The line out converter needs to get as its input a signal that is already amplified. If the entire system is amplified outside of the main source unit as seems to be the case, then the line out converter will have to get its input from somewhere other than at the back of the source unit. The only problem is that most line out converters have two sets of high level inputs--a positive and negative for the left channel, and a positive and negative for the right channel. It converts these to a low level RCA type connection, and each channel gets a separate RCA plug.
I initially told you to locate the speaker terminals directly on the factory sub and to tap in to those, but then i realized that that will only give you one channel of sound. So only one rca plug would be getting a signal after it comes out of the converter. Since it's a mono signal anyways, I'd recommend getting a y-cable to split this into two RCA plugs, because most sub amps are going to require a 2-channel input (2 RCA plugs).
If the speaker terminals on the factory subwoofer are not labeled positive and negative, you'll need to use your multimeter to verify the correct polarity. Set the meter to test for dc voltage, then with the system turned on, touch the red test lead to one of the speaker terminals and the black test lead to the other speaker terminal. If the reading you get is a positive reading, then that means the terminal touching the red test lead is the positive terminal. If you get negative voltage, that means the terminal touching the black test lead is the positive speaker terminal.
You should verify the switched turn on wire as well just for safety. There should be a switched wire present both at the amp's input harness, and at the radio's input harness (because both components need a turn-on signal just like your amp needs one). The plug you choose to use is up to you.
You'll be testing for DC voltage, around 10-13v, but it should only show voltage when the stereo is turned on. The voltage should go down to zero once the car is off and the key is removed from the ignition. Keep in mind that in both harnesses there will be a factory wire that will show power going to it when the car is on and also when it's off; just make sure you don't mistake that wire for the switched wire. If you accidentally hook up to the constant wire, your amp will stay turned on even when the car is off, and eventually it will run down your battery.
Here's a pic of how the signal wiring should be done:

Ethan
-----
"Patience, persistence, and perspiration make an unbeatable combination for success"
Donate to the12volt.com