Refactor how CLI args are applied to Builder

[pvdrz]

These changes abstract away the most commonly used patterns to apply CLI args to the Builder:

if bool_cli_arg {
    builder = builder.method(bool_cli_arg);
}

if let Some(value) = option_cli_arg {
    builder = builder.method(value);
}

for value in vec_cli_arg {
    builder = builder.method(value);
}