Error when using new "flattened" node_modules

[mkunft]

When using the new "flattened" node_modules architecture my app throws the following error:
[TypeError: Cannot assign to read only property 'swagger' of [object Object]]
when instantiation SwaggerExpress

If I install the dependencies with npm install --legacy-bundling the app works perfectly.

Node.JS version 5.7.0 and 5.11.0 both exhibit this behavior.