i.e running having a directory 'project' with tsconfig and file:

import * as foo from "./bar/baz";

And then running transpileProject("project/tsconfig.json") from the parent directory (of the project dir), will result in require("project.bar.baz") because Emit falls back on process.cwd() instead of the project (tsconfig) dir: https://github.com/TypeScriptToLua/TypeScriptToLua/blob/master/src/Emit.ts#L24