If I understand you correctly then you are probably looking for a way in which lights in the scene interact with models in the scene. Also, you want each light to be visually debuggable in scene, maybe by drawing a cube. Here's one of the simplest way to do it. There could be more better & optimized ways of doing this.
You can have a class for Each light type eg> PointLight, DirectionalLight etc each with their own properties. You need to have a class which then keeps track of all the lights in the scene. This class will have list of light types in the scene. This class will also have functions for adding active lights from the scene to it's list of lights. Usual get-set functions for accessing individual lights will be required too.
// maybe create singleton object here..
void GatherPointLights(PointLight* light);
PointLight GetPointLight(int id);
void LightsManager::GatherPointLights(PointLight* light)
numPointLights = vecPointLights.size();
In your class where you create objects in the scene, you can then add light objects from the scene to this LightManager using the function you created earlier.
Assuming scene class where all the objects including Lights are created...
// load mesh
// add lights
light1.color = Color::Red;
light1.position = vec3(0,0,0);
If LightManager creates singleton object then you can then access all the lights in the scene by their type during actual rendering to extract their properties in a class where you render actual scene geometry by passing light color, position etc to a shader which draws scene geometry.
Now drawing the actual debug geometry for any light object, say cube for point light, I would make sure my PointLight type object has a way of rendering cube at a Point light position, using it's color property to draw cube of that same color with a flat color shader.
As per making sure lights are not lighting actual light debug geometry, if your cube drawing shader is a flat color shader representing color of a light, then it will not be affected by any light in the scene.
Hope this is what you asked for.