Update Python dependencies

[galaxybot]

Run make update-dependencies.

[nsoranzo]

All test suites pass now except integration tests which fail with errors like:

_____ ERROR at setup of TestConfigSchema.test_schema_path_resolution_graph _____

cls = <class 'integration.test_config_schema.TestConfigSchema'>

    @classmethod
    def setup_class(cls):
>       cls.setUpClass()

lib/galaxy/util/unittest.py:19: 
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 
lib/galaxy_test/driver/integration_util.py:123: in setUpClass
    cls._test_driver.setup(config_object=cls)
lib/galaxy_test/driver/driver_util.py:914: in setup
    self._register_and_run_servers(config_object)
lib/galaxy_test/driver/driver_util.py:969: in _register_and_run_servers
    server_wrapper = launch_server(
lib/galaxy_test/driver/driver_util.py:781: in launch_server
    port = attempt_ports(port)
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 

port = '8148', set_galaxy_web_port = True

    def attempt_ports(port=None, set_galaxy_web_port=True) -> str:
        if port is not None:
            if not attempt_port(int(port)):
>               raise Exception(f"An existing process seems bound to specified test server port [{port}]")
E               Exception: An existing process seems bound to specified test server port [8148]

lib/galaxy_test/driver/driver_util.py:496: Exception

Any idea what could be causing this before I start testing manually each dependency update?

[nsoranzo]

To fix the issue above I had to regenerate the dependency updates with pytest = "<8" in pyproject.toml (which actually downgraded only pytest itself).
I'd rather not pin pytest, so I haven't added the pin to this PR, which means the issue will happen again in the next dependency update PRs while we find a fix.

Anyway, this is green and ready for review/merge.