diff --git a/lib/galaxy/auth/providers/ldap_ad.py b/lib/galaxy/auth/providers/ldap_ad.py
index 6d552711d7f..9f540e489d9 100644
--- a/lib/galaxy/auth/providers/ldap_ad.py
+++ b/lib/galaxy/auth/providers/ldap_ad.py
@@ -213,8 +213,7 @@ class LDAP(AuthProvider):
 
                 if self.auto_create_roles_or_groups and self.role_search_option not in params:
                     raise ConfigurationError(
-                        "Missing or mismatching LDAP parameters for %s. Make sure the %s is "
-                        "included in the 'search-fields'." % (self.role_search_option, self.role_search_attribute)
+                        f"Missing or mismatching LDAP parameters for {self.role_search_option}. Make sure the {self.role_search_attribute} is included in the 'search-fields'."
                     )
                 params["dn"] = dn
             except Exception:
@@ -400,8 +399,7 @@ class LDAP3(LDAP):
 
                 if self.auto_create_roles_or_groups and self.role_search_option not in params:
                     raise ConfigurationError(
-                        "Missing or mismatching LDAP parameters for %s. Make sure the %s is "
-                        "included in the 'search-fields'." % (self.role_search_option, self.role_search_attribute)
+                        f"Missing or mismatching LDAP parameters for {self.role_search_option}. Make sure the {self.role_search_attribute} is included in the 'search-fields'."
                     )
                 params["dn"] = dn
             except Exception:
diff --git a/lib/galaxy/dependencies/dev-requirements.txt b/lib/galaxy/dependencies/dev-requirements.txt
index 07e9ce90740..c18359a11cc 100644
--- a/lib/galaxy/dependencies/dev-requirements.txt
+++ b/lib/galaxy/dependencies/dev-requirements.txt
@@ -24,7 +24,7 @@ click==8.1.3 ; python_version >= "3.7" and python_version < "3.12"
 codespell==2.2.2 ; 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 python_version >= "3.7" and python_version < "3.12" and platform_system == "Windows"
 commonmark==0.9.1 ; python_version >= "3.7" and python_version < "3.12"
-coverage[toml]==7.0.5 ; python_version >= "3.7" and python_version < "3.12"
+coverage[toml]==7.1.0 ; python_version >= "3.7" and python_version < "3.12"
 cwltest==2.3.20230108193615 ; python_version >= "3.7" and python_version < "3.12"
 cycler==0.11.0 ; python_version >= "3.7" and python_version < "3.12"
 darker==1.6.1 ; python_version >= "3.7" and python_version < "3.12"
@@ -44,7 +44,7 @@ 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 < "3.10"
 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==5.11.4 ; python_version >= "3.7" and python_version < "3.12"
+isort==5.11.5 ; python_version >= "3.7" and python_version < "3.12"
 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"
 kiwisolver==1.4.4 ; python_version >= "3.7" and python_version < "3.12"
@@ -64,7 +64,7 @@ numpy==1.21.6 ; python_version >= "3.7" and python_version < "3.8"
 numpy==1.24.1 ; python_version >= "3.8" and python_version < "3.12"
 outcome==1.2.0 ; python_version >= "3.7" and python_version < "3.12"
 packaging==21.3 ; python_version >= "3.7" and python_version < "3.12"
-pathspec==0.10.3 ; python_version >= "3.7" and python_version < "3.12"
+pathspec==0.11.0 ; python_version >= "3.7" and python_version < "3.12"
 pillow==9.4.0 ; python_version >= "3.7" and python_version < "3.12"
 pkce==1.0.3 ; python_version >= "3.7" and python_version < "3.12"
 platformdirs==2.6.2 ; python_version >= "3.7" and python_version < "3.12"
@@ -101,12 +101,12 @@ responses==0.22.0 ; python_version >= "3.7" and python_version < "3.12"
 rfc3986[idna2008]==1.5.0 ; 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==8.3.20230109181936 ; python_version >= "3.7" and python_version < "3.12"
+schema-salad==8.4.20230201194352 ; python_version >= "3.7" and python_version < "3.12"
 scipy==1.7.3 ; python_version >= "3.7" and python_version < "3.8"
 scipy==1.10.0 ; python_version >= "3.8" and python_version < "3.12"
-selenium==4.7.2 ; python_version >= "3.7" and python_version < "3.12"
+selenium==4.8.0 ; python_version >= "3.7" and python_version < "3.12"
 seletools==1.3.0 ; python_version >= "3.7" and python_version < "3.12"
-setuptools==66.1.1 ; python_version >= "3.7" and python_version < "3.12"
+setuptools==67.1.0 ; 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"
@@ -130,7 +130,7 @@ trio==0.22.0 ; python_version >= "3.7" and python_version < "3.12"
 tuspy==1.0.0 ; python_version >= "3.7" and python_version < "3.12"
 twill==3.1 ; python_version >= "3.7" and python_version < "3.12"
 typed-ast==1.5.4 ; python_version < "3.8" and implementation_name == "cpython" and python_version >= "3.7"
-types-toml==0.10.8.1 ; python_version >= "3.7" and python_version < "3.12"
+types-toml==0.10.8.2 ; python_version >= "3.7" and python_version < "3.12"
 typing-extensions==4.4.0 ; python_version >= "3.7" and python_version < "3.12"
 urllib3==1.26.14 ; python_version >= "3.7" and python_version < "3.12"
 urllib3[socks]==1.26.14 ; python_version >= "3.7" and python_version < "3.12"
@@ -140,4 +140,4 @@ wcwidth==0.2.6 ; python_version >= "3.7" and python_version < "3.12"
 wrapt==1.14.1 ; python_version >= "3.7" and python_version < "3.12"
 wsproto==1.2.0 ; python_version >= "3.7" and python_version < "3.12"
 yarl==1.8.2 ; python_version >= "3.7" and python_version < "3.12"
-zipp==3.11.0 ; python_version >= "3.7" and python_version < "3.10"
+zipp==3.12.0 ; python_version >= "3.7" and python_version < "3.10"
diff --git a/lib/galaxy/dependencies/pinned-lint-requirements.txt b/lib/galaxy/dependencies/pinned-lint-requirements.txt
index e5ca6fafb5d..7d3add276dd 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==0.0.228
+ruff==0.0.241
 typing_extensions==4.4.0
-zipp==3.11.0
+zipp==3.12.0
diff --git a/lib/galaxy/dependencies/pinned-requirements.txt b/lib/galaxy/dependencies/pinned-requirements.txt
index b06e4cc7be7..31c26a48ff3 100644
--- a/lib/galaxy/dependencies/pinned-requirements.txt
+++ b/lib/galaxy/dependencies/pinned-requirements.txt
@@ -21,11 +21,11 @@ babel==2.11.0 ; python_version >= "3.7" and python_version < "3.12"
 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==1.6.3 ; python_version >= "3.7" and python_version < "3.12"
+bdbag==1.6.4 ; python_version >= "3.7" and python_version < "3.12"
 beaker==1.11.0 ; python_version >= "3.7" and python_version < "3.12"
 billiard==3.6.4.0 ; python_version >= "3.7" and python_version < "3.12"
 bioblend==1.0.0 ; python_version >= "3.7" and python_version < "3.12"
-bleach==5.0.1 ; python_version >= "3.7" and python_version < "3.12"
+bleach==6.0.0 ; python_version >= "3.7" and python_version < "3.12"
 boltons==21.0.0 ; python_version >= "3.7" and python_version < "3.12"
 boto==2.49.0 ; python_version >= "3.7" and python_version < "3.12"
 bx-python==0.9.0 ; python_version >= "3.7" and python_version < "3.12"
@@ -48,7 +48,7 @@ colorama==0.4.6 ; python_version >= "3.7" and python_version < "3.12" and platfo
 coloredlogs==15.0.1 ; python_version >= "3.7" and python_version < "3.12"
 cryptography==39.0.0 ; python_version >= "3.7" and python_version < "3.12"
 cwl-upgrader==1.2.4 ; python_version >= "3.7" and python_version < "3.12"
-cwl-utils==0.21 ; python_version >= "3.7" and python_version < "3.12"
+cwl-utils==0.23 ; python_version >= "3.7" and python_version < "3.12"
 cwltool==3.1.20221109155812 ; 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"
@@ -59,7 +59,7 @@ docopt==0.6.2 ; python_version >= "3.7" and python_version < "3.12"
 docutils==0.16 ; 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==1.3.0 ; python_version >= "3.7" and python_version < "3.12"
+email-validator==1.3.1 ; python_version >= "3.7" and python_version < "3.12"
 fastapi-utils==0.2.1 ; python_version >= "3.7" and python_version < "3.12"
 fastapi==0.89.1 ; python_version >= "3.7" and python_version < "3.12"
 flupy==1.2.0 ; python_version >= "3.7" and python_version < "3.12"
@@ -70,7 +70,7 @@ 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"
 gravity @ git+https://github.com/galaxyproject/gravity.git@release_1.x ; python_version >= "3.7" and python_version < "3.12"
-greenlet==2.0.1 ; 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"
+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==20.1.0 ; python_version >= "3.7" and python_version < "3.12"
 gxformat2==0.17.0 ; python_version >= "3.7" and python_version < "3.12"
 h11==0.14.0 ; python_version >= "3.7" and python_version < "3.12"
@@ -120,7 +120,7 @@ psutil==5.9.4 ; python_version >= "3.7" and python_version < "3.12"
 pulsar-galaxy-lib==0.15.0.dev0 ; python_version >= "3.7" and python_version < "3.12"
 pyasn1==0.4.8 ; python_version >= "3.7" and python_version < "3.12"
 pycparser==2.21 ; python_version >= "3.7" and python_version < "3.12"
-pycryptodome==3.16.0 ; python_version >= "3.7" and python_version < "3.12"
+pycryptodome==3.17 ; python_version >= "3.7" and python_version < "3.12"
 pydantic-tes==0.1.5 ; python_version >= "3.7" and python_version < "3.12"
 pydantic==1.10.4 ; python_version >= "3.7" and python_version < "3.12"
 pydantic[email]==1.10.4 ; python_version >= "3.7" and python_version < "3.12"
@@ -152,15 +152,15 @@ requests-oauthlib==1.3.1 ; python_version >= "3.7" and python_version < "3.12"
 requests-toolbelt==0.10.1 ; python_version >= "3.7" and python_version < "3.12"
 requests-unixsocket==0.3.0 ; python_version >= "3.7" and python_version < "3.12"
 requests==2.28.2 ; python_version >= "3.7" and python_version < "3.12"
-rich==13.2.0 ; python_version >= "3.7" and python_version < "3.12"
+rich==13.3.1 ; python_version >= "3.7" and python_version < "3.12"
 rocrate==0.7.0 ; 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 < "3.12" and python_version >= "3.7"
-schema-salad==8.3.20230109181936 ; python_version >= "3.7" and python_version < "3.12"
+schema-salad==8.4.20230201194352 ; python_version >= "3.7" and python_version < "3.12"
 setuptools-scm==5.0.2 ; python_version >= "3.7" and python_version < "3.12"
-setuptools==66.1.1 ; python_version >= "3.7" and python_version < "3.12"
+setuptools==67.1.0 ; 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"
@@ -195,5 +195,5 @@ 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"
 yacman==0.8.4 ; python_version >= "3.7" and python_version < "3.12"
 yarl==1.8.2 ; python_version >= "3.7" and python_version < "3.12"
-zipp==3.11.0 ; python_version >= "3.7" and python_version < "3.10"
+zipp==3.12.0 ; python_version >= "3.7" and python_version < "3.10"
 zipstream-new==1.1.8 ; 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 5b68529c79c..81b572950cf 100644
--- a/lib/galaxy/dependencies/pinned-typecheck-requirements.txt
+++ b/lib/galaxy/dependencies/pinned-typecheck-requirements.txt
@@ -5,7 +5,7 @@ mypy-extensions==0.4.3
 pycparser==2.21
 tomli==2.0.1
 typed-ast==1.5.4
-types-bleach==5.0.3.1
+types-bleach==6.0.0.0
 types-boto==2.49.18.5
 types-contextvars==2.4.7
 types-dataclasses==0.6.6
@@ -14,7 +14,7 @@ types-Markdown==3.4.2.2
 types-paramiko==2.12.0.3
 types-pkg-resources==0.1.3
 types-python-dateutil==2.8.19.6
-types-PyYAML==6.0.12.3
+types-PyYAML==6.0.12.4
 types-requests==2.28.11.8
 types-six==1.16.21.4
 types-urllib3==1.26.25.4
diff --git a/lib/galaxy/jobs/runners/drmaa.py b/lib/galaxy/jobs/runners/drmaa.py
index 128eaac2f49..5c77a091aa2 100644
--- a/lib/galaxy/jobs/runners/drmaa.py
+++ b/lib/galaxy/jobs/runners/drmaa.py
@@ -70,9 +70,7 @@ class DRMAAJobRunner(AsynchronousJobRunner):
             drmaa = __import__("drmaa")
         except (ImportError, RuntimeError) as exc:
             raise exc.__class__(
-                "The Python drmaa package is required to use this "
-                "feature, please install it or correct the "
-                "following error:\n%s: %s" % (exc.__class__.__name__, str(exc))
+                f"The Python drmaa package is required to use this feature, please install it or correct the following error:\n{exc.__class__.__name__}: {str(exc)}"
             )
         from pulsar.managers.util.drmaa import DrmaaSessionFactory
 
diff --git a/lib/galaxy/jobs/runners/kubernetes.py b/lib/galaxy/jobs/runners/kubernetes.py
index bd39b6fe776..1f9e984605c 100644
--- a/lib/galaxy/jobs/runners/kubernetes.py
+++ b/lib/galaxy/jobs/runners/kubernetes.py
@@ -956,8 +956,9 @@ class KubernetesJobRunner(AsynchronousJobRunner):
         jobs = find_job_object_by_name(self._pykube_api, job_state.job_id, self.runner_params["k8s_namespace"])
         if len(jobs.response["items"]) > 1:
             log.warning(
-                "More than one job matches selector: %s. Possible configuration error"
-                " in job id '%s'" % (jobs.response["items"], job_state.job_id)
+                "More than one job matches selector: %s. Possible configuration error in job id '%s'",
+                jobs.response["items"],
+                job_state.job_id,
             )
         elif len(jobs.response["items"]) == 0:
             log.warning("No k8s job found which matches job id '%s'. Ignoring...", job_state.job_id)
diff --git a/lib/galaxy/model/orm/engine_factory.py b/lib/galaxy/model/orm/engine_factory.py
index 5a2b0c5be62..538602fec54 100644
--- a/lib/galaxy/model/orm/engine_factory.py
+++ b/lib/galaxy/model/orm/engine_factory.py
@@ -117,8 +117,7 @@ def build_engine(
         if connection_record.info["pid"] != pid:
             connection_record.dbapi_connection = connection_proxy.dbapi_connection = None
             raise exc.DisconnectionError(
-                "Connection record belongs to pid %s, "
-                "attempting to check out in pid %s" % (connection_record.info["pid"], pid)
+                f"Connection record belongs to pid {connection_record.info['pid']}, attempting to check out in pid {pid}"
             )
 
     return engine
diff --git a/lib/galaxy/objectstore/__init__.py b/lib/galaxy/objectstore/__init__.py
index e216e653c91..17708ecc7db 100644
--- a/lib/galaxy/objectstore/__init__.py
+++ b/lib/galaxy/objectstore/__init__.py
@@ -986,12 +986,10 @@ class DistributedObjectStore(NestedObjectStore):
                     obj.object_store_id = random.choice(self.weighted_backend_ids)
                 except IndexError:
                     raise ObjectInvalid(
-                        "objectstore.create, could not generate "
-                        "obj.object_store_id: %s, kwargs: %s" % (str(obj), str(kwargs))
+                        f"objectstore.create, could not generate obj.object_store_id: {obj}, kwargs: {kwargs}"
                     )
                 log.debug(
-                    "Selected backend '%s' for creation of %s %s"
-                    % (obj.object_store_id, obj.__class__.__name__, obj.id)
+                    "Selected backend '%s' for creation of %s %s", obj.object_store_id, obj.__class__.__name__, obj.id
                 )
             else:
                 log.debug(
diff --git a/lib/galaxy/web/framework/middleware/error.py b/lib/galaxy/web/framework/middleware/error.py
index ba4b47ad83e..e94a7389446 100644
--- a/lib/galaxy/web/framework/middleware/error.py
+++ b/lib/galaxy/web/framework/middleware/error.py
@@ -461,7 +461,7 @@ def send_report(rep, exc_data, html=True):
                 markupsafe.escape(str(rep)), output.getvalue()
             )
         else:
-            return "Additionally an error occurred while sending the " "%s report:\n%s" % (str(rep), output.getvalue())
+            return f"Additionally an error occurred while sending the {rep} report:\n{output.getvalue()}"
     else:
         return ""
 
diff --git a/lib/galaxy/webapps/galaxy/api/job_files.py b/lib/galaxy/webapps/galaxy/api/job_files.py
index c4c6a1e22c8..b063d4c25f0 100644
--- a/lib/galaxy/webapps/galaxy/api/job_files.py
+++ b/lib/galaxy/webapps/galaxy/api/job_files.py
@@ -97,7 +97,7 @@ class JobFilesAPIController(BaseGalaxyAPIController):
             )
             assert file_path.startswith(
                 upload_store
-            ), "Filename provided by nginx (%s) is not in correct" " directory (%s)" % (file_path, upload_store)
+            ), f"Filename provided by nginx ({file_path}) is not in correct directory ({upload_store})"
             input_file = open(file_path)
         else:
             input_file = payload.get("file", payload.get("__file", None)).file
diff --git a/lib/galaxy/webapps/util.py b/lib/galaxy/webapps/util.py
index 7295b52997c..56159bb2e22 100644
--- a/lib/galaxy/webapps/util.py
+++ b/lib/galaxy/webapps/util.py
@@ -43,8 +43,7 @@ def wrap_if_allowed_or_fail(app, stack, wrap, name=None, args=None, kwargs=None)
     name = name or wrap.__name__
     if not stack.allowed_middleware(wrap):
         raise MiddlewareWrapUnsupported(
-            "'%s' is enabled in your configuration but the %s application stack does not support it, this "
-            "middleware has been disabled" % (name, stack.name)
+            f"'{name}' is enabled in your configuration but the {stack.name} application stack does not support it, this middleware has been disabled"
         )
     args = args or []
     kwargs = kwargs or {}