### Godot version

4.0 beta 15

### System information

Windows 10

### Issue description

When ticking `apply_root_scale` the scale is not applied to custom collision shape set in importer.
This apply for `shape_type`  Box, Sphere, Cylinder and Capsule

_I tried to fix it myself but i'm a bit confused on how to have acces to the `apply_root_scale` and `root_scale` at the moment where the shape is generated_

### Steps to reproduce

- Add a 3d model.
- Generate physics for the mesh
- Select a `shape_type` for example Box
- Add `root_scale` != 1 and tick `apply_root_scale`

### Minimal reproduction project

[BoxColliderImport.zip](https://github.com/godotengine/godot/files/10500751/BoxColliderImport.zip)

}
	if (_teststr(name, "colonly") || _teststr(name, "convcolonly")) {
		if (isroot) {
			return p_node;
		}
		String fixed_name;
		if (_teststr(name, "colonly")) {
			fixed_name = _fixstr(name, "colonly");
		} else if (_teststr(name, "convcolonly")) {
			fixed_name = _fixstr(name, "convcolonly");
		}
		ERR_FAIL_COND_V(fixed_name.is_empty(), nullptr);
		ImporterMeshInstance3D *mi = Object::cast_to<ImporterMeshInstance3D>(p_node);
		if (mi) {
			Ref<ImporterMesh> mesh = mi->get_mesh();
			if (mesh.is_valid()) {
				Vector<Ref<Shape3D>> shapes;
				if (r_collision_map.has(mesh)) {
					shapes = r_collision_map[mesh];
				} else if (_teststr(name, "colonly")) {
					_pre_gen_shape_list(mesh, shapes, false);
					r_collision_map[mesh] = shapes;
				} else if (_teststr(name, "convcolonly")) {
					_pre_gen_shape_list(mesh, shapes, true);
					r_collision_map[mesh] = shapes;
				}
				if (shapes.size()) {
					StaticBody3D *col = memnew(StaticBody3D);
					col->set_transform(mi->get_transform());
					col->set_name(fixed_name);