Issues with my sisters car and I am stumped. Options

[bccentaur3]

So we just got done replacing my sisters motor, because she bought the car for a grand thinking it was a great runner without having me look at it prior to the purchase. My dad brought it home and I knew right away it was running on only 3 cylinders. Did some tests and found out indeed it was only running on 3 cylinders. So I decided to pull the motor and open her up, finding out there was a hole in the oil pan and the rod in cylinder 2 snapped right in half. So then my dad had to throw another 500 into the POS and picked up a 5s at a breaker yard.

Her car was an auto and she wanted a manual so I decided to swap parts over from a parts car I have to do the manual swap. Manual swap went without as hitch until now, the master clutch cylinder is busted, but its an easy fix.

The real issue is the fact that the motor won't start. We did a water pump and timing belt job on the motor and made sure timing was correct. I checked and double checked.

The motor turns over just fine with a bunch of power. I checked the compression on the cold motor and it has 180 across the board. The breaker yard wrote on the valve cover that the motor had 215 psi in each cylinder so I would assume that it from a warm motor.

I checked for fuel and we ARE getting fuel.

Checked for spark in the day time but couldn't see any spark. Tested the coil and its within factory spec.

Swapped the igniter with a known good one and still nothing. Now when I checked for spark I remembered getting shocked. But couldn't see any signs for spark.

Checked the dizzy rotor when the motor was set at TDC and the rotor was pointing at firing order 1. I really don't know what the hells going on. The ground is in for the injectors. But I am a bit worried with the injector plugs. I forgot which order they went and I may have switched up a plug, but would that really keep the car from starting?

The ecu we are using is the stock auto ecu. I wired up the stock auto harness to fire without the clutch. All I get is crazy turn over. Its turning over like crazy with mad compression yet won't fire. What could be the issue?

I really need this car running. I really don't want to redo the timing. How can the timing be off? The crank I set at TDC and the rotor was right on firing order 1. Now I haven't checked the cam to see if it was at TDC, but I just assumed since the rotor on the dizzy was pointing in the correct direction the cam is too.

I have worked on the car for 3 days in a row 10 hours a day and I am tired. Since the day she brought it home to now I have all this and now it won't fire. Someone help me diagnose this POS car. I knew my dad should have waited a little for a slightly more expensive car and have me look at it before he bought it.

[bccentaur3]

I joined the 2 wires at the transmission plug. So the motor would turn over without the clutch peddle.

How could the water pump affect the motor not running? I tightened all the grounds and same issue. The car was running prior to putting in a new motor. It just wouldn't make sense for the ecu to die from sitting for a couple of days.

Still if I plugged the injector plugs in different order the motor should still fire because theres fuel going correct?

Oh and I resolved the smoking ground wire issue, it was because the big ground that goes from the battery to the trans was a little loose.