MSI MS-98D1 User manual

i
MS-98D1
(v1.x) Industrial Computer Board

ii
Preface MS-98D1
Preface MS-98D1
Copyright Notice
The material in this document is the intellectual property of MICRO-STAR INTER-
NATIONAL. We take every care in the preparation of this document, but no guar-
antee is given as to the correctness of its contents. Our products are under con-
tinual improvement and we reserve the right to make changes without notice.
Trademarks
All trademarks are the properties of their respective owners.
Revision History
Revision Date
V1.1 2014/06
Technical Support
If a problem arises with your system and no solution can be obtained from the
user’s manual, please contact your place of purchase or local distributor. Alterna-
tively, please try the following help resources for further guidance.
Visit the MSI website for technical guide, BIOS updates, driver updates and other
information, or contact our technical sta󰘯 via http://support.msi.com/

Preface MS-98D1
iii
Preface MS-98D1
Safety Instructions
Always read the safety instructions carefully.
Keep this User’s Manual for future reference.
Keep this equipment away from humidity.
Lay this equipment on a reliable flat surface before setting it up.
The openings on the enclosure are for air convection hence protects the
equipment from overheating. DO NOT COVER THE OPENINGS.
Make sure the voltage of the power source and adjust properly before
connecting the equipment to the power inlet.
Place the power cord such a way that people can not step on it. Do not place
anything over the power cord.
Always Unplug the Power Cord before inserting any add-on card or mod-
ule.
All cautions and warnings on the equipment should be noted.
Never pour any liquid into the opening that could damage or cause electrical
shock.
If any of the following situations arises, get the equipment checked by
service personnel:
The power cord or plug is damaged.
Liquid has penetrated into the equipment.
The equipment has been exposed to moisture.
The equipment does not work well or you can not get it work according
to User’s Manual.
The equipment has dropped and damaged.
The equipment has obvious sign of breakage.
DO NOT LEAVE THIS EQUIPMENT IN AN ENVIRONMENT
UNCONDITIONED, STORAGE TEMPERATURE ABOVE 60oC (140oF), IT
MAY DAMAGE THE EQUIPMENT.
警告使用者:
這是甲類資訊產品，在居住的環境中使用時，可能會造成無線電干擾，在這種情
況下，使用者會被要求採取某些適當的對策。
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iv
Preface MS-98D1
Preface MS-98D1
Chemical Substances Information
In compliance with chemical substances regulations, such as the EU REACH
Regulation (Regulation EC No. 1907/2006 of the European Parliament and the
Council), MSI provides the information of chemical substances in products at:
http://www.msi.com/html/popup/csr/evmtprtt_pcm.html
Battery Information
European Union:
Batteries, battery packs, and accumulators should not be
disposed of as unsorted household waste. Please use the
public collection system to return, recycle, or treat them in
compliance with the local regulations.
Taiwan:
For better environmental protection, waste batteries should
be collected separately for recycling or special disposal.
California, USA:
The button cell battery may contain perchlorate material and requires special
handling when recycled or disposed of in California.
For further information please visit:
http://www.dtsc.ca.gov/hazardouswaste/perchlorate/
Danger of explosion if battery is incorrectly replaced. Replace only with the
same or equivalent type recommended by the manufacturer.

Preface MS-98D1
v
Preface MS-98D1
CE Conformity
Hereby, Micro-Star International CO., LTD declares that this device
is in compliance with the essential safety requirements and other
relevant provisions set out in the European Directive.
FCC-A Radio Frequency
Interference Statement
This equipment has been tested and found to comply with the
limits for a Class A digital device, pursuant to Part 15 of the FCC Rules. These
limits are designed to provide reasonable protection against harmful interference
when the equipment is operated in a commercial environment. This equipment
generates, uses and can radiate radio frequency energy and, if not installed and
used in accordance with the instruction manual, may cause harmful interference
to radio communications. Operation of this equipment in a residential area is
likely to cause harmful interference, in which case the user will be required to
correct the interference at his own expense.
Notice 1
The changes or modifications not expressly approved by the party responsible for
compliance could void the user’s authority to operate the equipment.
Notice 2
Shielded interface cables and AC power cord, if any, must be used in order to
comply with the emission limits.
VOIR LA NOTICE D’INSTALLATION AVANT DE RACCORDER AU RESEAU.
This device complies with Part 15 of the FCC Rules. Operation is subject to the
following two conditions:
this device may not cause harmful interference, and
this device must accept any interference received, including interference that
may cause undesired operation.
WEEE Statement
Under the European Union (“EU”) Directive on Waste Electrical and
Electronic Equipment, Directive 2002/96/EC, which takes effect on
August 13, 2005, products of “electrical and electronic equipment”
cannot be discarded as municipal waste anymore and manufacturers
of covered electronic equipment will be obligated to take back such products at
the end of their useful life. MSI will comply with the product take back require-
ments at the end of life of MSI-branded products that are sold into the EU. You
can return these products to local collection points.
1)
2)

vi
Preface MS-98D1
Contents
Copyright Notice............................................................................................ ii
Trademarks ................................................................................................... ii
Revision History ............................................................................................ ii
Technical Support.......................................................................................... ii
Safety Instructions.........................................................................................iii
Chemical Substances Information ............................................................... iv
Battery Information....................................................................................... iv
CE Conformity............................................................................................... v
FCC-A Radio Frequency Interference Statement ......................................... v
WEEE Statement .......................................................................................... v
1. Overview.......................................................................................1-1
Mainboard Specifications...........................................................................1-2
Mainboard Layout ......................................................................................1-4
2. Hardware Setup ...........................................................................2-1
Quick Component Guide............................................................................2-2
Memory ......................................................................................................2-3
Power Supply.............................................................................................2-4
Rear Panel I/O ...........................................................................................2-5
Connector...................................................................................................2-7
Jumper .....................................................................................................2-14
Slot...........................................................................................................2-17
3. BIOS Setup...................................................................................3-1
Entering Setup ...........................................................................................3-2
The Menu Bar ............................................................................................3-4
Main ...........................................................................................................3-5
Advanced ...................................................................................................3-6
Boot.......................................................................................................... 3-11
Security ....................................................................................................3-12
Chipset.....................................................................................................3-14
Power .......................................................................................................3-15
Save & Exit...............................................................................................3-17
A. WDT & GPIO ............................................................................... A-1
WDT Sample Code ................................................................................... A-2
GPIO Sample Code .................................................................................. A-3

1-1-1
Thank you for choosing the MS-98D1, an excellent industrial computer
board.
Based on the innovative Intel®NM10 chipset for optimal system efficien-
cy, the MS-98D1 accommodates the Intel®Cedarview-M/ Cedarview-D
processor and supports 1 DDR3 800/1066 SO-DIMM slot to provide the
maximum of 2GB/ 4GB memory capacity.
The MS-98D1 is durable under extreme environments and suitable to be
applied in every industrial field, such as digital signage, kiosk, gaming,
industrial control automation and POS.
1Overview

1-2
Overview MS-98D1
Overview MS-98D1
Mainboard Specications
Processor
Intel®Atom D2550/ 1.86GHz, N2800/1.86GHz, N2600/1.6GHz■
Chipset
Intel®NM10 chipset■
Memory
1 DDR3 800/ 1066MHz Unbuffered, non-ECC SO-DIMM slot, supporting
the maximum of 4GB (N2600 only supports DDR3 800 MHz with the maxi-
mum of 2GB)
■
LAN
LAN1: Intel®I210-AT GbE LAN
LAN1: Intel®I210-AT GbE LAN
■
■
Audio
Realtek ALC887 audio codec
Compliant with Azalia 1.0 specs
■
■
Storage
1 SATA 3Gb/s port (SATA1)
1 mSATA function included with Mini-PCIe slot
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Graphics
Graphics integrated in Intel processor■
Rear Panel I/O
1 DVI-I port
2 Gigabit LAN jacks
4 USB 2.0 ports
1 RS-232/422/485 serial port
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Overview MS-98D1
1-3
Overview MS-98D1
Onboard Pinheaders/ Connectors/ Jumpers
1 Dual USB 2.0 wafer connector
5 Serial port connectors
1 Parallel port connector
1 Front panel connector
1 PS/2 keyboard/ mouse combo connector
2 LVDS connectors
2 LVDS power jumpers
1 GPIO connector
1 Audio connector
1 Amplifier connector
1 System fan connector
1 SATA power connector
1 Clear CMOS jumper
2 Serial port power jumpers
1 AT/ATX select jumper
1 PCI-104 power jumper
2 Inverter connectors
2 Inverter power jumpers
1 SIM Card Holder
2 NVM LAN jumpers
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Slot
2 Mini-PCIe slot (including 1 x mSATA function)
1 PCI-104 slot
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Form Factor
165mm x 115mm (EPIC-size)■
Environmental
Operating Temperature: 0oC ~ 60oC
Storage Temperature: -20oC ~ 80oC
Humidity: 10% ~ 90% RH, Non-Condensing
Power input DC 9~36V
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1-4
Overview MS-98D1
Mainboard Layout
Serial PortLAN
Port
USB 2.0
Port
LAN
Port
DVI-I Port
Back Panel
Front Panel
Connector
Fan Connector
SIM Card Holder
COM Port
Jumper
Clear CMOS
Jumper
AT/ATX
Jumper
SO-DIMM Slot
PCI104 Power
Connector
COM Port
Connector
USB 2.0 Connector
SATA Port
Parallel Port
Connector
Amplier
Connector
LVDS2 Inverter
Power Jumper
HDD Power
Connector
PCI-104 Slot
GPIO Connector
Port 80
Connector
PS/2
Keyboard
/ Mouse
Combo
Connector
LVDS1 Connector
LVDS1 Power Jumper
LVDS2 Power Jumper
LVDS2 Inverter
Connector
LVDS2 Connector
LVDS1
Inverter
Power Jumper
Mini-PCIe Slot
Mini-PCIe Slot
Audio
Connector
LVDS1 Inverter
Connector
NVM LAN1
Jumper
NVM LAN2
Jumper
DC-In
Connector

2-2-1
This chapter provides you with the information about hardware setup
procedures. While doing the installation, be careful in holding the com-
ponents and follow the installation procedures. For some components, if
you install in the wrong orientation, the components will not work prop-
erly.
Use a grounded wrist strap before handling computer components. Static
electricity may damage the components.
2Hardware Setup

2-2
Hardware Setup MS-98D1
Hardware Setup MS-98D1
Quick Component Guide
Back Panel,
p. 2-5
JFP1, p. 2-8
SYSFAN1, p. 2-7
JSIM1, p. 2-17
JCOMP2,
p. 2-15
JBAT1, p. 2-14
JAT1,
p. 2-14
DIMM1, p. 2-3
JPCIP1, p. 2-16
JCOM3, JCOM2
JCOM4, JCOM5, JCOM6, p. 2-8
JUSB1, p. 2-9
SATA1, p. 2-7
JLPT1, p. 2-11
JAMP1,
p. 2-8
JINV2, p. 2-16
JHDDPWR1,
p. 2-4
PC104_1, p. 2-18
J1, p. 2-8
JDP1, p. 2-11
JKBMS1,
p. 2-10
JLVDS1, p. 2-12
JVDD1, , p. 2-15
JVDD2, p. 2-15
JINVDD1,
p. 2-12
JLVDS2, p. 2-13
JINV1,
p. 2-16
MINI_PCIE2, p. 2-17
JAUD1, p. 2-9
JCOMP1,
p. 2-15
MINI_PCIE1,
p. 2-17
JINVDD2,
p. 2-13
JNVM1, p. 2-16
JNVM2, p. 2-16
JPWR1, p. 2-7

Hardware Setup MS-98D1
2-3
Hardware Setup MS-98D1
Memory
These DIMM slots are intended for memory modules.
Installing Memory Modules
Locate the SO-DIMM slot. Align the notch on the DIMM with the key on the
slot and insert the DIMM into the slot.
Push the DIMM gently downwards until the slot levers click and lock the
DIMM in place.
To uninstall the DIMM, 󰘱ip the slot levers outwards and the DIMM will be
released instantly
Important
You can barely see the golden 󰘰nger if the DIMM is properly inserted in the DIMM
slot.
1.
2.
3.

2-4
Hardware Setup MS-98D1
Hardware Setup MS-98D1
Power Supply
HDD Power Connector: JHDDPWR1
This connector is used to provide power for hard disk drives.
1.GND
2.VCC5
Important
Make sure that all power connectors are connected to the power supply to ensure
stable operation of the motherboard.

Hardware Setup MS-98D1
2-5
Hardware Setup MS-98D1
Rear Panel I/O
Serial Port
LAN
Ports USB 2.0
Ports
DVI-I Port USB 2.0
Ports
DVI-I Port
The DVI-I (Digital Visual Interface-Integrated) connector allows you to connect an
LCD monitor. It provides a high-speed digital interconnection between the com-
puter and its display device. To connect an LCD monitor, simply plug your moni-
tor cable into the DVI connector, and make sure that the other end of the cable
is properly connected to your monitor (refer to your monitor manual for more
information.)The DVI-I (Digital Visual Interface-Integrated) connector allows you
to connect an LCD monitor. It provides a high-speed digital interconnection be-
tween the computer and its display device. To connect an LCD monitor, simply
plug your monitor cable into the DVI connector, and make sure that the other end
of the cable is properly connected to your monitor (refer to your monitor manual
for more information.)
USB 2.0 Port
The USB (Universal Serial Bus) port is for attaching USB devices such as
keyboard, mouse, or other USB-compatible devices..
LAN Jack
The standard RJ-45 LAN jack is for connection to the Local Area Network (LAN).
You can connect a network cable to it.
Yellow Green/ Orange
LED Color LED State Condition
Left Yellow Off LAN link is not established.
On (steady state) LAN link is established.
On (blinking) The computer is communicating with another
computer on the LAN.
Right Green Off 10 Mbit/sec data rate is selected.
On 100 Mbit/sec data rate is selected.
Orange On 1000 Mbit/sec data rate is selected.
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

2-6
Hardware Setup MS-98D1
Hardware Setup MS-98D1
RS-232/422/485 Serial Port
The serial port is a 16550A high speed communications port that sends/ receives
16 bytes FIFOs. You can attach a serial mouse or other serial devices directly to
the connector.
PIN SIGNAL DESCRIPTION
1
2
3
4
5
6
7
8
9
DCD
RXD
TXD
DTR
GND
DSR
RTS
CTS
VCC_COM1
Data Carrier Detect
Receive Data
Transmit Data
Data Terminal Ready
Signal Ground
Data Set Ready
Request To Send
Clear To Send
Voltage select setting by jumper
RS-232
PIN SIGNAL DESCRIPTION
1
2
3
4
5
6
7
8
9
422 TXD-
422 RXD+
422 TXD+
422 RXD-
GND
NC
NC
NC
NC
Transmit Data, Negative
Receive Data, Positive
Transmit Data, Positive
Receive Data, Negative
Signal Ground
No Connection
No Connection
No Connection
No Connection
RS-422
PIN SIGNAL DESCRIPTION
1
2
3
4
5
6
7
8
9
485 TXD-
NC
485 TXD+
NC
GND
NC
NC
NC
NC
Transmit Data, Negative
No Connection
Transmit Data, Positive
No Connection
Signal Ground
No Connection
No Connection
No Connection
No Connection
RS-485


Hardware Setup MS-98D1
2-7
Hardware Setup MS-98D1
Connector
DC Power Connector: JPWR1
Thi s connector i s used to provi de power to the motherboard.
21
DC-In (9~36V) GND
Fan Power Connector: SYSFAN1
The fan power connectors support system cooling fan with +12V. When con-
necting the wire to the connectors, always note that the red wire is the positive
and should be connected to the +12V; the black wire is Ground and should be
connected to GND. If the motherboard has a System Hardware Monitor chipset
onboard, you must use a specially designed fan with speed sensor to take advan-
tage of the system fan control.
2.+12V
3.Sensor
1.Ground
Important
Please refer to the recommended CPU fans at processor’s official website or
consult the vendors for proper CPU cooling fan.
Fan cooler sets with 3- or 4-pin power connector are both available.
Serial ATA Connector: SATA1
This connector is a high-speed Serial ATA interface port. Each connector can
connect to one Serial ATA device.
Important
Please do not fold the SATA cable into a 90-degree angle. Otherwise, data loss
may occur during transmission.
•
•

2-8
Hardware Setup MS-98D1
Hardware Setup MS-98D1
Audio Amplifier Connector: JAMP1
The JAMP1 is used to connect audio amplifiers to enhance audio performance.
1.AMP_L-
2.AMP_L+
3.AMP_R-
4.AMP_R+
Front Panel Connector: JFP1
This front panel connector is provided for electrical connection to the front panel
switches & LEDs and is compliant with Intel Front Panel I/O Connectivity Design
Guide.
8.GND
3.HD_LED
1.HDD+
6.FP_PSIN
5.GND
4.SUS_LED
7.FP_RST#
2.PWR_LED
9.NC
GPIO Connector: J1
This connector is provided for the General-Purpose Input/Output (GPIO)
peripheral module.
9.N_GPO0
8.N_GPI1
3.N_GPO3
1.GND
6.N_GPI2
5.N_GPO2
4.N_GPI3
7.N_GPO1
2.5VSB
10.N_GPI0

Hardware Setup MS-98D1
2-9
Hardware Setup MS-98D1
Audio Connector: JAUD1
This connector allows you to connect the additional audio panel.
1.LINE1_1R_J
8.LINE1_JD
10.GND
3.LINE1_1L_J
6.MIC1_JD
5.LINE_FOUTR_J
4.MIC1_L_J
7.LINE_FOUTL_J
2.MIC1_R_J
12.GND
9.FRONT_JD
11.GND
Front USB 2.0 Connector: JUSB1
The USB connector is ideal for connecting high-speed USB interface peripherals
such as USB HDD, digital cameras, MP3 players, printers, modems
and the like.
8.SVCC3
3.SBD5-
1.SVCC3
6.SBD4-
5.SBD5+
4.SBD4+
7.GND
2.GND
Important
Note that the pins of VCC and GND must be connected correctly to avoid possible
damage.

2-10
Hardware Setup MS-98D1
Hardware Setup MS-98D1
Serial Port Connector: COM2~6
This connector is a 16550A high speed communications port that sends/ receives
16 bytes FIFOs. You can attach serial devices to it through the optional serial port
bracket.
8.COM_NCTS2~6
3.COM_NTD2~6
1.COM_NDCD2~6
6.COM_NDSR2~6
5.GND
4.COM_NDTR2~6
7.COM_NRTS2~6
2.COM_NRD2~6
9.VCC_COM2&VCC_COM3
PIN SIGNAL DESCRIPTION
1
2
3
4
5
6
7
8
9
DCD
RD
TD
DTR
GND
DSR
RTS
CTS
VCC_COM
Data Carrier Detect
Receive Data
Transmit Data
Data Terminal Ready
Signal Ground
Data Set Ready
Request To Send
Clear To Send
Voltage select setting by jumper
RS-232
PS/2 Keyboard / Mouse Combo Connector: JKBMS1
The PS/2®mouse/ keyboard connector is for a PS/2®mouse/keyboard.
6.MS
CLK_PH#
4.KBCLK_PH#
2.Ground
5.VCC5
3.MSDAT_PH#
1.KBDAT_PH#