MSI MS-98F6 User manual

i
MS-98F6
(v1.x) Industrial Computer Board

ii
Preface MS-98F6
Copyright Notice
The material in this document is the intellectual property of MICRO-STAR
INTERNATIONAL. We take every care in the preparation of this document, but no
guarantee is given as to the correctness of its contents. Our products are under
continual 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 2016/12
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.
Alternatively, please visit the MSI website for technical guide, BIOS updates,
driver updates and other information, or contact our technical sta󰘯 via http://www.
msi.com/support/

iii
Preface MS-98F6
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 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 ser-
vice 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 UNCONDI-
TIONED, STORAGE TEMPERATURE ABOVE 60oC (140oF), IT MAY DAM-
AGE THE EQUIPMENT.
CAUTION: Danger of explosion if battery is incorrectly replaced. Replace only
with the same or equivalent type recommended by the manufacturer.
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。

iv
Preface MS-98F6
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.

v
Preface MS-98F6
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 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 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-98F6
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
Motherboard Specications........................................................................1-2
Motherboard Layout...................................................................................1-4
ME Overview..............................................................................................1-5
2. Hardware Setup ...........................................................................2-1
Memory ......................................................................................................2-3
Power Supply.............................................................................................2-4
Rear Panel I/O ...........................................................................................2-5
Connector...................................................................................................2-7
Jumper .....................................................................................................2-15
Slot...........................................................................................................2-18
3. BIOS Setup...................................................................................3-1
Entering Setup ...........................................................................................3-2
The Menu Bar ............................................................................................3-4
Main ...........................................................................................................3-5
Advanced ...................................................................................................3-6
Boot..........................................................................................................3-12
Security ....................................................................................................3-13
Chipset.....................................................................................................3-17
Power .......................................................................................................3-18
Save & Exit...............................................................................................3-20
Appendix WDT & GPIO ................................................................... A-1
WDT Sample Code ................................................................................... A-2
GPIO Sample Code .................................................................................. A-3

1-1-1
Thank you for choosing the MS-98F6, an excellent industrial computer
board.
With low power and low prole design, the MS-98F6 accommodates the
Intel®Celeron®J1900/ N2930 Processor and supports up to 1 DDR3L
1333 MHz SO-DIMM slots to provide the maximum of 8GB memory
capacity.
In the entry-level and mid-range market segment, MS-98F6 provides
a high-performance solution for today’s front-end and general purpose
workstation, as well as in the future.
1Overview

1-2
Overview MS-98F6
Motherboard Specications
Processor
■Intel Celeron J1900/ N2930 Processor
Memory
■1 x DDR3L 1333 MHz SO-DIMM slot
■Supports the maximum of 8GB
LAN
■2 x Intel I210-AT GbE LAN
SATA
■1 x SATA 3Gb/s port
■1 x mSATA slot (shared with Mini-PCIe slot)
Audio
■Realtek ALC887 audio codec
■1 x front audio pin header
■1 x amplier pin header
Graphics
■Graphics integrated in Intel processor
■1 x VGA port
■1 x HDMI port
■1 x LVDS connector
Rear Panel I/O
■1 x VGA port
■1 x HDMI port
■3 x USB 2.0 ports
■1 x USB 3.0 port
■2 x Gigabit LAN ports

1-3
Overview MS-98F6
Onboard Pin Headers/ Connectors/ Jumpers
■1 x SATA connector
■1 x SATA power connector
■2 x USB2.0 headers
■1 x 8-bit GPIO header
■6 x COM port headers
■1 x Front panel connector
■1 x System Fan connector
■1 x LVDS connector
■1 x LVDS inverter connector
■1 x LPC debug port connector
■1 x DC power connector
■1 x DIMM socket
■1 x Audio connector
■1 x Amplier connector
■1 x ATX/AT selection jumper
■1 x SMBUS connector
■1 x PS/2 keyboard/mouse connector
Slot
■2 x Mini-PCIe slots (including 1 x mSATA function)
Form Factor
■Form Factor: 102mm x 146mm
Environmental
■Operating Temperature: -10oC ~ 60oC
■Storage Temperature: -20oC ~ 80oC
■Humidity: 10% ~ 90% RH, Non-Condensing

1-4
Overview MS-98F6
Motherboard Layout
Front Audio
Pin Header
Mini-PCIe/mSATA
Slot
Clear CMOS Jumper
AT/ATX Jumper
SO-DIMM Slot
COM Port
Connector
USB 2.0 Pin
Header
LVDS Inverter
Connector
SATA 2.0 Port
GPIO Pin Connector
Back Panel
System Fan
Connector
LVDS
Connector
COM Port Voltage
Jumper
LPC Debug
port Connector
Front Panel
Pin Header
SATA Power
Connector
Amplier Pin
Header
LVDS Power
Jumper
PS/2 Keyboard/Mouse
Connector
Mini-PCIe Slot
LVDS Inverter
Power Jumper
TXE F/W Jumper
LAN1 Jumper
LAN2 Jumper
SMB Bus
Connector
DC-In 12V/19V/24V
Power Connector

1-5
Overview MS-98F6
ME Overview
hBoard Dimension
unit of measurement: mm

1-6
Overview MS-98F6
hSuggested Chassis I/O Gap Dimension

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-98F6
Components Reference Guide
Memory..............................................................................................2-3
Power Supply....................................................................................2-4
DC Power Connector: JPWR2...................................................................2-4
SATA Power Connector: JPW1 ..................................................................2-4
Rear Panel I/O ...................................................................................2-5
Connector..........................................................................................2-7
Fan Power Connector: SYSFAN1 ..............................................................2-7
GPIO Pin Header: JGPIO1 ........................................................................2-8
Serial ATA Connector: SATA1 ....................................................................2-8
Front Panel Connector: JFP1.....................................................................2-9
LPC Debug Port Connector: JDP1.............................................................2-9
USB 2.0 Connector: JUSB1, JUSB2........................................................2-10
Serial Port Connector: COM1 ~ COM6....................................................2-10
LVDS Inverter Connector: JINVDD1 ........................................................2-12
LVDS Connector: JLVDS1 .......................................................................2-12
Audio Amplier Pinheader: JAMP1 ..........................................................2-13
Front Audio Connector: JAUD1................................................................2-13
PS/2 Keyboard/Mouse Connector: JKBMS1............................................2-14
I2C Bus Connector: JSMB1 .....................................................................2-14
Jumper.............................................................................................2-15
Clear CMOS Jumper: JCMOS1 ...............................................................2-15
AT/ATX Select Jumper: JATX1.................................................................2-15
Serial Port Power Jumper: JCOMP1~3 ...................................................2-16
LAN Congure Jumper: JLAN1~2............................................................2-16
LVDS Power Jumper: JVDD1 ..................................................................2-17
LVDS Inverter Power Jumper: JINV1.......................................................2-17
TXE F/W Jumper: JME1 ..........................................................................2-17
Slot...................................................................................................2-18
Mini-PCIe (Peripheral Component Interconnect Express) Slot................2-18

2-3
Hardware Setup MS-98F6
Memory
The SO-DIMM slot is intended for memory modules.
1. Locate the SO-DIMM slot. Align
the notch on the DIMM with the
key on the slot and insert the
DIMM into the slot.
2. Push the DIMM gently
downwards until the slot levers
click and lock the DIMM in
place.
3. 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.

2-4
Hardware Setup MS-98F6
Power Supply
DC Power Connector: JPWR2
This connector allows you to connect a 12V/ 19V/ 24V DC power adapter.
4.Ground
3.Ground
2.DC Power
1.DC P
ower
SATA Power Connector: JPW1
This connector is used to provide power to SATA devices.
Important
Make sure that all power connectors are connected to the power supply to ensure
stable operation of the motherboard.

2-5
Hardware Setup MS-98F6
Rear Panel I/O
HDMI Port LAN
Port
USB 2.0
Port
VGA Port USB 2.0
Port
LAN
Port
USB 3.0
Port
USB 2.0
Port
hVGA Port
The DB15-pin female connector is provided for monitor.
hHDMI Port
The High-De󰘰nition Multimedia Interface (HDMI) is an all-digital audio-video
interface that is capable of transmitting uncompressed streams. HDMI supports
all types of TV formats, including standard, enhanced, or high-de󰘰nition video,
plus multi-channel digital audio on a single cable.
hLAN 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.

2-6
Hardware Setup MS-98F6
hUSB 2.0 Port
The USB (Universal Serial Bus) port is for attaching USB devices such as
keyboard, mouse, or other USB-compatible devices.
hUSB 3.0 Port
The USB 3.0 port is backward-compatible with USB 2.0 devices and supports
data transfer rate up to 5 Gbit/s (SuperSpeed).

2-7
Hardware Setup MS-98F6
Connector
Fan Power Connector: SYSFAN1
The fan power connectors support system cooling fan with +12V. When connecting
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 advantage of the
system fan control.

2-8
Hardware Setup MS-98F6
GPIO Pin Header: JGPIO1
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.VCC5
10.N_GPI0
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.