tsconfig – How to set correct compiler output location for multiple directories (Atom)

I ended up getting what I wanted with this layout:

public/
    js/
        lib/
        test/
src/
    ts/
        lib/
        test/

In src/ts/test/tsconfig.json:

"outDir": "../../../public/js"

In src/ts/lib/tsconfig.json:

"outDir": "../../../public/js/lib"

In src/ts/test/test.ts:

/// <reference path="../lib/CoolStuff.ts" />

In Atom, if you’re working in src/ts/lib, building will compile those files into public/js/lib.

If you’re working in src/ts/test, the build will compile *.ts in test – as well as all files referenced. I don’t see a way to prevent referenced file compilation, but at least with this layout they go to the same location.