MSI MS-98K1 User manual

i
MS-98K1
(v1.x) Industrial Computer Board

ii
Preface MS-98K1
Copyright and Trademarks Notice
Copyright © Micro-Star Int’l Co., Ltd. All rights reserved. The MSI logo used is
a registered trademark of Micro-Star Int’l Co., Ltd. All other marks and names
mentioned may be trademarks of their respective owners. No warranty as to
accuracy or completeness is expressed or implied. MSI reserves the right to
make changes to this document without prior notice.
Revision History
Revision Date
V1.1 2018/09
Technical Support
If a problem arises with your product and no solution can be obtained from
the user’s manual, please contact your place of purchase or local distributor.
Alternatively, please visit https://www.msi.com/support/ for further guidance.

iii
Preface MS-98K1
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 at 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 110/220V
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 module.
￭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, IT MAY
DAMAGE THE EQUIPMENT.

iv
Preface MS-98K1
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:
https://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.
廢電池請回收
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:
https://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.

v
Preface MS-98K1
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 modi󰘰cations 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.
This device complies with Part 15 of the FCC Rules. Operation is subject to the
following two conditions:
1) this device may not cause harmful interference, and
2) 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 e󰘯ect 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
requirements at the end of life of MSI-branded products that are sold into the EU.
You can return these products to local collection points.

vi
Preface MS-98K1
CONTENTS
Copyright and Trademarks Notice................................................................. 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
Specications.............................................................................................1-2
Layout ........................................................................................................1-5
Rear Panel I/O Options..............................................................................1-6
2. Hardware Setup ...........................................................................2-1
CPU (Central Processing Unit) ..................................................................2-3
Memory ......................................................................................................2-6
Power Supply.............................................................................................2-7
Rear Panel I/O ...........................................................................................2-8
Connector.................................................................................................2-10
Jumper .....................................................................................................2-16
Slot...........................................................................................................2-18
3. BIOS Setup...................................................................................3-1
Entering Setup ...........................................................................................3-2
Q170 SKU..................................................................................................3-4
The Menu Bar ............................................................................................3-4
Main ...........................................................................................................3-5
Advanced ...................................................................................................3-6
Boot..........................................................................................................3-12
Security ....................................................................................................3-13
Chipset.....................................................................................................3-21
Power .......................................................................................................3-22
Save & Exit...............................................................................................3-24

vii
Preface MS-98K1
H110 SKU ................................................................................................3-26
The Menu Bar ..........................................................................................3-26
Main .........................................................................................................3-27
Advanced .................................................................................................3-28
Boot..........................................................................................................3-34
Security ....................................................................................................3-35
Chipset.....................................................................................................3-43
Power .......................................................................................................3-44
Save & Exit...............................................................................................3-46
Appendix GPIO WDT BKL Programming ...................................... A-1
Abstract..................................................................................................... A-3
General Purposed IO ................................................................................ A-4
Watchdog Timer ........................................................................................ A-5
LVDS Backlight Brightness Control........................................................... A-6
SMBus Access .......................................................................................... A-7

1-1-1
Thank you for choosing the MS-98K1, an excellent industrial computer
board.
Based on the innovative Intel®Kaby Lake-S / Sky Lake-S Processor, the
MS-98K1 is engineered to provide reliable performance for a wide variety
of industrial applications.
1Overview

1-2
Overview MS-98K1
Specications
Processor
■Intel® Kaby Lake-S Core™ i7, Core™ i5, Core™ i3, Pentium®, Celeron®
Series Processor
■Intel® Sky Lake-S Core™ i7, Core™ i5, Core™ i3, Pentium®, Celeron®
Series Processor
PCH
■Intel® Q170 / H110
Memory
■2 * DDR4 SO-DIMM slots
■Dual-Channel DDR4 Non-ECC memory up to 2400MHz
■Max 32GB
Network
■Intel® I210AT GbE LAN (Co-lay I211AT)
Storage
■2* SATA 6Gb/s ports
■1 * M.2 M Key 2242/2280 slot
Audio
■Realtek ALC887 audio codec (Co-lay ALC888S)
■1 * Audio connector (Line-in/Line-Out/Mic-in)
■1 * Amplier connector
Graphics
■Integrated Intel® HD Graphics, support DirectX12
■2 * DVI-D: Max resolution 1920x1200@60Hz
■1 * DP: Max resolution 4096x2160@60Hz, Default (Co-lay HDMI)
■1 * HDMI: Max resolution 4096x2160@24Hz, Optional (Co-Lay DP)
■1 * LVDS 18/24 bit, Dual Channel: Max resolution 1920x1200@60Hz
Expansion Slot
■1 * PCIe x16 slot (Max 75W supported)
■1 * Mini-PCIe slot
■1 * Nano SIM holder

1-3
Overview MS-98K1
Rear Panel I/O
■1 * DisplayPort (Co-lay HDMI)
■2 * DVI-D ports
■LAN + USB
-SKU1: 4 * GbE RJ45 ports, 8 * USB3.0 ports
-SKU2: 4 * GbE RJ45 ports, 4 * USB3.0 ports, 4 * USB2.0 ports
-SKU3: 2 * GbE RJ45 ports, 4 * USB3.0 ports, 4 * USB2.0 ports
Internal I/O
■1 * DC power connector
■1 * CPU PWM fan connector
■1 * System PWM fan connector
■2 * SATA 6Gb/s ports
■2 * SATA power connectors
■1 * 4-pin USB2.0 box-header (1 port)
■1 * 2x4-pin USB2.0 box-header (2 ports, SKU1 only)
■1 * Front panel connector
■1 * Front audio connector
■1 * Amplier connector
■1 * GPIO (DIO) connector
■1 * Chassis intrusion header
■2 * Front LAN LED connectors (SKU1, SKU2)
■1 * Front LAN LED connector (SKU3)
■1 * LPC connector
■2 * Serial port connectors (4 ports)
■1 * LVDS connector
■1 * LVDS inverter connector
■2 * Serial port power jumpers
■1 * LVDS power jumper
■1 * LVDS inverter power jumper
■1 * Clear CMOS jumper
■1 * AT/ATX jumper
■1 * PCIe jumper
■1 * ME jumper
Form Factor
■170 mm x 170 mm (6.7 x 6.7 inches, mini-ITX)
Environment
■Operating Temperature: -10 ~ 60oC
■Storage Temperature: -20 ~ 80oC
■Humidity: 10 ~ 90% RH, non-condensing
Accessories
■1 * DC-in power cable (Max 12A supported)
■1 * I/O shield

1-4
Overview MS-98K1
SKU Comparison
SKUs
Features SKU1 SKU2 SKU3
Chipset (PCH) Intel Q170 Intel H110 Intel H110
Rear I/O
USB2.0 4 4
USB3.0 8 4 4
LAN 4 * Intel I210AT GbE 4 * Intel I211AT GbE 2 * Intel I211AT GbE
Internal
I/O
COM 4 * RS232/422/485 ■1 * RS232/422/485
■3 * RS232
USB2.0
■1 * 2x4-pin
box-header (2 ports)
■1 * 4-pin box-header
(1 port)
1 * 4-pin box-header (1 port)
TPM2.0
Onboard Yes
M.2 M Key PCIe x4 & SATA3.0 SATA3.0
Front LAN
LED 2 2 1

1-5
Overview MS-98K1
Layout
Mini-PCIe
Slot
Clear CMOS
Jumper
AT/ATX
Jumper
COM Port
Connector
USB 2.0
Connector
LVDS Inverter
Connector
GPIO (DIO)
Connector
System Fan
Connector
COM Port
Power
Jumper
Front LAN LED
Connector
Front Panel
Connector
LVDS Power
Jumper
Chassis Intrusion
Header
M.2 Slot
LVDS Inverter
Power Jumper
PCIe
Jumper
ME
Jumper
Front Audio
Connector
SO-DIMM
Slot
SATA 3.0
Connector
LVDS
Connector
SATA Power
Connector
Amplier
Connector
DC Power
Connector
Rear Panel
I/O
CPU Fan
Connector
PCIe Slot
Nano SIM
Holder

1-6
Overview MS-98K1
Rear Panel I/O Options
SKU1
DisplayPortDVI-D Ports
GbE RJ45 Ports
USB3.0 Ports USB3.0 Ports
GbE RJ45 Ports
SKU2
DisplayPortDVI-D Ports
GbE RJ45 Ports
USB3.0 Ports USB2.0 Ports
GbE RJ45 Ports
SKU3
DisplayPortDVI-D Ports
GbE RJ45 Ports
USB3.0 Ports USB2.0 Ports

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

2-2
Hardware Setup MS-98K1
Components Reference Guide
CPU (Central Processing Unit)........................................................2-3
Memory..............................................................................................2-6
Power Supply....................................................................................2-7
DC Power Connector: PWRCONN1 ..........................................................2-7
SATA Power Connector: JPW1, JPW2 ......................................................2-7
Rear Panel I/O ...................................................................................2-8
Connector........................................................................................2-10
Fan Power Connector: CPUFAN1, SYSFAN1 .........................................2-10
USB2.0 Connector: JUSB1 (SKU1 only)..................................................2-10
USB2.0 Connector: JUSB2......................................................................2-10
Front Panel Connector: JFP1................................................................... 2-11
LPC Debug Port Connector: JTPM1........................................................ 2-11
Serial ATA Connector: SATA1, SATA2...................................................... 2-11
LVDS Inverter Connector: JINVDD1 ........................................................2-12
LVDS Connector: JLVDS1 .......................................................................2-12
Serial Port Connector: JCOM1, JCOM2 ..................................................2-13
Audio Amplier Pinheader: JAMP1 ..........................................................2-14
Front Audio Connector: JAUD1................................................................2-14
Chassis Intrusion Header: J2...................................................................2-14
GPIO (DIO) Connector: JGPIO1..............................................................2-15
LAN LED Connector: J3, J4.....................................................................2-15
Jumper.............................................................................................2-16
Clear CMOS Jumper: JCMOS1 ...............................................................2-16
AT/ATX Jumper: JAT1..............................................................................2-16
ME Jumper: ME_DIS1 .............................................................................2-16
COM1 Power Jumper: JCOMP1 ..............................................................2-17
COM2~4 Power Jumper: JCOMP2..........................................................2-17
LVDS Power Jumper: JVDD1 ..................................................................2-17
LVDS Inverter Power Jumper: JINV1.......................................................2-17
PCI Express Jumper: J_CFG1.................................................................2-17
Slot...................................................................................................2-18
PCIe (Peripheral Component Interconnect Express) Slot........................2-18
Mini-PCIe (Peripheral Component Interconnect Express) Slot................2-18
Nano SIM Holder......................................................................................2-18
M.2 Slot (Key M, 2280 & 2242)................................................................2-18

2-3
Hardware Setup MS-98K1
CPU (Central Processing Unit)
When installing the CPU, make sure that you install the cooler to prevent
overheating. If you do not have the CPU cooler, consult your dealer before
turning on the computer.
Important
Overheating
Overheating will seriously damage the CPU and system. Always make sure the
cooling fan can work properly to protect the CPU from overheating. Make sure
that you apply an even layer of thermal paste (or thermal tape) between the CPU
and the heatsink to enhance heat dissipation.
Replacing the CPU
While replacing the CPU, always turn off the power supply or unplug the power
supply’s power cord from the grounded outlet rst to ensure the safety of CPU.
Introduction to LGA 115x CPU
The surface of LGA 115x CPU. Remember to apply some thermal paste on it for
better heat dispersion.
Alignment Key
Yellow triangle is the
Pin 1 indicator
Alignment Key

2-4
Hardware Setup MS-98K1
CPU Installation
When you are installing the CPU, make sure the CPU has a cooler attached on
the top to prevent overheating. Meanwhile, do not forget to apply some thermal
paste on CPU before installing the heat sink/cooler fan for better heat dispersion.
1. Open the load lever and remove the
plastic cap.
2. Lift the load lever up to fully open
position.
3. After con󰘰rming the CPU direction for
correct mating, put down the CPU in
the socket housing frame. Be sure to
grasp on the edge of the CPU base.
Note that the alignment keys are
matched.
4. Engage the load lever while pressing
down lightly onto the load plate.
Alignment Key
Important
Visually inspect if the CPU is seated well into the socket. If not, take out the CPU with
pure vertical motion and reinstall.

2-5
Hardware Setup MS-98K1
5. Secure the load lever with the hook
under the retention tab.
6. Make sure the four hooks are in
proper position before you install
the cooler. Align the holes on the
motherboard with the cooler. Push
down the cooler until its four clips
get wedged into the holes of the
motherboard.
7. Press the four hooks down to
fasten the cooler. Turn over the
motherboard to con󰘰rm that the clip-
ends are correctly inserted.
8. Finally, attach the CPU Fan cable
to the CPU fan connector on the
motherboard.
Important
• Conrm if your CPU cooler is rmly installed before turning on your system.
• Do not touch the CPU socket pins to avoid damage.
• Whenever CPU is not installed, always protect your CPU socket pins with the plastic
cap covered.
• Please refer to the documentation in the CPU cooler package for more details about
the CPU cooler installation.
• Read the CPU status in BIOS.

2-6
Hardware Setup MS-98K1
Memory
Dual-Channel Mode
In Dual-Channel mode, make sure that you install memory modules of the same
type and density in different channel DIMM slots.
Recommended Memory Population
Number of DIMMs installed 1 2
DIMM1 (ch A) V V
DIMM2 (ch B) V
Important
• "V" indicates a populated DIMM slot.
• Paired memory installation for Max performance.
• Populate the same DIMM type in each channel, specically: 1. Use the same
DIMM size; 2. Use the same number of ranks per DIMM.
Installing Memory Modules
1. Unlock the SO-DIMM slot by ipping open its side clips.
2. Vertically insert the SO-DIMM into the slot. The SO-DIMM has an off-center
notch at the bottom that will only allow it to t one way into the slot. Push the
SO-DIMM deeply into the slot. The side clips of the slot will automatically
close when the SO-DIMM is properly seated and an audible click should be
heard.
3. Manually check if the SO-DIMM has been locked in place by the slot’s side
clips.
Important
You can barely see the golden 󰘰nger if the SO-DIMM is properly inserted in the
DIMM slot.