Megasquirt-II Sequencer™ Wiring

There are a number of tools and techniques you will need to wire MS-II Sequencer™ to your vehicle. You will also need some specialized knowledge. We will try to present an overview of everything you need here (if you have questions, ask them on the forums at www.microsquirt.com):

Tools:

• Crimper: These come in a wide variety of styles and quality, and you often get what you pay for. The cheapest are stamped from flat steel, and these often distort (the jaws slip off each other) before a good crimp is made. As a minimum, it is worth getting a forged steel crimper that has wide jaws (~½") that hold the butt splice connectors in place while the connector is crimped, resulting in a strong and reliable joint. These can be found for around $20 or so. Remember that you will be relying on these connections every minute you are driving your vehicle, and under all conditions. You will want them to be as solid as possible, as deficient connections are often difficult to troubleshoot.
  

• Multimeter: You will need a digital (or analog) multi-meter that can check potential (Volts), current (Amps), and resistance (Ohms). You do not need an expensive meter as you will be mostly checking to see if things are approximately correct, and lower cost digital multi-meters (DMM) can often be found for under $20.
• Lighter/heat source: This is handy for shrinking heat shrink tubing over butt splice connectors or solder joints. You can do it with matches, but this will be slow and sometimes painful. For a heat source, you can use a cigarette lighter (in well ventilated conditions well away from any gasoline), or a heat gun that blows hot air.
• Vehicle Wiring Diagram: You will need to know which wires go where on your vehicle in order to connect MS-II Sequencer™ appropriately. The best wiring diagrams and other information are generally found in a factory service manual for your vehicle, but of course there are other sources (aftermarket manuals, Internet, etc.).
• Soldering Iron or Gun (optional): If you choose to solder wires together , rather than using butt splice connectors, you will need a soldering iron or gun. This should be rated to at least 25 Watts, as smaller irons may not heat the joint hot enough to provide a good connection. Before using the iron/gun, plug it in and let it heat up for several minutes to help ensure good connections.

Supplies:

• Wire: to extend the supplied pigtail as and when necessary. For the injector or ground leads, this should be at least 18 gauge wire, for the remaining connections 20 or 22 gauge is sufficient (large gauge numbers mean thinner wire).
• Heat shrink tubing: This can be used in short section to cover soldered or crimped connections to make them more 'weather proof' and give additional mechanical strength to the connection.
• Connectors: These can be butt-splice connection to join wires (such as the supplied harness pigtail to a vehicle harness), or specific connectors for things like injectors, sensors, and ignition modules, etc. Crimp-style butt splice connectors are supplied with MS-II Sequencer™ to join the harness to connector pigtails for external components. MS-II Sequencer™ does not come with the external connectors you need, since there are thousands of different types, a many users will already have these as part of their OEM installation in any case. If you need specific connectors, try an auto parts store or one of the MS-II Sequencer™ distributors.
• Solder (optional): You can solder the wires instead of using butt splice connectors. Use standard 60/40 rosin core solder (silver solder is not required).
• Nylon ties: These are very useful to make sure wiring isn't dangling loose, and can't contact moving or hot vehicle components. Make sure you allow some slack when wiring between the engine and body/frame, as they move relative to each other, sometimes quite a bit (up to several inches).
• Electrical tape: This can be used in the place of heat shrink tubing, and even nylon ties. It is also useful for 'wrapping' sections of harness wiring to keep it tidy and bundled.
• Fuel injection system components: MS-II Sequencer™ controller is just the controller, so you will need injectors, fuel pump, coolant and air temperature sensors, a throttle position sensor, a MAP sensor, an O2 senor (optional but helpful), a fast idle valve (optional), and a number of relays, fuses, and other automotive electrical components to suit your application. The relay board can reduce the complexity of some of the wiring.

Of course you will also need a PC computer to run the tuning software. Any computer that can run Windows 98 or higher (i.e., WinMe, WinXP, WinVista) will work. Ideally the computer will have a serial port (9-pin male connector), but many USB/Serial adapters have been used successfully. A laptop computer is easiest to use in the vehicle, of course, and cheap older laptops with Win98+ and a serial port are commonly available at low cost.

Wiring Procedure

NOTE: The wire labeled "Vref" is the +5V voltage source for the MAP sensor and the TPS sensor. This wire only connects to these components (and possibly the LEDs, if used), so be very careful to not connect this directly to ground or (worse) +12V battery. Bad things will occur if you mis-wire this one - double check your work.

When wiring up a vehicle, we recommend performing this in discrete and deliberate stages - this is how to approach this:

1. You may wish to use the MS-II Sequencer™ access board, which can simplify the wiring for many installations.

2. Always make sure the dangling wires on the MS-II Sequencer™ harness are not touching each other or any metal (ground return path). Next, wire up all of the sensors (TPS, EGO, coolant, intake air temp, MAP) and the signal return grounds (use the sensor ground return wire for these). Then hook up the main ground wires to the engine block and the switched +12V for the +12V lead. Check again to make sure the remaining dangling wires (which includes the outputs - you have not hooked them up yet) are insulated from each other and anything else - tape these if need be.

3. Hook up the laptop and run MegaTune and establish communications - remember that with the latest MS-II embedded code (V2.881 and later) you need to set the "ECU Type" to MS-II Sequencer™ the first time you run (click the "burn to ECU" button for this and any other change to stick). Until you set the ECU Type, all the other parameters will be grayed out.

4. Let MegaTune and the MS-II Sequencer™ just run for a while and talk to each other, at least for several minutes. If there are any communications burps/hiccups, this is the time to find them out and correct (it's a nice, clean electrical environment at this point). Do not worry about the MS-II Sequencer™ sucking down the vehicle battery, its current draw is around 40 milliamps, so it is a very small load - the dome light above your head draws many times more current. This is also a good time to get familiar with MegaTune - set up the number of cylinders, REQ_FUEL, ignition trigger type, etc. - and, maybe save off a MSQ or two, just to get the feel for how it all works. Read Configuring MegaSquirt-II for information on configuring MS-II Sequencer™ and MegaTune. You should also:
   • check the sensor readings in the real-time display ('Tuning/Realtime Display' in MegaTune) to see if you have reasonable values returned by the sensors,
   • calibrate the TPS,
   • set the MAP sensor type,
   • set the EGO sensor type, etc.
   If this works as expected (the sensor values look good, the TPS values aren't backwards, you have set the correct MAP sensor type, etc.), you are in great shape, and you are potentially minutes away from a running engine.

5. Also, in this state, with no ignition or injectors hooked up (and no fuel pump active), turn over the starter motor with the MS-II Sequencer™ turned on and MegaTune running. This is a big current draw and if there are grounding issues you will see the sensor readings jump all over the place - if so then check your engine-to-battery-to-chassis grounds (see the sticky on this). Less of an influence but perhaps more fun is to turn on the windshield wipers, heater fan, headlights, and even blow the horn - each of these can produce noise on the +12V feed and it is better to find this out now so you can rectify instead of tracking down, say, a random tach glitch that is really caused by battery feed noise - it happens.

6. Next, hook up the tach input source, and check for tach signal with MegaTune with the starter cranking. If you are using EDIS, GM DIS, or HEI module it is often better to test this along with the outputs (next step).

7. Finally, hook up the fuel pump relay, injectors, and ignition. And then start it up (they always start right up, or at least do something), tweak the tune, and drive away! Read Tuning MegaSquirt-II for information on tuning.

For each circuit, you will need to:

1. Choose the order of circuits you will work on. Generally, this should be:
   1. Power and ground circuits. Completing this step will let you power up MS-II Sequencer™ EFI controller, and test the connection to MegaTune on your tuning laptop.
   2. Sensors:
      • Coolant and Intake Air Temperature sensors (CLT and IAT),
      • Throttle Position Sensor (TPS),
      • Exhaust Gas Oxygen (EGO, aka O2) sensor (if used),
      • Manifold Absolute Pressure (MAP) sensor.
   3. Actuator and Injector Outputs: These include:
      • Fuel Pump,
      • Fast Idle (if used),
      • Ignition control module (if used),
      • Injectors.
   4. Ignition Inputs and Outputs:
      • Ignition Inputs ("tach" signal(s)),
      • Ignition Outputs (coils or ignition module driver(s))
   (Many of these are broken out separately from the main wiring diagram below to make it easier to follow.)
2. For each item in your list, identify the wires you need to connect from the list and wiring diagram below and your vehicle wiring diagram.
3. For each wire, crimp or solder the connection:
   • Crimp:
     • Strip the insulation off the end of the harness pigtail and the end of the wire you are connecting to by about ¼" (6mm). Crimping tools often have wire strippers built in to them.
     • Crimp a butt splice connector onto the end of one of the wires you stripped, and give it a tug to make sure it won't pull loose easily (if it does, cut the butt splice connector off and use a new one to redo the connection),
     • Slide a piece of heat shrink tubing (that is large enough to pass over the butt splice connector and approximately twice as long as the butt slice connector) onto the other wire,
     • Position the butt splice connector on the second wire, and crimp it, then give it a tug to make sure it won't come loose.
   • Solder:
     • Strip the insulation off the end of the harness pigtail and the end of the wire you are connecting to by about ½" (12mm),
     • Slide a piece of heat shrink tubing about 1 to 1½" long over one of the wires,
     • Twist the wires together so that they are tighten wound in a spiral pattern,
     • Heat the twisted wires with a hot soldering iron/gun, until the wires are hot enough to melt the solder,
     • Touch the solder to the wires (not the iron or gun) until it melts and is wicked into the joint,
     • Feed in enough solder to completely saturate the wire connection,
     • Let the joint cool.
4. Slide the heat shrink tubing over the connection, center it over the connection, then shrink it into place with a heat source.
5. Verify that you have made the correct connection(s) at each step.
6. After each step, test the function of the unit. For example, you can see if:
   • your MS-II Sequencer™ communicates with MegaTune on your laptop after connecting the power and ground wires,
   • you get 'sensible' readings from the temperature and MAP sensors after hooking these up (temperatures should be about ambient, MAP should be between 90 and 103 in most cases - except at high elevations where it might be lower.)
   • your fuel pump comes on after hooking it up and powering up MS-II Sequencer™.

AMPseal 35 pin Connectors

Each of the two AMPseal connectors has 35 pins, numbered in rows from 1-2, 13-23, and 24 to 35. They are numbers from left to right as viewed looking in to the connector on MS-II Sequencer™. These numbers are also imprinted in the connector itself, if you look carefully.

You may have to put the harness ends of the wiring looms together by inserting the wires into the connector, etc.. The best instructions are Ampseal's, which you can read in a PDF file here: A35_harness_assemble.pdf.

The two Ampseal connectors are identical. One is at the end of the case marked "RED", the other is at the end of the case marked "GREEN". Most of the inputs and secondary outputs come out the "GREEN" Ampseal connector, and this is wired very similarly to MicroSquirt^®. The 8 injector and 8 ignition outputs come out on the "RED" Ampseal connector.

"GREEN" Ampseal:

Wiring the "GREEN" Ampseal connector of the MS-II Sequencer™ to the external harness is much the same as with MicroSquirt^® (www.microsquirt.info/uswiring.htm). The only difference is that the two injector (INJ1 and INJ2) and ignition (IGN and IGN2) wires on the harness are now the idle IAC stepper outputs. You use the same sensors, etc.

Pin	Name	Function	Harness Wire Color(s) (main/stripe) DRAFT
Pin1	12 Volt Supply	This connects to a switched 12 Volt supply. Use the ignition switch to control a relay that provides 12 volts to both the MS-II Sequencer™ and the injectors.	Red
Pin2	CAN High	This is one of two Controller Area Network (CAN) communications lines, used to communicate with MegaSquirt peripherals.	Blue/Yellow
Pin3	CAN Low	This is one of two Controller Area Network (CAN) communications lines, used to communicate with MegaSquirt peripherals.	Blue/Red
Pin4	VRIN2+	Second ignition input signal (Input 2) for a cam position sensor or second crank sensor with the Dual Spark option.	Brown/White
Pin5	N/C	Not Used	n/a
Pin6	Flex Fuel	For input from a ethanol Flex Fuel sensor.	Purple/White
Pin7	FIDLE	This is the output for controlling an ON/OFF style FIdle or a PWM style IAC (usually found on Fords). You uses either a stepper type IAC, or a FIdle (on/off) or PWM style idle valve.	Green
Pin8	FUEL PUMP	This output controls a fuel pump relay by providing a ground when the fuel pump should be running. It cannot control a fuel pump directly.	Purple
Pin9	IAC 1B	Stepper idle air controller lead for coil 1, pin B. This are typically used on GM applications, among others. See MS-II™ Idle Air Control for more details.	Green
Pin10	IAC 1A	Stepper idle air controller lead for coil 1, pin A. This are typically used on GM applications, among others. See MS-II™ Idle Air Control for more details.	Blue
Pin11	IAC 2A	Stepper idle air controller lead for coil 2, pin A. This are typically used on GM applications, among others. See MS-II™ Idle Air Control for more details.	White/Red
Pin12	IAC 2B	Stepper idle air controller lead for coil 2, pin B. This are typically used on GM applications, among others. See MS-II™ Idle Air Control for more details.	White
Pin13	SERIAL Rx	This pin is used to receive data from the laptop computer serial port (usually a DB9 or DB25). It is connected to Pin3 on a DB9 connector (Pin2 on a DB25) to plug into your laptop/notebook computer.	Red (pre-wired to jack)
Pin14	SERIAL Tx	This pin is used to receive data from the laptop computer serial port (usually a DB9 or DB25). It is connected to Pin2 on a DB9 connector (Pin3 on a DB25) to plug into your laptop/notebook computer.	Orange (pre-wired to jack)
Pin15	BOOTLOADER	This pin is grounded to enter bootloader mode, which allows you to update the embedded code in MS-II Sequencer™'s "MicroSquirt®" processor. This is the processor that uses the standard code shared with MS-II™ and MicroSquirt®. You can connect this lead to a switch, with the other side of the switch connected to ground. When you close the switch and reboot MS-II Sequencer™ EFI controller, you will be in bootloader mode. (On beta units, this lead should be tried to Vref when not actively using the bootloader.)	Purple/Black
Pin16	ACCEL LED	This is the supply for an 'acceleration indicator LED'. You connect the cathode (short lead) of and LED (light emitting diode) to this wire. The longer lead of the LED you connect to a 330 Ohm resistor, then connect the other side of the resistor to the Vref wire (5 Volts). Be certain that Vref will not be grounded or connected to 12 Volts. Or you could use some other voltage source beside Vref. For example, you could use the battery supply voltage (nominally 12 Volts) as long as you increase the current limiting resistor value to 1K Ohms (to keep the current within limits). The LED will then light whenever accel enrichment is in effect.	Yellow/Black
Pin17	WARM-UP LED	This is the supply for an 'warm-up indicator LED'. You connect the cathode (short lead) of and LED (light emitting diode) to this wire. The longer lead of the LED you connect to a 330 Ohm resistor, then connect the other side of the resistor to the Vref wire (5 Volts). Be certain that Vref will not be grounded or connected to 12 Volts. Or you could use some other voltage source beside Vref. For example, you could use the battery supply voltage (nominally 12 Volts) as long as you increase the current limiting resistor value to 1K Ohms (to keep the current within limits). The LED will then light whenever warm-up enrichment is in effect.	Yellow/White
Pin18	N/C (ground)	Not Used	n/a
Pin19	SERIAL GROUND	Serial communications dedicated ground.	Green (pre-wired to jack)
Pin20	SENSOR GROUND	This is a dedicated sensor ground wire. All of the sensor grounds can be connected to this wire to reduce then possibility of electrical noise.	White/Black
Pin21	VR2IN-/GROUND	For early Sequencers™, this is one of several ground wire pins (18 through 23). All of the ground wires should be run to the same spot on the engine (to avoid ground loops). Make sure you have a good ground connection from the batteries negative terminal to the engine, and from the engine to the frame as well. For later Sequencers™ (v1.04+ produced after August 2010), this wire is the ground for the VR2 circuit. If you want a zero-crossing circuit (usually with a variable-reluctor, "VR", circuit), you connect this wire to the 'ground' side of the VR sensor (not to the engine block or any other ground). If you have a Hall sensor (or optical, or other digital signal) DO NOT CONNECT this pin, leave it unconnected. This will put a 2.5V bias on then input, so the signal will be high if the input voltage is above 2.5 Volts, and ground if it is less than 2.5 Volts.	Black
Pin22	GROUND	This is one of several ground wire pins (18 through 23). All of the ground wires should be run to the same spot on the engine (to avoid ground loops). Make sure you have a good ground connection from the batteries negative terminal to the engine, and from the engine to the frame as well.	Black
Pin23	GROUND	This is one of several ground wire pins (18 through 23). All of the ground wires should be run to the same spot on the engine (to avoid ground loops). Make sure you have a good ground connection from the batteries negative terminal to the engine, and from the engine to the frame as well.	Black
Pin24	MAP	This pin is connected to the output from a MAP sensor that puts out a 0 to 5 Volt signal (roughly) proportional to absolute pressure. General Motors MAP sensors are suitable (Pin24 connects to pin B on the sensor, pin A is grounded, pin C gets 5 Volts from Vref (Pin28 on MS-II Sequencer™)). You can also use the original MPX4250 MAP sensor used with MegaSquirt, you connect the pion #24 to the sensor's Pin1, Pin2 is grounded, and 5 Volts (Vref) is connected to pin#3.	Green/Red
Pin25	CLT	MS-II Sequencer™ uses the coolant temperature to determine the warm-up enrichments. The sensor must be a negative temperature coefficient (meaning the resistance decreases as the temperature increases). Most automotive temperature sensor are this type, however the default sensors are General Motors sensors.	Yellow
Pin26	IAT	MS-II Sequencer™ uses the intake air temperature (aka. manifold air temperature = MAT) to determine the air density for fuel calculations. The sensor must be a negative temperature coefficient (meaning the resistance decreases as the temperature increases). Most automotive temperature sensor are this type, however the default sensors are General Motors sensors.	Orange
Pin27	TPS	This is a pin for the 'sense' connection on a throttle position sensor. To hook up your throttle position sensor (TPS), disconnect the TPS, and use a digital multi-meter. Switch it to measure resistance. The resistance between two of the connections will stay the same when the throttle is moved. Find those two - one will be the +5 Vref and the other a ground. The third is the sense wire to MegaSquirt. To figure out which wire is the +5 Vref and which is the ground, connect your meter to one of those two connections and the other to the TPS sense connection. If you read a high resistance which gets lower as you open the throttle, then disconnected wire is the one which goes to ground, the other one which had the continuous resistance goes to the +5 Vref from the MegaSquirt, and the remaining wire is the TPS sense wire.	Blue
Pin28	Vref	This is a 5 volt supply for the throttle position sensor and the MAP sensor. DO NOT connect it to 12 Volts! The wire labeled "Vref" is the +5V voltage reference for the MAP sensor and the TPS sensor. This wire only connects to these components, so be very careful to not connect this directly to ground or (worse) +12V battery. Bad things will occur if you mis-wire this one - double check your work.	Gray
Pin29	SPARE ADC	Can be used for external baro MAP sensor.	Orange/Green
Pin30	OPTOIN+	Square wave ignition signal input positive connection for Input 1. Note that you can use only one of OPTIN+/- or VRIN+/-, because they connect to the same processor pin. For the second ignition input (Input 2), use VR2IN+ (Ampseal pin 4)	Gray/Red
Pin31	OPTOIN-	Square wave ignition signal input negative for Input 1. Note that you can use only one of OPTIN+/- or VRIN+/-, because they connect to the same processor pin. For the second ignition input (Input 2), use VR2IN+ (Ampseal pin 4)	Gray/Black
Pin32	VRIN1+	Variable reluctor A/C signal input for Input 1. Note that you can use only one of OPTIN+/- or VRIN+/-, because they connect to the same processor pin. For the second ignition input (Input 2), use VR2IN+ (Ampseal pin 4)	Silver (coax center wire)
Pin33	VRIN-	Variable reluctor A/C signal input (ground) for Input 1 & Input 2 (if used). Note that you can use only one of OPTIN+/- or VRIN+/-, because they connect to the same processor pin. For the second ignition input (Input 2), use VR2IN+ (Ampseal pin 4) For later Sequencers™ (v1.04+ produced after August 2010), this wire is the ground for the VR1 circuit. If you want a zero-crossing circuit (usually with a variable-reluctor, "VR", circuit), you connect this wire to the 'ground' side of the VR sensor (not to the engine block or any other ground). If you have a Hall sensor (or optical, or other digital signal) DO NOT CONNECT this pin, leave it unconnected. This will put a 2.5V bias on then input, so the signal will be high if the input voltage is above 2.5 Volts, and ground if it is less than 2.5 Volts.	Silver (coax shield)
Pin34	O2	This is connected to the oxygen sensor output wire. This may be a 0 to 1 Volt signal directly from a narrow band sensor, or a 0 to 5 Volt signal from a wide band sensor controller.	Pink
Pin35	TACH OUTPUT	This connection can be used to drive a standard tach (OEM or aftermarket). For details on how to hook it to your tach, see your tach installation manual or OEM service manual.	Green/Yellow

"RED" Ampseal:

It is critically important to realize that IGNX, INJX, etc. refers to the X^th cylinder in the firing order. For example, on a small block Chevrolet with a firing order of 1-8-4-3-6-5-7-2, IGN4 in connected to cylinder #3 (the fourth cylinder in the firing order). Similarly, INJ6 connects to cylinder 5, and so on.

Pin	Name	Function	Harness Wire Color(s) (main/stripe) DRAFT
Pin 1	INJ8	This is the injector GROUND for the cylinder that is 8th in the firing order. For example, with the small Chevrolet firing order of 1-8-4-3-6-5-7-2, this would be the injector ground for cylinder #2 (the front passenger's side cylinder). With a four cylinder and a firing order of 1-3-4-2, this injector driver ground is not used.	not assigned yet
Pin 2	INJ7	This is the injector GROUND for the cylinder that is 7th in the firing order. For example, with the small Chevrolet firing order of 1-8-4-3-6-5-7-2, this would be the injector ground for cylinder #7 (the back driver's side cylinder). With a four cylinder and a firing order of 1-3-4-2, this injector driver ground is not used.	not assigned yet
Pin 3	GND	Ground wire. Ground to the engine block. On the grounds, you need to tie the high current grounds on the red connector (the one with all of the injector outputs) to the engine block. There is a break in the ground plane layer which separates the high current items (injector drivers, stepper chip, low-side drivers) from the digital and analog side (on the green end).	not assigned yet
Pin 4	INJ6	This is the injector GROUND for the cylinder that is 6th in the firing order. For example, with the small Chevrolet firing order of 1-8-4-3-6-5-7-2, this would be the injector ground for cylinder #5. With a four cylinder and a firing order of 1-3-4-2, this injector driver ground is not used.	not assigned yet
Pin 5	GND	Ground wire. Ground to the engine block. On the grounds, you need to tie the high current grounds on the red connector (the one with all of the injector outputs) to the engine block. There is a break in the ground plane layer which separates the high current items (injector drivers, stepper chip, low-side drivers) from the digital and analog side (on the green end).	not assigned yet
Pin 6	INJ5	This is the injector GROUND for the cylinder that is 5th in the firing order. For example, with the small Chevrolet firing order of 1-8-4-3-6-5-7-2, this would be the injector ground for cylinder #6. With a four cylinder and a firing order of 1-3-4-2, this injector driver ground is not used.	not assigned yet
Pin 7	GND	Ground wire. Ground to the engine block. On the grounds, you need to tie the high current grounds on the red connector (the one with all of the injector outputs) to the engine block. There is a break in the ground plane layer which separates the high current items (injector drivers, stepper chip, low-side drivers) from the digital and analog side (on the green end).	not assigned yet
Pin 8	INJ4	This is the injector GROUND for the cylinder that is 4th in the firing order. For example, with the small Chevrolet firing order of 1-8-4-3-6-5-7-2, this would be the injector ground for cylinder #3. With a four cylinder and a firing order of 1-3-4-2, this injector driver ground is for cylinder #2.	not assigned yet
Pin 9	GND	Ground wire. Ground to the engine block. On the grounds, you need to tie the high current grounds on the red connector (the one with all of the injector outputs) to the engine block. There is a break in the ground plane layer which separates the high current items (injector drivers, stepper chip, low-side drivers) from the digital and analog side (on the green end).	not assigned yet
Pin 10	INJ3	This is the injector GROUND for the cylinder that is 3rd in the firing order. For example, with the small Chevrolet firing order of 1-8-4-3-6-5-7-2, this would be the injector ground for cylinder #4 (the rearmost cylinder). With a four cylinder and a firing order of 1-3-4-2, this injector driver ground is for cylinder #4.	not assigned yet
Pin 11	INJ2	This is the injector GROUND for the cylinder that is 2nd in the firing order. For example, with the small Chevrolet firing order of 1-8-4-3-6-5-7-2, this would be the injector ground for cylinder #8 (the rear passenger's side cylinder). With a four cylinder and a firing order of 1-3-4-2, this injector driver ground is for cylinder #3.	not assigned yet
Pin 12	INJ1	This is the injector GROUND for the cylinder that is 1st in the firing order. For example, with the small Chevrolet firing order of 1-8-4-3-6-5-7-2, this would be the injector ground for cylinder #1 (the front driver's side cylinder). With a four cylinder and a firing order of 1-3-4-2, this injector driver ground is for cylinder #1.	not assigned yet
Pin 13	IGN8	This is the ignition coil logic-level signal for the coil on the cylinder that is 8th in the firing order. For example, with the small Chevrolet firing order of 1-8-4-3-6-5-7-2, this would be the coil signal for cylinder #2 (the front passenger's side cylinder). With a four cylinder and a firing order of 1-3-4-2, this coil driver signal is not used.	not assigned yet
Pin 14	IGN5	This is the ignition coil logic-level signal for the coil on the cylinder that is 5th in the firing order. For example, with the small Chevrolet firing order of 1-8-4-3-6-5-7-2, this would be the coil signal for cylinder #6. With a four cylinder and a firing order of 1-3-4-2, this coil driver signal is not used.	not assigned yet
Pin 15	IGN3	This is the ignition coil logic-level signal for the coil on the cylinder that is 3rd in the firing order. For example, with the small Chevrolet firing order of 1-8-4-3-6-5-7-2, this would be the coil signal for cylinder #4. With a four cylinder and a firing order of 1-3-4-2, this coil driver signal is for cylinder #4.	not assigned yet
Pin 16	IGN1	This is the ignition coil logic-level signal for the coil on the cylinder that is 1st in the firing order. For example, with the small Chevrolet firing order of 1-8-4-3-6-5-7-2, this would be the coil signal for cylinder #1. With a four cylinder and a firing order of 1-3-4-2, this coil driver signal is for cylinder #1.	not assigned yet
Pin 17	GPI-1	This pin (as well as pin 30) has a 5V pull-up circuit, and so it should only be used as an input, unless the pull-up circuit is disabled by removing the 4.7K Ω pull-up resistor R86. You may also need to jumper the 10K Ω resistor R85 (which is in-line with the processor pin), depending on your intended use.	not assigned yet
Pin 18	GND	Ground wire. Ground to the engine block. On the grounds, you need to tie the high current grounds on the red connector (the one with all of the injector outputs) to the engine block. There is a break in the ground plane layer which separates the high current items (injector drivers, stepper chip, low-side drivers) from the digital and analog side (on the green end).	not assigned yet
Pin 19	BOOTLOAD1	This pin is grounded to enter bootloader mode, which allows you to update the embedded code in MS-II Sequencer™'s sequencing processor. You can connect this lead to a switch, with the other side of the switch connected to ground. When you close the switch and reboot MS-II Sequencer™ EFI controller, you will be in bootloader mode. (On beta units, this lead should be tried to Vref when not actively using the bootloader.)	not assigned yet
Pin 20	R-PW1	This is the output that is controlled when the user elects to use the 'PA0 - Knock Enable' spare output in the tuning software (spare port 6, MS-II pin PA0).	not assigned yet
Pin 21	X2		not assigned yet
Pin 22	X4		not assigned yet
Pin 23	X5		not assigned yet
Pin 24	IGN7	This is the ignition coil logic-level signal for the coil on the cylinder that is 7th in the firing order. For example, with the small Chevrolet firing order of 1-8-4-3-6-5-7-2, this would be the coil signal for cylinder #7. With a four cylinder and a firing order of 1-3-4-2, this coil driver signal is not used.	not assigned yet
Pin 25	IGN6	This is the ignition coil logic-level signal for the coil on the cylinder that is 6th in the firing order. For example, with the small Chevrolet firing order of 1-8-4-3-6-5-7-2, this would be the coil signal for cylinder #5. With a four cylinder and a firing order of 1-3-4-2, this coil driver signal is not used.	not assigned yet
Pin 26	IGN4	This is the ignition coil logic-level signal for the coil on the cylinder that is 4th in the firing order. For example, with the small Chevrolet firing order of 1-8-4-3-6-5-7-2, this would be the coil signal for cylinder #3. With a four cylinder and a firing order of 1-3-4-2, this coil driver signal is for cylinder #2.	not assigned yet
Pin 27	IGN2	This is the ignition coil logic-level signal for the coil on the cylinder that is 2nd in the firing order. For example, with the small Chevrolet firing order of 1-8-4-3-6-5-7-2, this would be the coil signal for cylinder #8. With a four cylinder and a firing order of 1-3-4-2, this coil driver signal is for cylinder #3.	not assigned yet
Pin 28	GND	Ground wire. Ground to the engine block.	not assigned yet
Pin 29	GND	Ground wire. Ground to the engine block.	not assigned yet
Pin 30	SEQ_PT3	Will be used for spare port 7 in the future. This pin (as well as pin 17) has a 5V pull-up circuit, and so it should only be used as an input, unless the pull-up circuit is disabled by removing the 1K Ω resistor R96. You may also need to jumper the 10K Ω resistor R95 (which is in-line with the processor pin), depending on your intended use.	not assigned yet
Pin 31	R-PW0	This is the output that is controlled when the user elects to use the 'PM3 - Injection LED' spare output in the tuning software (spare port 1, MS-II pin PM3).	not assigned yet
Pin 32	X1		not assigned yet
Pin 33	X3		not assigned yet
Pin 34	X6		not assigned yet
Pin 35	X7		not assigned yet

Injector and Power Wiring

Note that MS-II Sequencer™ and the injectors MUST be powered off the same relay (the 'main relay'). If the injectors are powered while MS-II Sequencer™ controller is not, the injectors might be grounded and flood the engine with fuel.

Grounds

Make sure the grounds are correct. When running the grounds on MS-II Sequencer™ EFI controller, it is important to remember that there are different "types" of grounds. These are:

1. High power grounds (RED Ampseal pin 3, 5, 7, 9, 18, 28, 29): On the grounds, you need to tie the high current grounds on the red connector (the one with all of the injector outputs) to the engine block. There is a break in the ground plane layer which separates the high current items (injector drivers, stepper chip, low-side drivers) from the digital and analog side (which are also separated). All the grounds come together at one point, this is why there is no resistance when you measure it. Same for the return for the switcher PS.

   The ground path for the high current drivers will circulate thru the "RED" connector. The sensors will circulate thru a return path that is the "sensor ground" wire on the "GREEN" connector side. Connect all the sensor returns to this wire BUT DO NOT GROUND THE WIRE, it will follow the return path back to the analog ground plane. If you ground the sensor wire then you could cause a ground loop.

   As for the number of ground wires, more parallel wires are better than one fat one. It is important to run all the wires because it will reduce both the resistance and the overall inductance of the ground return path. Each wire has a resistance, and using three of them in parallel reduces the overall resistance. But it's not just that each wire forms a parallel resistance, it is also that each wire has a small inductance and many wires become lots of small inductances in parallel. We want minimal inductance with all of the switching loads going on.

   Inductances do not "like" fast-changing signals (like a pulse from a spark) and can cause very brief voltage offsets in the ground path. By having multiple wires it is the same as having multiple inductors in parallel, resulting in an overall lower inductance. At the point on the engine block where the grounds hook together, it is a good idea to run a separate wire from this junction back to the battery as well. This is redundant, however it often cleans up noise from sources like the starter motor. And, if it does help then you should take another look at your big positive and negative wire on the battery. Since we are talking battery - the point where you pick up the +12V to power the MS-II Sequencer™ controller is very important. This will go through a relay in order to turn on and off the MS-II Sequencer™ EFI controller, and the power source for the +12V on the relay needs to go back to the battery, or a path that leads direct to the battery without a long run of wiring. Just like for the grounds, run a separate wire from the relay direct back to the battery just to be sure.

2. Sensor ground (GREEN Ampseal pin 20): the coolant sensor, intake air temperature sensor, throttle position sensor, and external MAP sensor needs to be grounded back to pin 20 on the AMPSEAL. This is the low-current sensor return path and it needs to be kept away from the high power ground. This wire hooks directly to the sensors only and not to the engine block - it is its own return path.
3. VR return ground (GREEN Ampseal pin 33) - there is a separate VR(-) input on the AMPSEAL, this needs to be connected to the VR sensor(s). If you are using two VR sensors, return both back to this wire (these are low current and can be shared on the one wire return path) Do not ground the VR sensor anywhere else, return the ground back to the VR(-) terminal. On the MS-II Sequencer™ EFI controller, this return goes directly back to the VR input circuit's transistor/op amp and not to the ground plane, this keeps the high amplitude VR voltages (and resulting currents) isolated to the VR circuit.
4. Serial return (GREEN Ampseal pin 19) - the serial cable on the MS-II Sequencer™ has a separate ground return path thru the AMPSEAL connector. This return goes direct to the RS-232 transceiver (and not thru the ground plane, keeping the noise off...).

With the small size of MS-II Sequencer™ EFI controller, keeping the grounds straight is important. It is not hard, just keep things in logical groups - high power stuff goes to engine block, sensors on their own ground loop, and the VR sensor is also separate. The ignition coil current path is from the battery to the ignition coil to the MS-II Sequencer™ driver and back. The same goes on for the injector and general purpose outputs. Lots of juice flowing on this path, it needs to stay away from the sensors. It also needs a low resistance/inductance loop. The Vref is the reference voltage generated by MS-II Sequencer™ EFI controller, it passes thru the sensors and the return ground path comes back to the MS-II Sequencer™. Only one return path is required for the sensors because it is comparatively low current, and we all know that voltage drop across a wire is driven by Ohm's law (V=I*R).

Ignition Wiring

In general, MS-II Sequencer™ can be wired the same as MegaSquirt-II for ignition input (tach) signals. However, there are a few of things to note for those installs that are direct-driving ignition coils with MS-II Sequencer™ (i.e. not using an ignition driver module but the internal VB921 drivers in the MS-II Sequencer™):

• Ignition Outputs:
  1. You need to have a handle on your dwell setting for the coil you are using. All the dwell number represents is the amount of time (in milliseconds) it takes to charge up the coil. Because of a parameter known as inductance (the tendency of a current not to change due to the energy stored in a magnetic filed surround an inductor) it takes time to bring the coil up to a desired energy.

     The dwell number is driven by the primary inductance and resistance. Chances are you do not know the inductance or resistance. If you do not then you can do one of two things:

     1. See if you can look up the recommended dwell (or, alternatively, the resistance and inductance) on the manufacturer's web site or the service manual.
     2. Ask on the MS-II Sequencer™ or MegaSquirt forums for suggested settings from someone else is already using the same coil.
     3. You can measure the inductance and resistance yourself. You will need an ohmmeter, which you probably already have. The other item is an inductance meter, which you may not have. Go find one of your geeky friends and ask to borrow their inductance meter (betcha they have one..). You can also become a geek yourself and purchase an inductance meter, you can get one on eBay often for little money. With the inductance and ohmmeter, grab the following PC application:
        www.megamanual.com/files/software/IgnCoilAnalyze.zip

        Follow the instructions included with the application and you will quickly determine the ignition coil dwell time.

     4. Guess on the dwell number! You can start with a number, like 3 milliseconds and work from there. In fact 3 milliseconds should be enough to get the engine running and is an all-around good starting number. There are tips on tuning the dwell value here: www.megamanual.com/ms2/configure.htm#dwell
     5. Obtain a 0.1 ohm resistor rated at 10 Watts or higher and put inline with the +12V going to the coil, and use a oscilloscope to measure the voltage across the resistor. Using Ohm's law, the current is equal to the voltage divided by the resistance (I=V/R). What you will see is the scope trace ramp up as the coil charges. If you keep on increasing the dwell number in the software, you will get to a point where the ramp levels off - at this point is the target dwell number to use.

• Ignition Inputs:
  

  There are possible three ignition input circuits (to two input pins on the processor) for the MS-II Sequencer™ controller:

  1. OptIn: This circuit feeds Input 1 (same as OptIn), so it cannot be used simultaneously with OptIn. This has two sensor connections: OPTIN+ on pin 30 and OPTIN- on pin 31. It is designed for use with 5 to 12 Volt (nominal) square wave signal, such as those from a Hall or optical sensor, points or coil negative terminal. See this page for more info. This circuit feeds Input 1.
  2. VRin: This circuit is designed for use with alternating current variable reluctor AC signals that have both positive and negative voltage components. For more info, see the ignition pickup page. This circuit has two sensor connections:
     • VRIN+ (coax cable center wire) on pin 32, and
     • VRIN- (coax cable shield) on pin 33.
     (Some older diagrams may show these reversed - the text here is correct! It is also possible that some early production MS-II Sequencer™'s were mis-wired from the factory. Check the coax cable against the Ampseal pins to verify yours are correct: shield to pin 33, center wire to pin 32. If they are backwards, you do not need to swap them, just use the appropriate pins, i.e. the shield for the input (pin 32), the center wire for the ground (pin 33). If you prefer, you can swap the coax pins to be 'correct'. It takes 3 minutes to do. All you have to do is pull off the red clip on the harness connector, this will expose all of the pins. Next, find the two pins for the coax shield (pin 32 if it is backwards) and center conductor (pin 33) and *gently* wiggle them while gently pushing the terminal - it will dislodge and push back. then switch the locations and push back in till it clicks in place. Then reinstall the red clip (line up all of the terminals).)
  3. VR2in: This has one connection: VR2IN+ on pin 4, use VRIN- (pin 33) for the other lead. This circuit is designed for use as Input 2 with Hall sensor signals and 'dual spark mode' (for either the second of two crank sensors in 'Independent Dual Ignition' mode, or for a camshaft position sensor). It will also work with VR sensors, however. For more info, see this page.

  Note that you connect either VRin OR OPTin, not both. They connect to the same processor input port (PT0, aka. "Input 1"), so both CANNOT be used simultaneously for different sensors.

  The OptIn circuit would be used for a square wave input (from a distributor or sometimes a crank wheel, or a module like the EDIS), while the VRin circuit would be used for a VR sensor (either in a distributor or a crank wheel).

  Typically, where both crank and camshaft wheels are used with a MS-II Sequencer™ controller, the crank wheel will have a VR sensor, and the camshaft wheel will be a Hall sensor. This is because the VR sensor is especially good at providing a clean signal at reasonable engine speeds (the voltage rises with tooth speed, and the crank wheel can be made quite large, generating a good signal at modest engine speeds), while the cam wheel must work with the much smaller camshaft (or distributor wheel) diameter which is only spinning at ½ crank speed, making the VR sensor a less reliable trigger.

  Where you have a VR sensor on the crank and a Hall sensor of the cam, you would wire the crank sensor to VRin (aka. Input 1), and the camshaft sensor to VR2in (aka. Input 2). You do not wire it to OptIn, since this cannot be used simultaneously with VRin.

  The Hall sensor *will* trigger the VR2in circuit without issues (it has been designed with a voltage offset especially suited for Hall sensors and other square wave signals). A Hall sensor is normally a open-collector setup, and since there is a 1 mega Ohm pull-up on the VR2IN+ input (second channel) all the user needs to do is hook the sensor's collector to the VR2IN+ input (pin 4 on the Ampseal), and the emitter to the VRIN- input (pin 33, this ground is shared with the VRin return signal). Also, the VR2IN channel is biased to transition but at 1.8 volts (not at zero like the first channel), as this is perfect for a Hall sensor setup. See the dual spark page for more information.

Manifold Absolute Pressure (MAP) Sensor Wiring

This sensor is critical to how MS-II Sequencer™ functions. the MAP sensor tells MS-II Sequencer™ the intake vacuum (or boost) the engine has, and use this to scale the fuel injected. These generally have three electrical connections: 5 Volts, ground, and a signal. In addition to the electrical connections, the MAP sensor also has a vacuum connection the intake manifold - this must be downstream of the throttle(s), in the plenum area.

A separate baro sensor (for full-time barometric pressure sensing, rather than just using the startup value) is connected the same way, but the signal wire is connected to AMP pin 29 via the orange wire with the green stripe. Vref and ground can be shared.

For the popular GM MAP sensors (which come in 1, 2 and 3 bar versions) the wiring is:

and has:

(Note that ABC are swapped from the previous diagram!)

Coolant Temperature Sensor Wiring

The temperature sensors that are default sensors for MS-II Sequencer™ controllers are General Motors two-pin sensors. You can use other temperature sensors by entering 3 resistance/temperature data points into a dialog in MegaTune (under 'Tools/Calibrate Thermistor Tables"). A lot of temperature sensors (aka. "senders") designed for gauge use have one end grounded to the threads for contact in the engine block. This is fine for gauge work, but for EFI you will notice that the majority of the sensors have two terminals (and insulated from the case/thread) such that a separate ground to the ECU can be implemented. This to eliminate the possibility of an erroneous ground path introducing errors in the readings.

One of the pins is ground, and the other goes to MS-II Sequencer™. It doesn't matter which pin you use for which function. You can use other temperature sensors by inputting appropriate values into MegaTune (see: www.megamanual.com/megatune.htm#oh). If you have substituted a one pin connector, the body of the sensor is grounded to the engine, and the pin is connected to MS-II Sequencer™.

Intake Air Temperature Sensor Wiring

The temperature sensors that are default sensors for MS-II Sequencer™ controllers are General Motors two-pin sensors. You can use other temperature sensors by entering 3 resistance/temperature data points into a dialog in MegaTune (under 'Tools/Calibrate Thermistor Tables"). For two-pin sensors, one of the pins is ground, and the other goes to MS-II Sequencer™. It doesn't matter which pin you use for which function. You can use other temperature sensors by inputting appropriate values into MegaTune (see: www.megamanual.com/megatune.htm#oh). If you have substituted a one pin connector, the body of the sensor is grounded to the engine, and the pin is connected to MS-II Sequencer™.

The IAT sensor must be placed to measure the temperature of the air entering the manifold. In a normally aspirated engine, this can be almost anywhere in the intake tract (air cleaner, throttle body, etc.) since air temperature does not change a lot. For a boosted application (blower of turbocharger), the intake air temperature should be measured in a boosted part of the tract (since compressing the air raises its temperature), and you should use an 'open element' IAT sensor: www.megamanual.com/v22manual/mwire.htm#clt

Fuel Pump Wiring

MegaSquirt controls the fuel pump operation. This is to shut the fuel pump down if the engine stalls, preventing the pump from running unnecessarily (or in the case of a crash).

Exhaust Gas Oxygen Sensor Wiring

An exhaust gas oxygen sensor (EGO) is optional but useful for tuning with MegaSquirt. You can use either a narrow-band sensor, or the more useful wide-band sensor (with a controller).

Fast Idle Valve Wiring

The fast idle valve is used to increase engine speed when the engine is cold, preventing it from stalling. MS-II Sequencer™ can use either a 'solenoid'-style ON/OFF valve, and a variable pulse width modulation valve. See: www.megamanual.com/ms2/IAC.htm#fidle

Throttle Position Sensor Wiring

To hook up your throttle position sensor (TPS), disconnect the TPS, and use a digital multi-meter. Switch it to measure resistance. The resistance between two of the connections will stay the same when the throttle is moved. Find those two - one will be the +5 Vref and the other a ground. The third is the sense wire to MegaSquirt. To figure out which wire is the +5 Vref and which is the ground, connect your meter to one of those two connections and the other to the TPS sense connection.

If you read a high resistance which gets lower as you open the throttle, then disconnected wire is the one which goes to ground, the other one which had the continuous resistance goes to the +5 Vref from the MegaSquirt, and the remaining wire is the TPS sense wire.

Accel and Warm-Up LED Wiring

These circuits ground the LED to light them. You can use the Vref 5 volt supply on Pin 28 to power the LEDs, or you could use some other source. For example, you could use the battery supply voltage (nominally 12 Volts) as long as you increase the current limiting resistor value to 1K Ohms (to keep the current within limits).

Spare Ports

Ports A0 and M3 cannot be used as spare ports for the Sequencer™ controller because they are used as control lines by the ECU to signal the Router processor when synch has been lost and when a new tach cycle begins. These have been replaced by 2 new spare outputs (they can even be used as PWMs when code is so written). These pins are on the Router processor and using them is completely transparent to the user. You use them just as you did A0 and M3, but wire to pins 31 (old A0) and 20 (old M3) on the second (output) Ampseal. They can also both be turned on/off via a CAN message from the main processor to the Router.

In addition, a third GPIO input from the Router, with 5 V pullup, was added on Ampseal pin 30 for possible future use. This could also be used as a PWM output controlled via a CAN message to the Router, but the pullup would have to be removed. The following table summarizes this:

Outputs	Function	Control	Pull-up Components
Router PT0 (Ampseal R-PW0, pin 31)	GPIO PWM	ECU, CAN device CAN device	none
Router PT1 (Ampseal R-PW1 pin 20)	GPIO PWM	ECU, CAN device CAN device	none
Router PT3, w pullup (Ampseal SEQ-PT3 pin 30)	GP Input PWM	CAN device CAN device	R96 (1K Ω) pull-up to 5Vref, plus R95 (10K Ω) in-line to processor pin
	(remove R96 pull-up if used as an output)

The is also a pull-up circuit and in-line resistor on GPI-1 (pin 17). This consists of 4.7K Ω resistor R86. There is also a 10K Ω resistor R85 on GPI-1 (which is in-line with the processor pin).

Using the Relay Board with MS-II Sequencer™

Check the MS-II Sequencer™ access board, which may be a better choice than the relay board for some installations.

You can use MS-II Sequencer™ with a relay board, if you like. You will need to solder many of the leads from the suppled harness (extending them as necessary) to a female DB37 solder cup connector (like Digi-Key 2237F-ND, and a suitable hood (937GME-ND), if desired and if temperatures permit). The connecting cable should be wired like this:

The above diagram has an error. Pin 32 should be the VR + lead, pin 33 should be the ground. These are reversed in the above diagram.

Note:

• There are 5 'spare' terminals, but six possible connections, you will have to decide which to use for what function,
• If you are using direct coil control (instead of an ignition module), you should by-pass the relay board and wires the appropriate pins directly from the supplied harness to the coil's negative terminal(s).
• The serial cable, CAN connections, bootloader switch lead, and a few other connections should no be run to the relay board, they are intended to be used separately from the engine wiring.
• Wires should be soldered at the solder cup, and the joint completely covered with a piece of heat shrink tubing about 1/2" (12mm) long (which must go on before the wire is soldered, obviously!).