You reference comments are wrong. There needs to be three slashes ///
:
///<reference path="./server/types/node.d.ts"/>
///<reference path="./server/types/express.d.ts"/>
The only way you can get that error if you are using this reference file https://github.com/borisyankov/DefinitelyTyped/blob/master/express/express.d.ts#L26 was that your reference comments were wrong and typescript was not reading that express.d.ts
:)