diff --git a/.github/workflows/first_startup.yaml b/.github/workflows/first_startup.yaml
index 34093cae9605..f55abd7dde6f 100644
--- a/.github/workflows/first_startup.yaml
+++ b/.github/workflows/first_startup.yaml
@@ -21,7 +21,7 @@ jobs:
     strategy:
       fail-fast: false
       matrix:
-        python-version: ['3.7', '3.11']
+        python-version: ['3.7', '3.12']
     defaults:
       run:
         shell: bash -l {0}
diff --git a/.github/workflows/lint.yaml b/.github/workflows/lint.yaml
index 575a6a0f9a31..532ad6a2fec1 100644
--- a/.github/workflows/lint.yaml
+++ b/.github/workflows/lint.yaml
@@ -21,7 +21,7 @@ jobs:
     runs-on: ubuntu-latest
     strategy:
       matrix:
-        python-version: ['3.7', '3.11']
+        python-version: ['3.7', '3.12']
     env:
       LINT_PATH: 'lib/galaxy/dependencies/pinned-lint-requirements.txt'
       TYPE_PATH: 'lib/galaxy/dependencies/pinned-typecheck-requirements.txt'
diff --git a/.github/workflows/reports_startup.yaml b/.github/workflows/reports_startup.yaml
index 805686e3d388..b1bf0be6be0b 100644
--- a/.github/workflows/reports_startup.yaml
+++ b/.github/workflows/reports_startup.yaml
@@ -18,7 +18,7 @@ jobs:
     strategy:
       fail-fast: false
       matrix:
-        python-version: ['3.7', '3.11']
+        python-version: ['3.7', '3.12']
     defaults:
       run:
         shell: bash -l {0}
diff --git a/.github/workflows/test_galaxy_packages.yaml b/.github/workflows/test_galaxy_packages.yaml
index 089d4f45f19e..5b8f3f1d16fb 100644
--- a/.github/workflows/test_galaxy_packages.yaml
+++ b/.github/workflows/test_galaxy_packages.yaml
@@ -18,7 +18,7 @@ jobs:
     strategy:
       fail-fast: false
       matrix:
-        python-version: ['3.7', '3.11']
+        python-version: ['3.7', '3.12']
     steps:
       - uses: actions/checkout@v3
         with:
diff --git a/.github/workflows/unit.yaml b/.github/workflows/unit.yaml
index 8ade16541a1f..f4d6ea92f17e 100644
--- a/.github/workflows/unit.yaml
+++ b/.github/workflows/unit.yaml
@@ -20,7 +20,7 @@ jobs:
     strategy:
       fail-fast: false
       matrix:
-        python-version: ['3.7', '3.11']
+        python-version: ['3.7', '3.12']
     steps:
       - uses: actions/checkout@v3
         with:
diff --git a/lib/galaxy/dependencies/dev-requirements.txt b/lib/galaxy/dependencies/dev-requirements.txt
index dd82b1fff80e..61f7f04749ed 100644
--- a/lib/galaxy/dependencies/dev-requirements.txt
+++ b/lib/galaxy/dependencies/dev-requirements.txt
@@ -1,170 +1,176 @@
-aiohttp==3.8.5 ; python_version >= "3.7" and python_version < "3.12"
-aiosignal==1.3.1 ; python_version >= "3.7" and python_version < "3.12"
-alabaster==0.7.13 ; python_version >= "3.7" and python_version < "3.12"
-amqp==5.1.1 ; python_version >= "3.7" and python_version < "3.12"
-anyio==3.7.1 ; python_version >= "3.7" and python_version < "3.12"
-ase==3.22.1 ; python_version >= "3.7" and python_version < "3.12"
-async-timeout==4.0.3 ; python_version >= "3.7" and python_version < "3.12"
+aiohttp==3.8.5 ; python_version >= "3.7" and python_version < "3.13"
+aiosignal==1.3.1 ; python_version >= "3.7" and python_version < "3.13"
+alabaster==0.7.13 ; python_version >= "3.7" and python_version < "3.13"
+amqp==5.1.1 ; python_version >= "3.7" and python_version < "3.13"
+anyio==3.7.1 ; python_version >= "3.7" and python_version < "3.13"
+ase==3.22.1 ; python_version >= "3.7" and python_version < "3.13"
+async-timeout==4.0.3 ; python_version >= "3.7" and python_version < "3.13"
 asynctest==0.13.0 ; python_version >= "3.7" and python_version < "3.8"
-attrs==23.1.0 ; python_version >= "3.7" and python_version < "3.12"
-axe-selenium-python==2.1.6 ; python_version >= "3.7" and python_version < "3.12"
-babel==2.12.1 ; python_version >= "3.7" and python_version < "3.12"
-billiard==3.6.4.0 ; python_version >= "3.7" and python_version < "3.12"
-black==23.3.0 ; python_version >= "3.7" and python_version < "3.12"
-bleach==6.0.0 ; python_version >= "3.7" and python_version < "3.12"
-build==1.0.3 ; python_version >= "3.7" and python_version < "3.12"
-cachecontrol[filecache]==0.13.1 ; python_version >= "3.7" and python_version < "3.12"
+attrs==23.1.0 ; python_version >= "3.7" and python_version < "3.13"
+axe-selenium-python==2.1.6 ; python_version >= "3.7" and python_version < "3.13"
+babel==2.13.0 ; python_version >= "3.7" and python_version < "3.13"
+billiard==3.6.4.0 ; python_version >= "3.7" and python_version < "3.13"
+black==23.3.0 ; python_version >= "3.7" and python_version < "3.13"
+bleach==6.0.0 ; python_version >= "3.7" and python_version < "3.13"
+build==1.0.3 ; python_version >= "3.7" and python_version < "3.13"
+cachecontrol[filecache]==0.13.1 ; python_version >= "3.7" and python_version < "3.13"
 cached-property==1.5.2 ; python_version >= "3.7" and python_version < "3.8"
-celery==5.2.7 ; python_version >= "3.7" and python_version < "3.12"
-certifi==2023.7.22 ; python_version >= "3.7" and python_version < "3.12"
-cffi==1.15.1 ; python_version >= "3.7" and python_version < "3.12"
-charset-normalizer==3.2.0 ; python_version >= "3.7" and python_version < "3.12"
-click-didyoumean==0.3.0 ; python_version >= "3.7" and python_version < "3.12"
-click-plugins==1.1.1 ; python_version >= "3.7" and python_version < "3.12"
-click-repl==0.3.0 ; python_version >= "3.7" and python_version < "3.12"
-click==8.1.7 ; python_version >= "3.7" and python_version < "3.12"
-codespell==2.2.5 ; python_version >= "3.7" and python_version < "3.12"
-colorama==0.4.6 ; python_version >= "3.7" and python_version < "3.12" and (sys_platform == "win32" or platform_system == "Windows" or os_name == "nt")
-coverage[toml]==7.2.7 ; python_version >= "3.7" and python_version < "3.12"
-cryptography==41.0.4 ; python_version >= "3.7" and python_version < "3.12"
-cwltest==2.3.20230825125225 ; python_version >= "3.7" and python_version < "3.12"
-cycler==0.11.0 ; python_version >= "3.7" and python_version < "3.12"
-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"
+celery==5.2.7 ; python_version >= "3.7" and python_version < "3.13"
+certifi==2023.7.22 ; python_version >= "3.7" and python_version < "3.13"
+cffi==1.15.1 ; python_version >= "3.7" and python_version < "3.13"
+charset-normalizer==3.3.0 ; python_version >= "3.7" and python_version < "3.13"
+click-didyoumean==0.3.0 ; python_version >= "3.7" and python_version < "3.13"
+click-plugins==1.1.1 ; python_version >= "3.7" and python_version < "3.13"
+click-repl==0.3.0 ; python_version >= "3.7" and python_version < "3.13"
+click==8.1.7 ; python_version >= "3.7" and python_version < "3.13"
+codespell==2.2.5 ; python_version >= "3.7" and python_version < "3.13"
+colorama==0.4.6 ; python_version >= "3.7" and python_version < "3.13" and (sys_platform == "win32" or platform_system == "Windows" or os_name == "nt")
+coverage[toml]==7.2.7 ; python_version >= "3.7" and python_version < "3.13"
+cryptography==41.0.4 ; python_version >= "3.7" and python_version < "3.13"
+cwltest==2.3.20230825125225 ; python_version >= "3.7" and python_version < "3.13"
+cycler==0.11.0 ; python_version >= "3.7" and python_version < "3.13"
+darker==1.7.2 ; python_version >= "3.7" and python_version < "3.13"
+defusedxml==0.7.1 ; python_version >= "3.7" and python_version < "3.13"
+deprecated==1.2.14 ; python_version >= "3.7" and python_version < "3.13"
+docutils==0.18.1 ; python_version >= "3.7" and python_version < "3.13"
 exceptiongroup==1.1.3 ; 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"
-frozenlist==1.3.3 ; python_version >= "3.7" and python_version < "3.12"
-future==0.18.3 ; python_version >= "3.7" and python_version < "3.12"
-galaxy-release-util==0.1.5 ; 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"
-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"
-iniconfig==2.0.0 ; python_version >= "3.7" and python_version < "3.12"
-isodate==0.6.1 ; python_version >= "3.7" and python_version < "3.12"
-isort==5.11.5 ; python_version >= "3.7" and python_version < "3.12"
-jaraco-classes==3.2.3 ; python_version >= "3.7" and python_version < "3.12"
-jeepney==0.8.0 ; python_version >= "3.7" and python_version < "3.12" and sys_platform == "linux"
-jinja2==3.1.2 ; python_version >= "3.7" and python_version < "3.12"
-junit-xml==1.9 ; python_version >= "3.7" and python_version < "3.12"
-keyring==24.1.1 ; python_version >= "3.7" and python_version < "3.12"
-kiwisolver==1.4.5 ; python_version >= "3.7" and python_version < "3.12"
-kombu==5.2.4 ; python_version >= "3.7" and python_version < "3.12"
-lxml==4.9.3 ; 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-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"
+filelock==3.12.2 ; python_version >= "3.7" and python_version < "3.13"
+fluent-logger==0.10.0 ; python_version >= "3.7" and python_version < "3.13"
+fonttools==4.38.0 ; python_version >= "3.7" and python_version < "3.13"
+frozenlist==1.3.3 ; python_version >= "3.7" and python_version < "3.13"
+future==0.18.3 ; python_version >= "3.7" and python_version < "3.13"
+galaxy-release-util==0.1.5 ; python_version >= "3.7" and python_version < "3.13"
+greenlet==2.0.2 ; python_version >= "3.7" and python_version < "3.13"
+h11==0.14.0 ; python_version >= "3.7" and python_version < "3.13"
+httpcore==0.17.3 ; python_version >= "3.7" and python_version < "3.13"
+httpx==0.24.1 ; python_version >= "3.7" and python_version < "3.13"
+idna==3.4 ; python_version >= "3.7" and python_version < "3.13"
+imagesize==1.4.1 ; python_version >= "3.7" and python_version < "3.13"
+importlib-metadata==4.13.0 ; python_version >= "3.7" and python_version < "3.13"
+importlib-resources==5.12.0 ; python_version >= "3.7" and python_version < "3.13"
+iniconfig==2.0.0 ; python_version >= "3.7" and python_version < "3.13"
+isodate==0.6.1 ; python_version >= "3.7" and python_version < "3.13"
+isort==5.11.5 ; python_version >= "3.7" and python_version < "3.13"
+jaraco-classes==3.2.3 ; python_version >= "3.7" and python_version < "3.13"
+jeepney==0.8.0 ; python_version >= "3.7" and python_version < "3.13" and sys_platform == "linux"
+jinja2==3.1.2 ; python_version >= "3.7" and python_version < "3.13"
+junit-xml==1.9 ; python_version >= "3.7" and python_version < "3.13"
+keyring==24.1.1 ; python_version >= "3.7" and python_version < "3.13"
+kiwisolver==1.4.5 ; python_version >= "3.7" and python_version < "3.13"
+kombu==5.2.4 ; python_version >= "3.7" and python_version < "3.13"
+lxml==4.9.3 ; python_version >= "3.7" and python_version < "3.13"
+markdown-it-py==2.2.0 ; python_version >= "3.7" and python_version < "3.13"
+markdown-it-reporter==0.0.2 ; python_version >= "3.7" and python_version < "3.13"
+markupsafe==2.1.3 ; python_version >= "3.7" and python_version < "3.13"
 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==3.8.0 ; 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"
-mirakuru==2.5.1 ; python_version >= "3.7" and python_version < "3.12"
-mistune==2.0.5 ; python_version >= "3.7" and python_version < "3.12"
-more-itertools==9.1.0 ; python_version >= "3.7" and python_version < "3.12"
-msgpack==1.0.5 ; python_version >= "3.7" and python_version < "3.12"
-multidict==6.0.4 ; python_version >= "3.7" and python_version < "3.12"
-mypy-extensions==1.0.0 ; python_version >= "3.7" and python_version < "3.12"
-myst-parser==1.0.0 ; python_version >= "3.7" and python_version < "3.12"
+matplotlib==3.8.0 ; python_version >= "3.9" and python_version < "3.13"
+mdit-py-plugins==0.3.5 ; python_version >= "3.7" and python_version < "3.13"
+mdurl==0.1.2 ; python_version >= "3.7" and python_version < "3.13"
+mirakuru==2.5.1 ; python_version >= "3.7" and python_version < "3.13"
+mistune==2.0.5 ; python_version >= "3.7" and python_version < "3.13"
+more-itertools==9.1.0 ; python_version >= "3.7" and python_version < "3.13"
+msgpack==1.0.5 ; python_version >= "3.7" and python_version < "3.13"
+multidict==6.0.4 ; python_version >= "3.7" and python_version < "3.13"
+mypy-extensions==1.0.0 ; python_version >= "3.7" and python_version < "3.13"
+myst-parser==1.0.0 ; python_version >= "3.7" and python_version < "3.13"
 numpy==1.21.6 ; python_version >= "3.7" and python_version < "3.8"
 numpy==1.24.4 ; python_version >= "3.8" and python_version < "3.9"
-numpy==1.26.0 ; python_version >= "3.9" and python_version < "3.12"
-outcome==1.2.0 ; python_version >= "3.7" and python_version < "3.12"
-packaging==23.1 ; python_version >= "3.7" and python_version < "3.12"
-pathspec==0.11.2 ; python_version >= "3.7" and python_version < "3.12"
-pillow==9.5.0 ; python_version >= "3.7" and python_version < "3.12"
-pkce==1.0.3 ; python_version >= "3.7" and python_version < "3.12"
-pkginfo==1.9.6 ; python_version >= "3.7" and python_version < "3.12"
-platformdirs==3.10.0 ; python_version >= "3.7" and python_version < "3.12"
-pluggy==1.2.0 ; python_version >= "3.7" and python_version < "3.12"
-port-for==0.7.1 ; python_version >= "3.7" and python_version < "3.12"
-prettytable==3.7.0 ; python_version >= "3.7" and python_version < "3.12"
-prompt-toolkit==3.0.39 ; python_version >= "3.7" and python_version < "3.12"
-psutil==5.9.5 ; python_version >= "3.7" and python_version < "3.12" and sys_platform != "cygwin"
-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"
-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"
-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"
-pyproject-hooks==1.0.0 ; python_version >= "3.7" and python_version < "3.12"
-pysocks==1.7.1 ; python_version >= "3.7" and python_version < "3.12"
-pytest-asyncio==0.21.1 ; python_version >= "3.7" and python_version < "3.12"
-pytest-celery==0.0.0 ; python_version >= "3.7" and python_version < "3.12"
-pytest-cov==4.1.0 ; python_version >= "3.7" and python_version < "3.12"
-pytest-html==3.2.0 ; python_version >= "3.7" and python_version < "3.12"
-pytest-httpserver==1.0.6 ; python_version >= "3.7" and python_version < "3.12"
-pytest-json-report==1.5.0 ; python_version >= "3.7" and python_version < "3.12"
-pytest-metadata==3.0.0 ; python_version >= "3.7" and python_version < "3.12"
-pytest-mock==3.11.1 ; python_version >= "3.7" and python_version < "3.12"
-pytest-playwright==0.3.0 ; python_version >= "3.7" and python_version < "3.12"
-pytest-postgresql==4.1.1 ; python_version >= "3.7" and python_version < "3.12"
-pytest-shard==0.1.2 ; python_version >= "3.7" and python_version < "3.12"
-pytest==7.4.2 ; python_version >= "3.7" and python_version < "3.12"
-python-dateutil==2.8.2 ; python_version >= "3.7" and python_version < "3.12"
-python-irodsclient==1.1.8 ; python_version >= "3.7" and python_version < "3.12"
-pytz==2023.3.post1 ; python_version >= "3.7" and python_version < "3.12"
-pywin32-ctypes==0.2.2 ; python_version >= "3.7" and python_version < "3.12" and sys_platform == "win32"
-pyyaml==6.0.1 ; python_version >= "3.7" and python_version < "3.12"
-rdflib==6.2.0 ; python_version >= "3.7" and python_version < "3.12"
-readme-renderer==37.3 ; python_version >= "3.7" and python_version < "3.12"
-requests-toolbelt==1.0.0 ; python_version >= "3.7" and python_version < "3.12"
-requests==2.31.0 ; python_version >= "3.7" and python_version < "3.12"
-responses==0.23.3 ; python_version >= "3.7" and python_version < "3.12"
-rfc3986==2.0.0 ; python_version >= "3.7" and python_version < "3.12"
-rich==13.5.3 ; python_version >= "3.7" and python_version < "3.12"
-ruamel-yaml-clib==0.2.7 ; platform_python_implementation == "CPython" and python_version < "3.11" and python_version >= "3.7"
-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"
+numpy==1.26.0 ; python_version >= "3.9" and python_version < "3.13"
+outcome==1.2.0 ; python_version >= "3.7" and python_version < "3.13"
+packaging==23.2 ; python_version >= "3.7" and python_version < "3.13"
+pathspec==0.11.2 ; python_version >= "3.7" and python_version < "3.13"
+pillow==9.5.0 ; python_version >= "3.7" and python_version < "3.13"
+pkce==1.0.3 ; python_version >= "3.7" and python_version < "3.13"
+pkginfo==1.9.6 ; python_version >= "3.7" and python_version < "3.13"
+platformdirs==3.11.0 ; python_version >= "3.7" and python_version < "3.13"
+playwright==1.35.0 ; python_version >= "3.7" and python_version < "3.13"
+pluggy==1.2.0 ; python_version >= "3.7" and python_version < "3.13"
+port-for==0.7.1 ; python_version >= "3.7" and python_version < "3.13"
+prettytable==3.7.0 ; python_version >= "3.7" and python_version < "3.13"
+prompt-toolkit==3.0.39 ; python_version >= "3.7" and python_version < "3.13"
+psutil==5.9.5 ; python_version >= "3.7" and python_version < "3.13" and sys_platform != "cygwin"
+py==1.11.0 ; python_version >= "3.7" and python_version < "3.13"
+pycparser==2.21 ; python_version >= "3.7" and python_version < "3.13"
+pyee==9.0.4 ; python_version >= "3.7" and python_version < "3.13"
+pygithub==2.1.1 ; python_version >= "3.7" and python_version < "3.13"
+pygments==2.16.1 ; python_version >= "3.7" and python_version < "3.13"
+pyjwt[crypto]==2.8.0 ; python_version >= "3.7" and python_version < "3.13"
+pynacl==1.5.0 ; python_version >= "3.7" and python_version < "3.13"
+pyparsing==3.0.9 ; python_version >= "3.7" and python_version < "3.13"
+pyproject-hooks==1.0.0 ; python_version >= "3.7" and python_version < "3.13"
+pysocks==1.7.1 ; python_version >= "3.7" and python_version < "3.13"
+pytest-asyncio==0.21.1 ; python_version >= "3.7" and python_version < "3.13"
+pytest-base-url==2.0.0 ; python_version >= "3.7" and python_version < "3.13"
+pytest-celery==0.0.0 ; python_version >= "3.7" and python_version < "3.13"
+pytest-cov==4.1.0 ; python_version >= "3.7" and python_version < "3.13"
+pytest-html==3.2.0 ; python_version >= "3.7" and python_version < "3.13"
+pytest-httpserver==1.0.6 ; python_version >= "3.7" and python_version < "3.13"
+pytest-json-report==1.5.0 ; python_version >= "3.7" and python_version < "3.13"
+pytest-metadata==3.0.0 ; python_version >= "3.7" and python_version < "3.13"
+pytest-mock==3.11.1 ; python_version >= "3.7" and python_version < "3.13"
+pytest-playwright==0.3.3 ; python_version >= "3.7" and python_version < "3.13"
+pytest-postgresql==4.1.1 ; python_version >= "3.7" and python_version < "3.13"
+pytest-shard==0.1.2 ; python_version >= "3.7" and python_version < "3.13"
+pytest==7.4.2 ; python_version >= "3.7" and python_version < "3.13"
+python-dateutil==2.8.2 ; python_version >= "3.7" and python_version < "3.13"
+python-irodsclient==1.1.8 ; python_version >= "3.7" and python_version < "3.13"
+python-slugify==8.0.1 ; python_version >= "3.7" and python_version < "3.13"
+pytz==2023.3.post1 ; python_version >= "3.7" and python_version < "3.13"
+pywin32-ctypes==0.2.2 ; python_version >= "3.7" and python_version < "3.13" and sys_platform == "win32"
+pyyaml==6.0.1 ; python_version >= "3.7" and python_version < "3.13"
+rdflib==6.2.0 ; python_version >= "3.7" and python_version < "3.13"
+readme-renderer==37.3 ; python_version >= "3.7" and python_version < "3.13"
+requests-toolbelt==1.0.0 ; python_version >= "3.7" and python_version < "3.13"
+requests==2.31.0 ; python_version >= "3.7" and python_version < "3.13"
+responses==0.23.3 ; python_version >= "3.7" and python_version < "3.13"
+rfc3986==2.0.0 ; python_version >= "3.7" and python_version < "3.13"
+rich==13.6.0 ; python_version >= "3.7" and python_version < "3.13"
+ruamel-yaml-clib==0.2.8 ; platform_python_implementation == "CPython" and python_version < "3.11" and python_version >= "3.7"
+ruamel-yaml==0.17.21 ; python_version >= "3.7" and python_version < "3.13"
+schema-salad==8.4.20230808163024 ; python_version >= "3.7" and python_version < "3.13"
 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"
-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"
-setuptools==68.0.0 ; python_version >= "3.7" and python_version < "3.12"
-six==1.16.0 ; python_version >= "3.7" and python_version < "3.12"
-sniffio==1.3.0 ; python_version >= "3.7" and python_version < "3.12"
-snowballstemmer==2.2.0 ; python_version >= "3.7" and python_version < "3.12"
-sortedcontainers==2.4.0 ; python_version >= "3.7" and python_version < "3.12"
-sphinx-rtd-theme==1.3.0 ; python_version >= "3.7" and python_version < "3.12"
-sphinx==5.3.0 ; python_version >= "3.7" and python_version < "3.12"
-sphinxcontrib-applehelp==1.0.2 ; python_version >= "3.7" and python_version < "3.12"
-sphinxcontrib-devhelp==1.0.2 ; python_version >= "3.7" and python_version < "3.12"
-sphinxcontrib-htmlhelp==2.0.0 ; python_version >= "3.7" and python_version < "3.12"
-sphinxcontrib-jquery==4.1 ; python_version >= "3.7" and python_version < "3.12"
-sphinxcontrib-jsmath==1.0.1 ; python_version >= "3.7" and python_version < "3.12"
-sphinxcontrib-qthelp==1.0.3 ; python_version >= "3.7" and python_version < "3.12"
-sphinxcontrib-serializinghtml==1.1.5 ; python_version >= "3.7" and python_version < "3.12"
-statsd==4.0.1 ; python_version >= "3.7" and python_version < "3.12"
-testfixtures==7.2.0 ; python_version >= "3.7" and python_version < "3.12"
-tinydb==4.8.0 ; python_version >= "3.7" and python_version < "3.12"
-toml==0.10.2 ; python_version >= "3.7" and python_version < "3.12"
+scipy==1.11.3 ; python_version >= "3.9" and python_version < "3.13"
+secretstorage==3.3.3 ; python_version >= "3.7" and python_version < "3.13" and sys_platform == "linux"
+selenium==4.11.2 ; python_version >= "3.7" and python_version < "3.13"
+seletools==1.4.0 ; python_version >= "3.7" and python_version < "3.13"
+setuptools==68.0.0 ; python_version >= "3.7" and python_version < "3.13"
+six==1.16.0 ; python_version >= "3.7" and python_version < "3.13"
+sniffio==1.3.0 ; python_version >= "3.7" and python_version < "3.13"
+snowballstemmer==2.2.0 ; python_version >= "3.7" and python_version < "3.13"
+sortedcontainers==2.4.0 ; python_version >= "3.7" and python_version < "3.13"
+sphinx-rtd-theme==1.3.0 ; python_version >= "3.7" and python_version < "3.13"
+sphinx==5.3.0 ; python_version >= "3.7" and python_version < "3.13"
+sphinxcontrib-applehelp==1.0.2 ; python_version >= "3.7" and python_version < "3.13"
+sphinxcontrib-devhelp==1.0.2 ; python_version >= "3.7" and python_version < "3.13"
+sphinxcontrib-htmlhelp==2.0.0 ; python_version >= "3.7" and python_version < "3.13"
+sphinxcontrib-jquery==4.1 ; python_version >= "3.7" and python_version < "3.13"
+sphinxcontrib-jsmath==1.0.1 ; python_version >= "3.7" and python_version < "3.13"
+sphinxcontrib-qthelp==1.0.3 ; python_version >= "3.7" and python_version < "3.13"
+sphinxcontrib-serializinghtml==1.1.5 ; python_version >= "3.7" and python_version < "3.13"
+statsd==4.0.1 ; python_version >= "3.7" and python_version < "3.13"
+testfixtures==7.2.0 ; python_version >= "3.7" and python_version < "3.13"
+text-unidecode==1.3 ; python_version >= "3.7" and python_version < "3.13"
+tinydb==4.8.0 ; python_version >= "3.7" and python_version < "3.13"
+toml==0.10.2 ; python_version >= "3.7" and python_version < "3.13"
 tomli==2.0.1 ; python_version >= "3.7" and python_full_version <= "3.11.0a6"
-trio-websocket==0.11.1 ; python_version >= "3.7" and python_version < "3.12"
-trio==0.22.2 ; python_version >= "3.7" and python_version < "3.12"
-tuspy==1.0.1 ; python_version >= "3.7" and python_version < "3.12"
-twill==3.1 ; python_version >= "3.7" and python_version < "3.12"
-twine==4.0.2 ; python_version >= "3.7" and python_version < "3.12"
+trio-websocket==0.11.1 ; python_version >= "3.7" and python_version < "3.13"
+trio==0.22.2 ; python_version >= "3.7" and python_version < "3.13"
+tuspy==1.0.1 ; python_version >= "3.7" and python_version < "3.13"
+twill==3.1 ; python_version >= "3.7" and python_version < "3.13"
+twine==4.0.2 ; python_version >= "3.7" and python_version < "3.13"
 typed-ast==1.5.5 ; python_version < "3.8" and implementation_name == "cpython" and python_version >= "3.7"
-types-pyyaml==6.0.12.12 ; python_version >= "3.7" and python_version < "3.12"
-typing-extensions==4.7.1 ; python_version >= "3.7" and python_version < "3.12"
-urllib3==1.26.16 ; python_version >= "3.7" and python_version < "3.12"
-urllib3[socks]==1.26.16 ; python_version >= "3.7" and python_version < "3.12"
-vine==5.0.0 ; python_version >= "3.7" and python_version < "3.12"
-watchdog==3.0.0 ; python_version >= "3.7" and python_version < "3.12"
-wcwidth==0.2.7 ; 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==1.15.0 ; 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"
-zipp==3.15.0 ; python_version >= "3.7" and python_version < "3.12"
+types-pyyaml==6.0.12.12 ; python_version >= "3.7" and python_version < "3.13"
+typing-extensions==4.7.1 ; python_version >= "3.7" and python_version < "3.13"
+urllib3==1.26.17 ; python_version >= "3.7" and python_version < "3.13"
+urllib3[socks]==1.26.17 ; python_version >= "3.7" and python_version < "3.13"
+vine==5.0.0 ; python_version >= "3.7" and python_version < "3.13"
+watchdog==3.0.0 ; python_version >= "3.7" and python_version < "3.13"
+wcwidth==0.2.8 ; python_version >= "3.7" and python_version < "3.13"
+webencodings==0.5.1 ; python_version >= "3.7" and python_version < "3.13"
+werkzeug==2.2.3 ; python_version >= "3.7" and python_version < "3.13"
+wrapt==1.15.0 ; python_version >= "3.7" and python_version < "3.13"
+wsproto==1.2.0 ; python_version >= "3.7" and python_version < "3.13"
+yarl==1.9.2 ; python_version >= "3.7" and python_version < "3.13"
+zipp==3.15.0 ; python_version >= "3.7" and python_version < "3.13"
diff --git a/lib/galaxy/dependencies/pinned-lint-requirements.txt b/lib/galaxy/dependencies/pinned-lint-requirements.txt
index f63b2768119c..08d44e583e9b 100644
--- a/lib/galaxy/dependencies/pinned-lint-requirements.txt
+++ b/lib/galaxy/dependencies/pinned-lint-requirements.txt
@@ -5,6 +5,6 @@ importlib-metadata==4.2.0
 mccabe==0.7.0
 pycodestyle==2.9.1
 pyflakes==2.5.0
-ruff==0.0.291
+ruff==0.0.292
 typing_extensions==4.7.1
 zipp==3.15.0
diff --git a/lib/galaxy/dependencies/pinned-requirements.txt b/lib/galaxy/dependencies/pinned-requirements.txt
index 5707ebb1c20f..c5df9e09f496 100644
--- a/lib/galaxy/dependencies/pinned-requirements.txt
+++ b/lib/galaxy/dependencies/pinned-requirements.txt
@@ -1,212 +1,217 @@
-a2wsgi==1.7.0 ; python_version >= "3.7" and python_version < "3.12"
-adal==1.2.7 ; python_version >= "3.7" and python_version < "3.12"
-aiobotocore==2.4.2 ; python_version >= "3.7" and python_version < "3.12"
-aiofiles==23.2.1 ; python_version >= "3.7" and python_version < "3.12"
-aiohttp==3.8.5 ; python_version >= "3.7" and python_version < "3.12"
-aioitertools==0.11.0 ; python_version >= "3.7" and python_version < "3.12"
-aiosignal==1.3.1 ; python_version >= "3.7" and python_version < "3.12"
-alembic==1.12.0 ; python_version >= "3.7" and python_version < "3.12"
-amqp==5.1.1 ; python_version >= "3.7" and python_version < "3.12"
-anyio==3.7.1 ; python_version >= "3.7" and python_version < "3.12"
-apispec==6.3.0 ; python_version >= "3.7" and python_version < "3.12"
-appdirs==1.4.4 ; python_version >= "3.7" and python_version < "3.12"
-arcp==0.2.1 ; python_version >= "3.7" and python_version < "3.12"
-argcomplete==3.1.2 ; python_version >= "3.7" and python_version < "3.12"
-async-timeout==4.0.3 ; python_version >= "3.7" and python_version < "3.12"
+a2wsgi==1.7.0 ; python_version >= "3.7" and python_version < "3.13"
+adal==1.2.7 ; python_version >= "3.7" and python_version < "3.13"
+aiobotocore==2.4.2 ; python_version >= "3.7" and python_version < "3.13"
+aiodataloader==0.4.0 ; python_version >= "3.7" and python_version < "3.13"
+aiofiles==23.2.1 ; python_version >= "3.7" and python_version < "3.13"
+aiohttp==3.8.5 ; python_version >= "3.7" and python_version < "3.13"
+aioitertools==0.11.0 ; python_version >= "3.7" and python_version < "3.13"
+aiosignal==1.3.1 ; python_version >= "3.7" and python_version < "3.13"
+alembic==1.12.0 ; python_version >= "3.7" and python_version < "3.13"
+amqp==5.1.1 ; python_version >= "3.7" and python_version < "3.13"
+aniso8601==9.0.1 ; python_version >= "3.7" and python_version < "3.13"
+anyio==3.7.1 ; python_version >= "3.7" and python_version < "3.13"
+apispec==6.3.0 ; python_version >= "3.7" and python_version < "3.13"
+appdirs==1.4.4 ; python_version >= "3.7" and python_version < "3.13"
+arcp==0.2.1 ; python_version >= "3.7" and python_version < "3.13"
+argcomplete==3.1.2 ; python_version >= "3.7" and python_version < "3.13"
+async-timeout==4.0.3 ; python_version >= "3.7" and python_version < "3.13"
 asynctest==0.13.0 ; python_version >= "3.7" and python_version < "3.8"
-attmap==0.13.2 ; python_version >= "3.7" and python_version < "3.12"
-attrs==23.1.0 ; python_version >= "3.7" and python_version < "3.12"
-babel==2.12.1 ; python_version >= "3.7" and python_version < "3.12"
+attmap==0.13.2 ; python_version >= "3.7" and python_version < "3.13"
+attrs==23.1.0 ; python_version >= "3.7" and python_version < "3.13"
+babel==2.13.0 ; python_version >= "3.7" and python_version < "3.13"
 backports-zoneinfo==0.2.1 ; python_version >= "3.7" and python_version < "3.9"
-bagit-profile==1.3.1 ; python_version >= "3.7" and python_version < "3.12"
-bagit==1.8.1 ; python_version >= "3.7" and python_version < "3.12"
-bcrypt==4.0.1 ; python_version >= "3.7" and python_version < "3.12"
-bdbag==1.7.1 ; python_version >= "3.7" and python_version < "3.12"
-beaker==1.12.1 ; python_version >= "3.7" and python_version < "3.12"
-billiard==3.6.4.0 ; python_version >= "3.7" and python_version < "3.12"
-bioblend==1.2.0 ; python_version >= "3.7" and python_version < "3.12"
-bleach==6.0.0 ; python_version >= "3.7" and python_version < "3.12"
-boltons==23.0.0 ; python_version >= "3.7" and python_version < "3.12"
-boto==2.49.0 ; python_version >= "3.7" and python_version < "3.12"
-botocore==1.27.59 ; python_version >= "3.7" and python_version < "3.12"
-bx-python==0.10.0 ; python_version >= "3.7" and python_version < "3.12"
-cachecontrol[filecache]==0.13.1 ; python_version >= "3.7" and python_version < "3.12"
+bagit-profile==1.3.1 ; python_version >= "3.7" and python_version < "3.13"
+bagit==1.8.1 ; python_version >= "3.7" and python_version < "3.13"
+bcrypt==4.0.1 ; python_version >= "3.7" and python_version < "3.13"
+bdbag==1.7.1 ; python_version >= "3.7" and python_version < "3.13"
+beaker==1.12.1 ; python_version >= "3.7" and python_version < "3.13"
+billiard==3.6.4.0 ; python_version >= "3.7" and python_version < "3.13"
+bioblend==1.2.0 ; python_version >= "3.7" and python_version < "3.13"
+bleach==6.0.0 ; python_version >= "3.7" and python_version < "3.13"
+boltons==23.0.0 ; python_version >= "3.7" and python_version < "3.13"
+boto==2.49.0 ; python_version >= "3.7" and python_version < "3.13"
+botocore==1.27.59 ; python_version >= "3.7" and python_version < "3.13"
+bx-python==0.10.0 ; python_version >= "3.7" and python_version < "3.13"
+cachecontrol[filecache]==0.13.1 ; python_version >= "3.7" and python_version < "3.13"
 cached-property==1.5.2 ; python_version >= "3.7" and python_version < "3.8"
-celery==5.2.7 ; python_version >= "3.7" and python_version < "3.12"
-certifi==2023.7.22 ; python_version >= "3.7" and python_version < "3.12"
-cffi==1.15.1 ; python_version >= "3.7" and python_version < "3.12"
-charset-normalizer==3.2.0 ; python_version >= "3.7" and python_version < "3.12"
-cheetah3==3.2.6.post1 ; python_version >= "3.7" and python_version < "3.12"
-circus==0.18.0 ; python_version >= "3.7" and python_version < "3.12"
-click-didyoumean==0.3.0 ; python_version >= "3.7" and python_version < "3.12"
-click-plugins==1.1.1 ; python_version >= "3.7" and python_version < "3.12"
-click-repl==0.3.0 ; python_version >= "3.7" and python_version < "3.12"
-click==8.1.7 ; python_version >= "3.7" and python_version < "3.12"
-cloudauthz==0.6.0 ; python_version >= "3.7" and python_version < "3.12"
-cloudbridge==3.2.0 ; python_version >= "3.7" and python_version < "3.12"
-colorama==0.4.6 ; python_version >= "3.7" and python_version < "3.12" and platform_system == "Windows"
-coloredlogs==15.0.1 ; python_version >= "3.7" and python_version < "3.12"
-conda-package-streaming==0.9.0 ; python_version >= "3.7" and python_version < "3.12"
-cryptography==41.0.4 ; python_version >= "3.7" and python_version < "3.12"
-cwl-upgrader==1.2.8 ; python_version >= "3.7" and python_version < "3.12"
-cwl-utils==0.28 ; python_version >= "3.7" and python_version < "3.12"
-cwltool==3.1.20221109155812 ; python_version >= "3.7" and python_version < "3.12"
-cython==3.0.2 ; python_version >= "3.7" and python_version < "3.12"
-decorator==5.1.1 ; python_version >= "3.7" and python_version < "3.12"
-defusedxml==0.7.1 ; python_version >= "3.7" and python_version < "3.12"
-deprecation==2.1.0 ; python_version >= "3.7" and python_version < "3.12"
-dictobj==0.4 ; python_version >= "3.7" and python_version < "3.12"
-dnspython==2.3.0 ; python_version >= "3.7" and python_version < "3.12"
-docopt==0.6.2 ; python_version >= "3.7" and python_version < "3.12"
-docutils==0.18.1 ; python_version >= "3.7" and python_version < "3.12"
-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"
+celery==5.2.7 ; python_version >= "3.7" and python_version < "3.13"
+certifi==2023.7.22 ; python_version >= "3.7" and python_version < "3.13"
+cffi==1.15.1 ; python_version >= "3.7" and python_version < "3.13"
+charset-normalizer==3.3.0 ; python_version >= "3.7" and python_version < "3.13"
+cheetah3==3.2.6.post1 ; python_version >= "3.7" and python_version < "3.13"
+circus==0.18.0 ; python_version >= "3.7" and python_version < "3.13"
+click-didyoumean==0.3.0 ; python_version >= "3.7" and python_version < "3.13"
+click-plugins==1.1.1 ; python_version >= "3.7" and python_version < "3.13"
+click-repl==0.3.0 ; python_version >= "3.7" and python_version < "3.13"
+click==8.1.7 ; python_version >= "3.7" and python_version < "3.13"
+cloudauthz==0.6.0 ; python_version >= "3.7" and python_version < "3.13"
+cloudbridge==3.2.0 ; python_version >= "3.7" and python_version < "3.13"
+colorama==0.4.6 ; python_version >= "3.7" and python_version < "3.13" and platform_system == "Windows"
+coloredlogs==15.0.1 ; python_version >= "3.7" and python_version < "3.13"
+conda-package-streaming==0.9.0 ; python_version >= "3.7" and python_version < "3.13"
+cryptography==41.0.4 ; python_version >= "3.7" and python_version < "3.13"
+cwl-upgrader==1.2.8 ; python_version >= "3.7" and python_version < "3.13"
+cwl-utils==0.28 ; python_version >= "3.7" and python_version < "3.13"
+cwltool==3.1.20221109155812 ; python_version >= "3.7" and python_version < "3.13"
+decorator==5.1.1 ; python_version >= "3.7" and python_version < "3.13"
+defusedxml==0.7.1 ; python_version >= "3.7" and python_version < "3.13"
+deprecation==2.1.0 ; python_version >= "3.7" and python_version < "3.13"
+dictobj==0.4 ; python_version >= "3.7" and python_version < "3.13"
+dnspython==2.3.0 ; python_version >= "3.7" and python_version < "3.13"
+docopt==0.6.2 ; python_version >= "3.7" and python_version < "3.13"
+docutils==0.18.1 ; python_version >= "3.7" and python_version < "3.13"
+dparse==0.6.3 ; python_version >= "3.7" and python_version < "3.13"
+ecdsa==0.18.0 ; python_version >= "3.7" and python_version < "3.13"
+edam-ontology==1.25.2 ; python_version >= "3.7" and python_version < "3.13"
+email-validator==2.0.0.post2 ; python_version >= "3.7" and python_version < "3.13"
 exceptiongroup==1.1.3 ; 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"
-frozenlist==1.3.3 ; python_version >= "3.7" and python_version < "3.12"
-fs==2.4.16 ; python_version >= "3.7" and python_version < "3.12"
-fsspec==2023.1.0 ; python_version >= "3.7" and python_version < "3.12"
-future==0.18.3 ; python_version >= "3.7" and python_version < "3.12"
-galaxy-sequence-utils==1.1.5 ; python_version >= "3.7" and python_version < "3.12"
-galaxy2cwl==0.1.4 ; python_version >= "3.7" and python_version < "3.12"
-graphene-sqlalchemy==3.0.0b3 ; python_version >= "3.7" and python_version < "3.12"
-gravity==1.0.3 ; python_version >= "3.7" and python_version < "3.12"
-greenlet==2.0.2 ; python_version >= "3.7" and (platform_machine == "aarch64" or platform_machine == "ppc64le" or platform_machine == "x86_64" or platform_machine == "amd64" or platform_machine == "AMD64" or platform_machine == "win32" or platform_machine == "WIN32") and python_version < "3.12"
-gunicorn==21.2.0 ; python_version >= "3.7" and python_version < "3.12"
-gxformat2==0.18.0 ; python_version >= "3.7" and python_version < "3.12"
-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"
-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"
-isodate==0.6.1 ; python_version >= "3.7" and python_version < "3.12"
-jinja2==3.1.2 ; python_version >= "3.7" and python_version < "3.12"
-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"
-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==6.5.2 ; 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==1.24.1 ; python_version >= "3.7" and python_version < "3.12"
-msgpack==1.0.5 ; python_version >= "3.7" and python_version < "3.12"
-multidict==6.0.4 ; python_version >= "3.7" and python_version < "3.12"
-mypy-extensions==1.0.0 ; python_version >= "3.7" and python_version < "3.12"
-networkx==2.5 ; python_version >= "3.7" and python_version < "3.12"
-nodeenv==1.8.0 ; python_version >= "3.7" and python_version < "3.12"
+fastapi-utils==0.2.1 ; python_version >= "3.7" and python_version < "3.13"
+fastapi==0.98.0 ; python_version >= "3.7" and python_version < "3.13"
+filelock==3.12.2 ; python_version >= "3.7" and python_version < "3.13"
+frozenlist==1.3.3 ; python_version >= "3.7" and python_version < "3.13"
+fs==2.4.16 ; python_version >= "3.7" and python_version < "3.13"
+fsspec==2023.1.0 ; python_version >= "3.7" and python_version < "3.13"
+future==0.18.3 ; python_version >= "3.7" and python_version < "3.13"
+galaxy-sequence-utils==1.1.5 ; python_version >= "3.7" and python_version < "3.13"
+galaxy2cwl==0.1.4 ; python_version >= "3.7" and python_version < "3.13"
+graphene-sqlalchemy==3.0.0b3 ; python_version >= "3.7" and python_version < "3.13"
+graphene==3.3 ; python_version >= "3.7" and python_version < "3.13"
+graphql-core==3.2.3 ; python_version >= "3.7" and python_version < "3.13"
+graphql-relay==3.2.0 ; python_version >= "3.7" and python_version < "3.13"
+gravity==1.0.3 ; python_version >= "3.7" and python_version < "3.13"
+greenlet==2.0.2 ; python_version >= "3.7" and (platform_machine == "aarch64" or platform_machine == "ppc64le" or platform_machine == "x86_64" or platform_machine == "amd64" or platform_machine == "AMD64" or platform_machine == "win32" or platform_machine == "WIN32") and python_version < "3.13"
+gunicorn==21.2.0 ; python_version >= "3.7" and python_version < "3.13"
+gxformat2==0.18.0 ; python_version >= "3.7" and python_version < "3.13"
+h11==0.14.0 ; python_version >= "3.7" and python_version < "3.13"
+h5grove==1.3.0 ; python_version >= "3.7" and python_version < "3.13"
+h5py==3.8.0 ; python_version >= "3.7" and python_version < "3.13"
+humanfriendly==10.0 ; python_version >= "3.7" and python_version < "3.13"
+idna==3.4 ; python_version >= "3.7" and python_version < "3.13"
+importlib-metadata==4.13.0 ; python_version >= "3.7" and python_version < "3.13"
+importlib-resources==5.12.0 ; python_version >= "3.7" and python_version < "3.13"
+isa-rwval==0.10.10 ; python_version >= "3.7" and python_version < "3.13"
+isodate==0.6.1 ; python_version >= "3.7" and python_version < "3.13"
+jinja2==3.1.2 ; python_version >= "3.7" and python_version < "3.13"
+jmespath==1.0.1 ; python_version >= "3.7" and python_version < "3.13"
+jsonref==1.1.0 ; python_version >= "3.7" and python_version < "3.13"
+jsonschema==4.17.3 ; python_version >= "3.7" and python_version < "3.13"
+kombu==5.2.4 ; python_version >= "3.7" and python_version < "3.13"
+lagom==2.5.0 ; python_version >= "3.7" and python_version < "3.13"
+lxml==4.9.3 ; python_version >= "3.7" and python_version < "3.13"
+mako==1.2.4 ; python_version >= "3.7" and python_version < "3.13"
+markdown-it-py==2.2.0 ; python_version >= "3.7" and python_version < "3.13"
+markdown==3.4.4 ; python_version >= "3.7" and python_version < "3.13"
+markupsafe==2.1.3 ; python_version >= "3.7" and python_version < "3.13"
+mdurl==0.1.2 ; python_version >= "3.7" and python_version < "3.13"
+mercurial==6.5.2 ; python_version >= "3.7" and python_version < "3.13"
+mistune==2.0.5 ; python_version >= "3.7" and python_version < "3.13"
+mrcfile==1.4.3 ; python_version >= "3.7" and python_version < "3.13"
+msal==1.24.1 ; python_version >= "3.7" and python_version < "3.13"
+msgpack==1.0.5 ; python_version >= "3.7" and python_version < "3.13"
+multidict==6.0.4 ; python_version >= "3.7" and python_version < "3.13"
+mypy-extensions==1.0.0 ; python_version >= "3.7" and python_version < "3.13"
+networkx==2.5 ; python_version >= "3.7" and python_version < "3.13"
+nodeenv==1.8.0 ; python_version >= "3.7" and python_version < "3.13"
 numpy==1.21.6 ; python_version >= "3.7" and python_version < "3.8"
 numpy==1.24.4 ; python_version >= "3.8" and python_version < "3.9"
-numpy==1.26.0 ; python_version >= "3.9" and python_version < "3.12"
-oauthlib==3.2.2 ; python_version >= "3.7" and python_version < "3.12"
-orjson==3.9.7 ; python_version >= "3.7" and python_version < "3.12"
-oyaml==1.0 ; python_version >= "3.7" and python_version < "3.12"
-packaging==23.1 ; 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==3.5.3 ; 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"
+numpy==1.26.0 ; python_version >= "3.9" and python_version < "3.13"
+oauthlib==3.2.2 ; python_version >= "3.7" and python_version < "3.13"
+orjson==3.9.7 ; python_version >= "3.7" and python_version < "3.13"
+oyaml==1.0 ; python_version >= "3.7" and python_version < "3.13"
+packaging==23.2 ; python_version >= "3.7" and python_version < "3.13"
+paramiko==3.3.1 ; python_version >= "3.7" and python_version < "3.13"
+parsley==1.3 ; python_version >= "3.7" and python_version < "3.13"
+paste==3.6.0 ; python_version >= "3.7" and python_version < "3.13"
+pastedeploy==3.0.1 ; python_version >= "3.7" and python_version < "3.13"
+pebble==5.0.3 ; python_version >= "3.7" and python_version < "3.13"
 pkgutil-resolve-name==1.3.10 ; python_version >= "3.7" and python_version < "3.9"
-prompt-toolkit==3.0.39 ; python_version >= "3.7" and python_version < "3.12"
-prov==1.5.1 ; python_version >= "3.7" and python_version < "3.12"
-psutil==5.9.5 ; 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"
-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"
-pydantic==1.10.13 ; python_version >= "3.7" and python_version < "3.12"
-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"
-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"
-pylibmagic==0.4.0 ; 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"
-pyreadline3==3.4.1 ; sys_platform == "win32" and python_version >= "3.8" and python_version < "3.12"
+promise==2.3 ; python_version >= "3.7" and python_version < "3.13"
+prompt-toolkit==3.0.39 ; python_version >= "3.7" and python_version < "3.13"
+prov==1.5.1 ; python_version >= "3.7" and python_version < "3.13"
+psutil==5.9.5 ; python_version >= "3.7" and python_version < "3.13"
+pulsar-galaxy-lib==0.15.5 ; python_version >= "3.7" and python_version < "3.13"
+pyasn1==0.5.0 ; python_version >= "3.7" and python_version < "3.13"
+pycparser==2.21 ; python_version >= "3.7" and python_version < "3.13"
+pycryptodome==3.19.0 ; python_version >= "3.7" and python_version < "3.13"
+pydantic-tes==0.1.5 ; python_version >= "3.7" and python_version < "3.13"
+pydantic==1.10.13 ; python_version >= "3.7" and python_version < "3.13"
+pydantic[email]==1.10.13 ; python_version >= "3.7" and python_version < "3.13"
+pydot==1.4.2 ; python_version >= "3.7" and python_version < "3.13"
+pyeventsystem==0.1.0 ; python_version >= "3.7" and python_version < "3.13"
+pyfaidx==0.7.2.2 ; python_version >= "3.7" and python_version < "3.13"
+pygments==2.16.1 ; python_version >= "3.7" and python_version < "3.13"
+pyjwt==2.8.0 ; python_version >= "3.7" and python_version < "3.13"
+pyjwt[crypto]==2.8.0 ; python_version >= "3.7" and python_version < "3.13"
+pykwalify==1.8.0 ; python_version >= "3.7" and python_version < "3.13"
+pylibmagic==0.4.0 ; python_version >= "3.7" and python_version < "3.13"
+pynacl==1.5.0 ; python_version >= "3.7" and python_version < "3.13"
+pyparsing==3.0.9 ; python_version >= "3.7" and python_version < "3.13"
+pyreadline3==3.4.1 ; sys_platform == "win32" and python_version >= "3.8" and python_version < "3.13"
 pyreadline==2.1 ; sys_platform == "win32" and python_version < "3.8" and python_version >= "3.7"
-pyrsistent==0.19.3 ; python_version >= "3.7" and python_version < "3.12"
-pysam==0.21.0 ; python_version >= "3.7" and python_version < "3.12"
-python-dateutil==2.8.2 ; python_version >= "3.7" and python_version < "3.12"
-python-jose==3.3.0 ; python_version >= "3.7" and python_version < "3.12"
-python-magic==0.4.27 ; python_version >= "3.7" and python_version < "3.12"
-python-multipart==0.0.6 ; python_version >= "3.7" and python_version < "3.12"
-python3-openid==3.2.0 ; python_version >= "3.7" and python_version < "3.12"
-pytz==2023.3.post1 ; python_version >= "3.7" and python_version < "3.12"
-pyyaml==6.0.1 ; python_version >= "3.7" and python_version < "3.12"
-pyzmq==25.1.1 ; python_version >= "3.7" and python_version < "3.12"
-rdflib==6.2.0 ; python_version >= "3.7" and python_version < "3.12"
-refgenconf==0.12.2 ; python_version >= "3.7" and python_version < "3.12"
-regex==2023.8.8 ; python_version >= "3.7" and python_version < "3.12"
-repoze-lru==0.7 ; python_version >= "3.7" and python_version < "3.12"
-requests-oauthlib==1.3.1 ; python_version >= "3.7" and python_version < "3.12"
-requests-toolbelt==1.0.0 ; python_version >= "3.7" and python_version < "3.12"
-requests-unixsocket==0.3.0 ; python_version >= "3.7" and python_version < "3.12"
-requests==2.31.0 ; python_version >= "3.7" and python_version < "3.12"
-rich==13.5.3 ; python_version >= "3.7" and python_version < "3.12"
-rocrate==0.8.0 ; python_version >= "3.7" and python_version < "3.12"
-routes==2.5.1 ; python_version >= "3.7" and python_version < "3.12"
-rsa==4.9 ; python_version >= "3.7" and python_version < "3.12"
-ruamel-yaml-clib==0.2.7 ; platform_python_implementation == "CPython" and python_version < "3.11" and python_version >= "3.7"
-ruamel-yaml==0.17.21 ; python_version >= "3.7" and python_version < "3.12"
-s3fs==2023.1.0 ; python_version >= "3.7" and python_version < "3.12"
-schema-salad==8.4.20230808163024 ; python_version >= "3.7" and python_version < "3.12"
-setuptools-scm==5.0.2 ; python_version >= "3.7" and python_version < "3.12"
-setuptools==68.0.0 ; python_version >= "3.7" and python_version < "3.12"
-shellescape==3.8.1 ; python_version >= "3.7" and python_version < "3.12"
-six==1.16.0 ; python_version >= "3.7" and python_version < "3.12"
-sniffio==1.3.0 ; python_version >= "3.7" and python_version < "3.12"
-social-auth-core[openidconnect]==4.0.3 ; python_version >= "3.7" and python_version < "3.12"
-sortedcontainers==2.4.0 ; python_version >= "3.7" and python_version < "3.12"
-sqlalchemy==1.4.49 ; python_version >= "3.7" and python_version < "3.12"
-sqlitedict==2.1.0 ; python_version >= "3.7" and python_version < "3.12"
-sqlparse==0.4.4 ; python_version >= "3.7" and python_version < "3.12"
-starlette-context==0.3.5 ; python_version >= "3.7" and python_version < "3.12"
-starlette_graphene3==0.6.0 ; python_version >= "3.7" and python_version < "3.12"
-starlette==0.27.0 ; python_version >= "3.7" and python_version < "3.12"
-supervisor==4.2.5 ; python_version >= "3.7" and python_version < "3.12"
-svgwrite==1.4.3 ; python_version >= "3.7" and python_version < "3.12"
-tenacity==8.2.3 ; python_version >= "3.7" and python_version < "3.12"
-tifffile==2021.11.2 ; python_version >= "3.7" and python_version < "3.12"
-tinydb==4.8.0 ; python_version >= "3.7" and python_version < "3.12"
+pyrsistent==0.19.3 ; python_version >= "3.7" and python_version < "3.13"
+pysam==0.22.0 ; python_version >= "3.7" and python_version < "3.13"
+python-dateutil==2.8.2 ; python_version >= "3.7" and python_version < "3.13"
+python-jose==3.3.0 ; python_version >= "3.7" and python_version < "3.13"
+python-magic==0.4.27 ; python_version >= "3.7" and python_version < "3.13"
+python-multipart==0.0.6 ; python_version >= "3.7" and python_version < "3.13"
+python3-openid==3.2.0 ; python_version >= "3.7" and python_version < "3.13"
+pytz==2023.3.post1 ; python_version >= "3.7" and python_version < "3.13"
+pyyaml==6.0.1 ; python_version >= "3.7" and python_version < "3.13"
+pyzmq==25.1.1 ; python_version >= "3.7" and python_version < "3.13"
+rdflib==6.2.0 ; python_version >= "3.7" and python_version < "3.13"
+refgenconf==0.12.2 ; python_version >= "3.7" and python_version < "3.13"
+regex==2023.10.3 ; python_version >= "3.7" and python_version < "3.13"
+repoze-lru==0.7 ; python_version >= "3.7" and python_version < "3.13"
+requests-oauthlib==1.3.1 ; python_version >= "3.7" and python_version < "3.13"
+requests-toolbelt==1.0.0 ; python_version >= "3.7" and python_version < "3.13"
+requests-unixsocket==0.3.0 ; python_version >= "3.7" and python_version < "3.13"
+requests==2.31.0 ; python_version >= "3.7" and python_version < "3.13"
+rich==13.6.0 ; python_version >= "3.7" and python_version < "3.13"
+rocrate==0.8.0 ; python_version >= "3.7" and python_version < "3.13"
+routes==2.5.1 ; python_version >= "3.7" and python_version < "3.13"
+rsa==4.9 ; python_version >= "3.7" and python_version < "3.13"
+ruamel-yaml-clib==0.2.8 ; platform_python_implementation == "CPython" and python_version < "3.11" and python_version >= "3.7"
+ruamel-yaml==0.17.21 ; python_version >= "3.7" and python_version < "3.13"
+s3fs==2023.1.0 ; python_version >= "3.7" and python_version < "3.13"
+schema-salad==8.4.20230808163024 ; python_version >= "3.7" and python_version < "3.13"
+setuptools-scm==5.0.2 ; python_version >= "3.7" and python_version < "3.13"
+setuptools==68.0.0 ; python_version >= "3.7" and python_version < "3.13"
+shellescape==3.8.1 ; python_version >= "3.7" and python_version < "3.13"
+six==1.16.0 ; python_version >= "3.7" and python_version < "3.13"
+sniffio==1.3.0 ; python_version >= "3.7" and python_version < "3.13"
+social-auth-core[openidconnect]==4.0.3 ; python_version >= "3.7" and python_version < "3.13"
+sortedcontainers==2.4.0 ; python_version >= "3.7" and python_version < "3.13"
+sqlalchemy==1.4.49 ; python_version >= "3.7" and python_version < "3.13"
+sqlitedict==2.1.0 ; python_version >= "3.7" and python_version < "3.13"
+sqlparse==0.4.4 ; python_version >= "3.7" and python_version < "3.13"
+starlette-context==0.3.5 ; python_version >= "3.7" and python_version < "3.13"
+starlette-graphene3==0.6.0 ; python_version >= "3.7" and python_version < "3.13"
+starlette==0.27.0 ; python_version >= "3.7" and python_version < "3.13"
+supervisor==4.2.5 ; python_version >= "3.7" and python_version < "3.13"
+svgwrite==1.4.3 ; python_version >= "3.7" and python_version < "3.13"
+tenacity==8.2.3 ; python_version >= "3.7" and python_version < "3.13"
+tifffile==2021.11.2 ; python_version >= "3.7" and python_version < "3.13"
+tinydb==4.8.0 ; python_version >= "3.7" and python_version < "3.13"
 tomli==2.0.1 ; python_version >= "3.7" and python_version < "3.11"
-tornado==6.2 ; python_version >= "3.7" and python_version < "3.12"
-tqdm==4.66.1 ; python_version >= "3.7" and python_version < "3.12"
-tuspy==1.0.1 ; python_version >= "3.7" and python_version < "3.12"
-tuswsgi==0.5.5 ; python_version >= "3.7" and python_version < "3.12"
-typing-extensions==4.7.1 ; python_version >= "3.7" and python_version < "3.12"
-tzdata==2023.3 ; python_version >= "3.7" and python_version < "3.12" and platform_system == "Windows"
-tzlocal==5.0.1 ; python_version >= "3.7" and python_version < "3.12"
-ubiquerg==0.6.3 ; python_version >= "3.7" and python_version < "3.12"
-urllib3==1.26.16 ; python_version >= "3.7" and python_version < "3.12"
-uvicorn==0.22.0 ; python_version >= "3.7" and python_version < "3.12"
-uvloop==0.17.0 ; python_version >= "3.7" and python_version < "3.12"
-vine==5.0.0 ; python_version >= "3.7" and python_version < "3.12"
-wcwidth==0.2.7 ; 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==1.15.0 ; python_version >= "3.7" and python_version < "3.12"
-yacman==0.9.1 ; python_version >= "3.7" and python_version < "3.12"
-yarl==1.9.2 ; 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"
+tornado==6.2 ; python_version >= "3.7" and python_version < "3.13"
+tqdm==4.66.1 ; python_version >= "3.7" and python_version < "3.13"
+tuspy==1.0.1 ; python_version >= "3.7" and python_version < "3.13"
+tuswsgi==0.5.5 ; python_version >= "3.7" and python_version < "3.13"
+typing-extensions==4.7.1 ; python_version >= "3.7" and python_version < "3.13"
+tzdata==2023.3 ; python_version >= "3.7" and python_version < "3.13" and platform_system == "Windows"
+tzlocal==5.1 ; python_version >= "3.7" and python_version < "3.13"
+ubiquerg==0.6.3 ; python_version >= "3.7" and python_version < "3.13"
+urllib3==1.26.17 ; python_version >= "3.7" and python_version < "3.13"
+uvicorn==0.22.0 ; python_version >= "3.7" and python_version < "3.13"
+uvloop==0.17.0 ; python_version >= "3.7" and python_version < "3.13"
+vine==5.0.0 ; python_version >= "3.7" and python_version < "3.13"
+wcwidth==0.2.8 ; python_version >= "3.7" and python_version < "3.13"
+webencodings==0.5.1 ; python_version >= "3.7" and python_version < "3.13"
+webob==1.8.7 ; python_version >= "3.7" and python_version < "3.13"
+whoosh==2.7.4 ; python_version >= "3.7" and python_version < "3.13"
+wrapt==1.15.0 ; python_version >= "3.7" and python_version < "3.13"
+yacman==0.9.2 ; python_version >= "3.7" and python_version < "3.13"
+yarl==1.9.2 ; python_version >= "3.7" and python_version < "3.13"
+zipp==3.15.0 ; python_version >= "3.7" and python_version < "3.13"
+zipstream-new==1.1.8 ; python_version >= "3.7" and python_version < "3.13"
+zstandard==0.21.0 ; python_version >= "3.7" and python_version < "3.13"
diff --git a/lib/galaxy/dependencies/pinned-typecheck-requirements.txt b/lib/galaxy/dependencies/pinned-typecheck-requirements.txt
index bd28fe6209bf..74d50158e43d 100644
--- a/lib/galaxy/dependencies/pinned-typecheck-requirements.txt
+++ b/lib/galaxy/dependencies/pinned-typecheck-requirements.txt
@@ -1,22 +1,22 @@
-cffi==1.15.1 ; python_version >= "3.7" and python_version < "3.12"
-cryptography==41.0.4 ; python_version >= "3.7" and python_version < "3.12"
-mypy-extensions==1.0.0 ; python_version >= "3.7" and python_version < "3.12"
-mypy==1.4.1 ; python_version >= "3.7" and python_version < "3.12"
-pycparser==2.21 ; python_version >= "3.7" and python_version < "3.12"
-pydantic==1.10.13 ; python_version >= "3.7" and python_version < "3.12"
+cffi==1.15.1 ; python_version >= "3.7" and python_version < "3.13"
+cryptography==41.0.4 ; python_version >= "3.7" and python_version < "3.13"
+mypy-extensions==1.0.0 ; python_version >= "3.7" and python_version < "3.13"
+mypy==1.4.1 ; python_version >= "3.7" and python_version < "3.13"
+pycparser==2.21 ; python_version >= "3.7" and python_version < "3.13"
+pydantic==1.10.13 ; python_version >= "3.7" and python_version < "3.13"
 tomli==2.0.1 ; python_version >= "3.7" and python_version < "3.11"
 typed-ast==1.5.5 ; python_version >= "3.7" and python_version < "3.8"
-types-bleach==6.0.0.4 ; python_version >= "3.7" and python_version < "3.12"
-types-boto==2.49.18.9 ; python_version >= "3.7" and python_version < "3.12"
-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==3.4.2.10 ; 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-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"
-types-requests==2.31.0.6 ; python_version >= "3.7" and python_version < "3.12"
-types-six==1.16.21.9 ; python_version >= "3.7" and python_version < "3.12"
-types-urllib3==1.26.25.14 ; python_version >= "3.7" and python_version < "3.12"
-typing-extensions==4.7.1 ; python_version >= "3.7" and python_version < "3.12"
+types-bleach==6.0.0.5 ; python_version >= "3.7" and python_version < "3.13"
+types-boto==2.49.18.9 ; python_version >= "3.7" and python_version < "3.13"
+types-contextvars==2.4.7.3 ; python_version >= "3.7" and python_version < "3.13"
+types-dataclasses==0.6.6 ; python_version >= "3.7" and python_version < "3.13"
+types-docutils==0.20.0.3 ; python_version >= "3.7" and python_version < "3.13"
+types-markdown==3.4.2.10 ; python_version >= "3.7" and python_version < "3.13"
+types-paramiko==3.3.0.0 ; python_version >= "3.7" and python_version < "3.13"
+types-pkg-resources==0.1.3 ; python_version >= "3.7" and python_version < "3.13"
+types-python-dateutil==2.8.19.14 ; python_version >= "3.7" and python_version < "3.13"
+types-pyyaml==6.0.12.12 ; python_version >= "3.7" and python_version < "3.13"
+types-requests==2.31.0.6 ; python_version >= "3.7" and python_version < "3.13"
+types-six==1.16.21.9 ; python_version >= "3.7" and python_version < "3.13"
+types-urllib3==1.26.25.14 ; python_version >= "3.7" and python_version < "3.13"
+typing-extensions==4.7.1 ; python_version >= "3.7" and python_version < "3.13"
diff --git a/lib/galaxy/dependencies/update.sh b/lib/galaxy/dependencies/update.sh
index 7771ea30791e..c294d7652eef 100755
--- a/lib/galaxy/dependencies/update.sh
+++ b/lib/galaxy/dependencies/update.sh
@@ -6,8 +6,8 @@
 
 set -e
 
-SUPPORTED_PYTHON_VERSIONS="3.7 3.8 3.9 3.10 3.11"
-NOT_SUPPORTED_NEXT_PYTHON_VERSION="3.12"
+SUPPORTED_PYTHON_VERSIONS="3.7 3.8 3.9 3.10 3.11 3.12"
+NOT_SUPPORTED_NEXT_PYTHON_VERSION="3.13"
 
 this_directory="$(cd "$(dirname "$0")" > /dev/null && pwd)"
 
diff --git a/packages/app/setup.cfg b/packages/app/setup.cfg
index c8cc845deed1..3869d9db2d2d 100644
--- a/packages/app/setup.cfg
+++ b/packages/app/setup.cfg
@@ -14,6 +14,7 @@ classifiers =
     Programming Language :: Python :: 3.9
     Programming Language :: Python :: 3.10
     Programming Language :: Python :: 3.11
+    Programming Language :: Python :: 3.12
     Topic :: Software Development
     Topic :: Software Development :: Code Generators
     Topic :: Software Development :: Testing
diff --git a/packages/auth/setup.cfg b/packages/auth/setup.cfg
index cca3a9b7ad7c..7dd09257f05b 100644
--- a/packages/auth/setup.cfg
+++ b/packages/auth/setup.cfg
@@ -14,6 +14,7 @@ classifiers =
     Programming Language :: Python :: 3.9
     Programming Language :: Python :: 3.10
     Programming Language :: Python :: 3.11
+    Programming Language :: Python :: 3.12
     Topic :: Software Development
     Topic :: Software Development :: Code Generators
     Topic :: Software Development :: Testing
@@ -39,4 +40,4 @@ python_requires = >=3.7
 
 [options.packages.find]
 exclude =
-    tests*
\ No newline at end of file
+    tests*
diff --git a/packages/config/setup.cfg b/packages/config/setup.cfg
index 16d2815d2a2e..8c9854d0e555 100644
--- a/packages/config/setup.cfg
+++ b/packages/config/setup.cfg
@@ -14,6 +14,7 @@ classifiers =
     Programming Language :: Python :: 3.9
     Programming Language :: Python :: 3.10
     Programming Language :: Python :: 3.11
+    Programming Language :: Python :: 3.12
     Topic :: Software Development
     Topic :: Software Development :: Code Generators
     Topic :: Software Development :: Testing
@@ -46,4 +47,4 @@ console_scripts =
 
 [options.packages.find]
 exclude =
-    tests*
\ No newline at end of file
+    tests*
diff --git a/packages/data/setup.cfg b/packages/data/setup.cfg
index 02f74386b9d5..11f9c26a9f94 100644
--- a/packages/data/setup.cfg
+++ b/packages/data/setup.cfg
@@ -14,6 +14,7 @@ classifiers =
     Programming Language :: Python :: 3.9
     Programming Language :: Python :: 3.10
     Programming Language :: Python :: 3.11
+    Programming Language :: Python :: 3.12
     Topic :: Software Development
     Topic :: Software Development :: Code Generators
     Topic :: Software Development :: Testing
diff --git a/packages/files/setup.cfg b/packages/files/setup.cfg
index 9f89c257b476..56f3e60eec31 100644
--- a/packages/files/setup.cfg
+++ b/packages/files/setup.cfg
@@ -14,6 +14,7 @@ classifiers =
     Programming Language :: Python :: 3.9
     Programming Language :: Python :: 3.10
     Programming Language :: Python :: 3.11
+    Programming Language :: Python :: 3.12
     Topic :: Software Development
     Topic :: Software Development :: Code Generators
     Topic :: Software Development :: Testing
diff --git a/packages/job_execution/setup.cfg b/packages/job_execution/setup.cfg
index ea1943235b8a..47b15dea2ed8 100644
--- a/packages/job_execution/setup.cfg
+++ b/packages/job_execution/setup.cfg
@@ -14,6 +14,7 @@ classifiers =
     Programming Language :: Python :: 3.9
     Programming Language :: Python :: 3.10
     Programming Language :: Python :: 3.11
+    Programming Language :: Python :: 3.12
     Topic :: Software Development
     Topic :: Software Development :: Code Generators
     Topic :: Software Development :: Testing
@@ -49,4 +50,4 @@ console_scripts =
 
 [options.packages.find]
 exclude =
-    tests*
\ No newline at end of file
+    tests*
diff --git a/packages/job_metrics/setup.cfg b/packages/job_metrics/setup.cfg
index d9576a25c86d..4d16b381adcc 100644
--- a/packages/job_metrics/setup.cfg
+++ b/packages/job_metrics/setup.cfg
@@ -14,6 +14,7 @@ classifiers =
     Programming Language :: Python :: 3.9
     Programming Language :: Python :: 3.10
     Programming Language :: Python :: 3.11
+    Programming Language :: Python :: 3.12
     Topic :: Software Development
     Topic :: Software Development :: Code Generators
     Topic :: Software Development :: Testing
@@ -38,4 +39,4 @@ python_requires = >=3.7
 
 [options.packages.find]
 exclude =
-    tests*
\ No newline at end of file
+    tests*
diff --git a/packages/meta/setup.cfg b/packages/meta/setup.cfg
index 516107f5088d..3a32a5e137b6 100644
--- a/packages/meta/setup.cfg
+++ b/packages/meta/setup.cfg
@@ -15,6 +15,7 @@ classifiers =
     Programming Language :: Python :: 3.9
     Programming Language :: Python :: 3.10
     Programming Language :: Python :: 3.11
+    Programming Language :: Python :: 3.12
     Topic :: Scientific/Engineering :: Bio-Informatics
     Topic :: Software Development
     Topic :: Software Development :: Code Generators
diff --git a/packages/navigation/setup.cfg b/packages/navigation/setup.cfg
index 3b16102ad68c..b3ee2fea2e0d 100644
--- a/packages/navigation/setup.cfg
+++ b/packages/navigation/setup.cfg
@@ -14,6 +14,7 @@ classifiers =
     Programming Language :: Python :: 3.9
     Programming Language :: Python :: 3.10
     Programming Language :: Python :: 3.11
+    Programming Language :: Python :: 3.12
     Topic :: Software Development
     Topic :: Software Development :: Code Generators
     Topic :: Software Development :: Testing
@@ -39,4 +40,4 @@ python_requires = >=3.7
 
 [options.packages.find]
 exclude =
-    tests*
\ No newline at end of file
+    tests*
diff --git a/packages/objectstore/setup.cfg b/packages/objectstore/setup.cfg
index 69fc1352966c..b83e74a8c6d3 100644
--- a/packages/objectstore/setup.cfg
+++ b/packages/objectstore/setup.cfg
@@ -14,6 +14,7 @@ classifiers =
     Programming Language :: Python :: 3.9
     Programming Language :: Python :: 3.10
     Programming Language :: Python :: 3.11
+    Programming Language :: Python :: 3.12
     Topic :: Software Development
     Topic :: Software Development :: Code Generators
     Topic :: Software Development :: Testing
@@ -40,4 +41,4 @@ python_requires = >=3.7
 
 [options.packages.find]
 exclude =
-    tests*
\ No newline at end of file
+    tests*
diff --git a/packages/schema/setup.cfg b/packages/schema/setup.cfg
index 507f563909ea..1fdec2328835 100644
--- a/packages/schema/setup.cfg
+++ b/packages/schema/setup.cfg
@@ -13,6 +13,8 @@ classifiers =
     Programming Language :: Python :: 3.8
     Programming Language :: Python :: 3.9
     Programming Language :: Python :: 3.10
+    Programming Language :: Python :: 3.11
+    Programming Language :: Python :: 3.12
     Topic :: Software Development
     Topic :: Software Development :: Code Generators
     Topic :: Software Development :: Testing
diff --git a/packages/selenium/setup.cfg b/packages/selenium/setup.cfg
index a95b3a449dfa..8f351396bed7 100644
--- a/packages/selenium/setup.cfg
+++ b/packages/selenium/setup.cfg
@@ -14,6 +14,7 @@ classifiers =
     Programming Language :: Python :: 3.9
     Programming Language :: Python :: 3.10
     Programming Language :: Python :: 3.11
+    Programming Language :: Python :: 3.12
     Topic :: Software Development
     Topic :: Software Development :: Code Generators
     Topic :: Software Development :: Testing
@@ -47,4 +48,4 @@ console_scripts =
 
 [options.packages.find]
 exclude =
-    tests*
\ No newline at end of file
+    tests*
diff --git a/packages/test_api/setup.cfg b/packages/test_api/setup.cfg
index 2a09121053d3..5ba684fff4b2 100644
--- a/packages/test_api/setup.cfg
+++ b/packages/test_api/setup.cfg
@@ -14,6 +14,7 @@ classifiers =
     Programming Language :: Python :: 3.9
     Programming Language :: Python :: 3.10
     Programming Language :: Python :: 3.11
+    Programming Language :: Python :: 3.12
     Topic :: Software Development
     Topic :: Software Development :: Code Generators
     Topic :: Software Development :: Testing
@@ -46,4 +47,4 @@ driver =
 
 [options.packages.find]
 exclude =
-    tests*
\ No newline at end of file
+    tests*
diff --git a/packages/test_base/setup.cfg b/packages/test_base/setup.cfg
index a1eec0ef392e..b370c2c55db1 100644
--- a/packages/test_base/setup.cfg
+++ b/packages/test_base/setup.cfg
@@ -14,6 +14,7 @@ classifiers =
     Programming Language :: Python :: 3.9
     Programming Language :: Python :: 3.10
     Programming Language :: Python :: 3.11
+    Programming Language :: Python :: 3.12
     Topic :: Software Development
     Topic :: Software Development :: Code Generators
     Topic :: Software Development :: Testing
@@ -45,4 +46,4 @@ python_requires = >=3.7
 
 [options.packages.find]
 exclude =
-    tests*
\ No newline at end of file
+    tests*
diff --git a/packages/test_driver/setup.cfg b/packages/test_driver/setup.cfg
index cd64afd37a8c..9542bd8fbd2f 100644
--- a/packages/test_driver/setup.cfg
+++ b/packages/test_driver/setup.cfg
@@ -14,6 +14,7 @@ classifiers =
     Programming Language :: Python :: 3.9
     Programming Language :: Python :: 3.10
     Programming Language :: Python :: 3.11
+    Programming Language :: Python :: 3.12
     Topic :: Software Development
     Topic :: Software Development :: Code Generators
     Topic :: Software Development :: Testing
@@ -47,4 +48,4 @@ python_requires = >=3.7
 
 [options.packages.find]
 exclude =
-    tests*
\ No newline at end of file
+    tests*
diff --git a/packages/test_selenium/setup.cfg b/packages/test_selenium/setup.cfg
index dca41568d040..5cc9fd6ff879 100644
--- a/packages/test_selenium/setup.cfg
+++ b/packages/test_selenium/setup.cfg
@@ -14,6 +14,7 @@ classifiers =
     Programming Language :: Python :: 3.9
     Programming Language :: Python :: 3.10
     Programming Language :: Python :: 3.11
+    Programming Language :: Python :: 3.12
     Topic :: Software Development
     Topic :: Software Development :: Code Generators
     Topic :: Software Development :: Testing
diff --git a/packages/tool_shed/setup.cfg b/packages/tool_shed/setup.cfg
index 4c5cc82377d2..df5b81d2c36a 100644
--- a/packages/tool_shed/setup.cfg
+++ b/packages/tool_shed/setup.cfg
@@ -13,6 +13,8 @@ classifiers =
     Programming Language :: Python :: 3.8
     Programming Language :: Python :: 3.9
     Programming Language :: Python :: 3.10
+    Programming Language :: Python :: 3.11
+    Programming Language :: Python :: 3.12
     Topic :: Software Development
     Topic :: Software Development :: Code Generators
     Topic :: Software Development :: Testing
diff --git a/packages/tool_util/setup.cfg b/packages/tool_util/setup.cfg
index 817bd9080842..2f8d1a538d62 100644
--- a/packages/tool_util/setup.cfg
+++ b/packages/tool_util/setup.cfg
@@ -14,6 +14,7 @@ classifiers =
     Programming Language :: Python :: 3.9
     Programming Language :: Python :: 3.10
     Programming Language :: Python :: 3.11
+    Programming Language :: Python :: 3.12
     Topic :: Software Development
     Topic :: Software Development :: Code Generators
     Topic :: Software Development :: Testing
diff --git a/packages/tours/setup.cfg b/packages/tours/setup.cfg
index 1186d0ad6ccf..f9d9eb8a4668 100644
--- a/packages/tours/setup.cfg
+++ b/packages/tours/setup.cfg
@@ -14,6 +14,7 @@ classifiers =
     Programming Language :: Python :: 3.9
     Programming Language :: Python :: 3.10
     Programming Language :: Python :: 3.11
+    Programming Language :: Python :: 3.12
     Topic :: Software Development
     Topic :: Software Development :: Code Generators
     Topic :: Software Development :: Testing
diff --git a/packages/util/setup.cfg b/packages/util/setup.cfg
index 03afa41b853b..db3c2e9c1c54 100644
--- a/packages/util/setup.cfg
+++ b/packages/util/setup.cfg
@@ -14,6 +14,7 @@ classifiers =
     Programming Language :: Python :: 3.9
     Programming Language :: Python :: 3.10
     Programming Language :: Python :: 3.11
+    Programming Language :: Python :: 3.12
     Topic :: Software Development
     Topic :: Software Development :: Code Generators
     Topic :: Software Development :: Testing
diff --git a/packages/web_apps/setup.cfg b/packages/web_apps/setup.cfg
index f2468f577aba..613e94b61df6 100644
--- a/packages/web_apps/setup.cfg
+++ b/packages/web_apps/setup.cfg
@@ -14,6 +14,7 @@ classifiers =
     Programming Language :: Python :: 3.9
     Programming Language :: Python :: 3.10
     Programming Language :: Python :: 3.11
+    Programming Language :: Python :: 3.12
     Topic :: Software Development
     Topic :: Software Development :: Code Generators
     Topic :: Software Development :: Testing
diff --git a/packages/web_framework/setup.cfg b/packages/web_framework/setup.cfg
index 6919f2c9b07c..496aefc1f1da 100644
--- a/packages/web_framework/setup.cfg
+++ b/packages/web_framework/setup.cfg
@@ -14,6 +14,7 @@ classifiers =
     Programming Language :: Python :: 3.9
     Programming Language :: Python :: 3.10
     Programming Language :: Python :: 3.11
+    Programming Language :: Python :: 3.12
     Topic :: Software Development
     Topic :: Software Development :: Code Generators
     Topic :: Software Development :: Testing
diff --git a/packages/web_stack/setup.cfg b/packages/web_stack/setup.cfg
index 54b91dfad20c..5a1ba7de0156 100644
--- a/packages/web_stack/setup.cfg
+++ b/packages/web_stack/setup.cfg
@@ -14,6 +14,7 @@ classifiers =
     Programming Language :: Python :: 3.9
     Programming Language :: Python :: 3.10
     Programming Language :: Python :: 3.11
+    Programming Language :: Python :: 3.12
     Topic :: Software Development
     Topic :: Software Development :: Code Generators
     Topic :: Software Development :: Testing
@@ -39,4 +40,4 @@ python_requires = >=3.7
 
 [options.packages.find]
 exclude =
-    tests*
\ No newline at end of file
+    tests*
diff --git a/pyproject.toml b/pyproject.toml
index 4794d781629d..6ee0d2732135 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -95,7 +95,7 @@ pykwalify = "*"
 pylibmagic = "*"
 pyparsing = "<3.1"  # Needed by matplotlib on Python >=3.8 https://github.com/matplotlib/matplotlib/issues/26152
 pysam = ">=0.21"  # for Python 3.11 support on macOS
-python = ">=3.7,<3.12"  # Keep maximum version strict to appease numpy and scipy
+python = ">=3.7,<3.13"  # Keep maximum version strict to appease numpy and scipy
 python-dateutil = "*"
 python-magic = "*"
 python-multipart = "*"  # required to support form parsing in FastAPI/Starlette