There are two codes stored in the system, which when retrieved are indicated by series of short flashes. The two codes are separated by a longer flash. So Long ... Short ... Long ... Nothing means that the first fault recorded is code 1, and that there is no second fault recorded.
Code 1, supposedly indicates the front crank angle sensor. But if the fuse has gone and it isn't turning, then perhaps you might expect that, although I would have thought a code 2 for rear sensor or a code 3 or 4 for the pump would have been more appropriate. But you have an earth lead detached, and all sorts of funny things can happen when earths are missing.
If there is a fault in the cycling sequence, which happens when you turn on the ignition, then you can expect a fault to be recorded at that point - although the manual says to ride the motorcycle as well.