Fix resolution of -with-tower with TOWER_API_ENDPOINT

[bentsherman]

Close #7044

Previously, the ConfigBuilder assigned defaults for all of the -with-* CLI options. Now that these config settings are accessed through config classes like TowerConfig and WaveConfig, default values should only be assigned there instead of ConfigBuilder

The report options like -with-report were already corrected. This PR applies the same refactor to -with-tower and -with-wave

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[pditommaso]

Which versions are affected by this issue?

[bentsherman]

The linked issue confirmed in for 25.10

However, I think this has always been the behavior, since the ConfigBuilder does not check the environment var when applying the default value. So I don't think it's a regression