3.8" and python_version < "3.13"
-mypy==1.11.2 ; python_version >= "3.8" and python_version < "3.13"
-pycparser==2.22 ; python_version >= "3.8" and python_version < "3.13" and platform_python_implementation != "PyPy"
-pydantic-core==2.23.4 ; python_version >= "3.8" and python_version < "3.13"
-pydantic==2.9.2 ; python_version >= "3.8" and python_version < "3.13"
+annotated-types==0.7.0 ; python_version >= "3.8" and python_version < "3.14"
+boto3-stubs[s3]==1.35.24 ; python_version >= "3.8" and python_version < "3.14"
+botocore-stubs==1.35.24 ; python_version >= "3.8" and python_version < "3.14"
+cffi==1.17.1 ; python_version >= "3.8" and python_version < "3.14" and platform_python_implementation != "PyPy"
+cryptography==43.0.1 ; python_version >= "3.8" and python_version < "3.14"
+lxml-stubs==0.5.1 ; python_version >= "3.8" and python_version < "3.14"
+mypy-boto3-s3==1.35.22 ; python_version >= "3.8" and python_version < "3.14"
+mypy-extensions==1.0.0 ; python_version >= "3.8" and python_version < "3.14"
+mypy==1.11.2 ; python_version >= "3.8" and python_version < "3.14"
+pycparser==2.22 ; python_version >= "3.8" and python_version < "3.14" and platform_python_implementation != "PyPy"
+pydantic-core==2.23.4 ; python_version >= "3.8" and python_version < "3.14"
+pydantic==2.9.2 ; python_version >= "3.8" and python_version < "3.14"
 tomli==2.0.1 ; python_version >= "3.8" and python_version < "3.11"
-types-awscrt==0.21.5 ; python_version >= "3.8" and python_version < "3.13"
-types-bleach==6.1.0.20240331 ; python_version >= "3.8" and python_version < "3.13"
-types-boto==2.49.18.20240806 ; python_version >= "3.8" and python_version < "3.13"
-types-contextvars==2.4.7.3 ; python_version >= "3.8" and python_version < "3.13"
-types-dataclasses==0.6.6 ; python_version >= "3.8" and python_version < "3.13"
-types-docutils==0.21.0.20240907 ; python_version >= "3.8" and python_version < "3.13"
-types-html5lib==1.1.11.20240806 ; python_version >= "3.8" and python_version < "3.13"
-types-markdown==3.7.0.20240822 ; python_version >= "3.8" and python_version < "3.13"
-types-paramiko==3.5.0.20240918 ; python_version >= "3.8" and python_version < "3.13"
-types-python-dateutil==2.9.0.20240906 ; python_version >= "3.8" and python_version < "3.13"
-types-pyyaml==6.0.12.20240917 ; python_version >= "3.8" and python_version < "3.13"
-types-requests==2.31.0.6 ; python_version >= "3.8" and python_version < "3.13"
-types-s3transfer==0.10.2 ; python_version >= "3.8" and python_version < "3.13"
-types-setuptools==75.1.0.20240917 ; python_version >= "3.8" and python_version < "3.13"
-types-six==1.16.21.20240513 ; python_version >= "3.8" and python_version < "3.13"
-types-urllib3==1.26.25.14 ; python_version >= "3.8" and python_version < "3.13"
-typing-extensions==4.12.2 ; python_version >= "3.8" and python_version < "3.13"
+types-awscrt==0.21.5 ; python_version >= "3.8" and python_version < "3.14"
+types-bleach==6.1.0.20240331 ; python_version >= "3.8" and python_version < "3.14"
+types-boto==2.49.18.20240806 ; python_version >= "3.8" and python_version < "3.14"
+types-contextvars==2.4.7.3 ; python_version >= "3.8" and python_version < "3.14"
+types-dataclasses==0.6.6 ; python_version >= "3.8" and python_version < "3.14"
+types-docutils==0.21.0.20240907 ; python_version >= "3.8" and python_version < "3.14"
+types-html5lib==1.1.11.20240806 ; python_version >= "3.8" and python_version < "3.14"
+types-markdown==3.7.0.20240822 ; python_version >= "3.8" and python_version < "3.14"
+types-paramiko==3.5.0.20240918 ; python_version >= "3.8" and python_version < "3.14"
+types-python-dateutil==2.9.0.20240906 ; python_version >= "3.8" and python_version < "3.14"
+types-pyyaml==6.0.12.20240917 ; python_version >= "3.8" and python_version < "3.14"
+types-requests==2.31.0.6 ; python_version >= "3.8" and python_version < "3.14"
+types-s3transfer==0.10.2 ; python_version >= "3.8" and python_version < "3.14"
+types-setuptools==75.1.0.20240917 ; python_version >= "3.8" and python_version < "3.14"
+types-six==1.16.21.20240513 ; python_version >= "3.8" and python_version < "3.14"
+types-urllib3==1.26.25.14 ; python_version >= "3.8" and python_version < "3.14"
+typing-extensions==4.12.2 ; python_version >= "3.8" and python_version < "3.14"

lib/galaxy/dependencies/update.sh

@@ -6,8 +6,8 @@
 
 set -e
 
-SUPPORTED_PYTHON_VERSIONS="3.8 3.9 3.10 3.11 3.12"
-NOT_SUPPORTED_NEXT_PYTHON_VERSION="3.13"
+SUPPORTED_PYTHON_VERSIONS="3.8 3.9 3.10 3.11 3.12 3.13"
+NOT_SUPPORTED_NEXT_PYTHON_VERSION="3.14"
 
 this_directory="$(cd "$(dirname "$0")" > /dev/null && pwd)"