As a quick test faza power up the display and then "gently" press on the front of the glass . If the missing lines appear when you press on it then it is most likely a bad connection at the pin joints where you connected the new glass ( I have heard that they can be difficult to get to seat correctly) .

Failing that there is some very useful info here about which resistors etc. control which digit segment :

 http://www.pinrepair.com/bally/index3.htm#display