What is emeraldd.exe file with 48MB in your upload?
Besides that, your files come out almost clean:
SHA256: e7f0e787f100161b3c7f2d4aa8d2a2498fca78237849814e48a43273357a6d51
File name: Emerald13.zip
Detection ratio: 0 / 49
Analysis date: 2014-05-10 11:42:34 UTC
SHA256: c32776810892d6e463604129a1cc1b06097e66b533bdcd5004d91a1e94ca3b3e
File name: emerald-qt.exe
Detection ratio: 0 / 52
Analysis date: 2014-05-10 11:44:58 UTC
SHA256: ff2d099934f7b95b3ff197f16ba825f6e54589cef23832f1fc852314eb9cccff
File name: emeraldd.exe
Detection ratio: 1 / 51
Analysis date: 2014-05-10 11:50:01 UTC
That's the compiled daemon, not needed for windows. If you want to compile your own daemon for *nix you can do so by cloning the src from github.