Sketch uploaded from hard drive won't fully function

When the sketch is compiled and uploaded from the computer 1 hard drive some of the GPIO pins do trigger the playing of mp3 files however the 3x4 keypad which is connected to 7 GPIO pins does not respond properly. The sketch is looking for two numbers followed by the pound (#) key. It reads the first number (because a tick ack sound is heard) however it locks up (stops looping) and no longer responds to any GPIO. If the sketch is uploaded from the usb drive using computer 1, it does not lock up...it works perfectly. With computer two it makes no difference, hard drive or usb drive...it works just fine. The same IDE is used on both computers. The problem is related to the scanning of the 7 keypad pins. Very strange.