Supermicro SUPERSERVER 5025M-UR User manual

SUPERSERVER 5025M-UR
USER’S MANUAL
1.0
®
SUPER

The information in this User’s Manual has been carefully reviewed and is believed to be accurate.
The vendor assumes no responsibility for any inaccuracies that may be contained in this document,
makes no commitment to update or to keep current the information in this manual, or to notify any
person or organization of the updates. Please Note: For the most up-to-date version of this
manual, please see our web site at www.micro.com.
MICRO COMPUTER reserves the right to make changes to the product described in this manual
at any time and without notice. This product, including software, if any, and documentation may
not, in whole or in part, be copied, photocopied, reproduced, translated or reduced to any medium
or machine without prior written consent.
IN NO EVENT WILL MICRO COMPUTER BE LIABLE FOR DIRECT, INDIRECT, SPECIAL,
INCIDENTAL, SPECULATIVE OR CONSEQUENTIAL DAMAGES ARISING FROM THE USE
OR INABILITY TO USE THIS PRODUCT OR DOCUMENTATION, EVEN IF ADVISED OF THE
POSSIBILITY OF SUCH DAMAGES. IN PARTICULAR, THE VENDOR SHALL NOT HAVE
LIABILITY FOR ANY HARDWARE, SOFTWARE, OR DATA STORED OR USED WITH THE
PRODUCT, INCLUDING THE COSTS OF REPAIRING, REPLACING, INTEGRATING, INSTALLING
OR RECOVERING SUCH HARDWARE, SOFTWARE, OR DATA.
Any disputes arising between manufacturer and customer shall be governed by the laws of Santa
Clara County in the State of California, USA. The State of California, County of Santa Clara shall
be the exclusive venue for the resolution of any such disputes. micro's total liability for all claims
will not exceed the price paid for the hardware product.
FCC 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 manufacturer’s instruction manual, may cause harmful
interference with radio communications. Operation of this equipment in a residential area is likely
to cause harmful interference, in which case you will be required to correct the interference at your
own expense.
Unless you request and receive written permission from SUPER MICRO COMPUTER, you may
not copy any part of this document.
Information in this document is subject to change without notice. Other products and companies
referred to herein are trademarks or registered trademarks of their respective companies or mark
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Copyright © 2007 by MICRO COMPUTER INC.
All rights reserved.
Printed in the United States of America
Manual Revision 1.0
Release Date: May 17, 2007

iii
Preface
Preface
About This Manual
This manual is written for professional system integrators and PC technicians. It
provides information for the installation and use of the SuperServer 5025M-UR. In-
stallation and maintenance should be performed by experienced technicians only.
The SuperServer 5025M-UR is a high-end server based on the SC825TQ-R700U
2U rackmount chassis and the PDSMU, a single processor motherboard that sup-
ports Intel®Xeon® 3000 Series, Pentium® D, Pentium Extreme Edition, Pentium
4, and Celeron D processors in an LGA775 Package at a Front Side (System) Bus
speed of 1066/667/533 MHz and up to 8 GB of unbuffered ECC/non-ECC DDR2-
667/533/400 SDRAM.
Manual Organization
Chapter 1: Introduction
The first chapter provides a checklist of the main components included with the
server system and describes the main features of the PDSMU motherboard and the
SC825TQ-R700U chassis, which comprise the SuperServer 5025M-UR.
Chapter 2: Server Installation
This chapter describes the steps necessary to install the SuperServer 5025M-UR
into a rack and check out the server configuration prior to powering up the system.
If your server was ordered without processor and memory components, this chapter
will refer you to the appropriate sections of the manual for their installation.
Chapter 3: System Interface
Refer here for details on the system interface, which includes the functions and
information provided by the control panel on the chassis as well as other LEDs
located throughout the system.

SUPERSERVER 5025M-UR User's Manual
iv
Chapter 4: System Safety
You should thoroughly familiarize yourself with this chapter for a general overview
of safety precautions that should be followed when installing and servicing the
SuperServer 5025M-UR.
Chapter 5: Advanced Motherboard Setup
Chapter 5 provides detailed information on the PDSMU motherboard, including the
locations and functions of connections, headers and jumpers. Refer to this chapter
when adding or removing processors or main memory and when reconfiguring the
motherboard.
Chapter 6: Advanced Chassis Setup
Refer to Chapter 6 for detailed information on the SC825TQ-R700U server chassis.
You should follow the procedures given in this chapter when installing, removing
or reconfiguring drives and when replacing system power supply modules and
cooling fans.
Chapter 7: BIOS
The BIOS chapter includes an introduction to BIOS and provides detailed informa-
tion on running the CMOS Setup Utility.
Appendix A: BIOS POST Messages
Appendix B: BIOS POST Codes
Appendix C: Intel HostRAID
Appendix D: Adaptec HostRAID Setup Guidelines
Appendix E: System Specifications

v
Preface
Notes

vi
Table of Contents
Preface
About This Manual ...................................................................................................... iii
Manual Organization ................................................................................................... iii
Chapter 1: Introduction
1-1 Overview ......................................................................................................... 1-1
1-2 Motherboard Features .................................................................................... 1-2
1-3 Server Chassis Features ................................................................................ 1-3
1-4 Contacting Supermicro ................................................................................... 1-6
Chapter 2: Server Installation
2-1 Overview ......................................................................................................... 2-1
2-2 Unpacking the System ................................................................................... 2-1
2-3 Preparing for Setup ........................................................................................ 2-1
Choosing a Setup Location ...................................................................... 2-2
Rack Precautions ..................................................................................... 2-2
Server Precautions ................................................................................... 2-2
Rack Mounting Considerations ................................................................ 2-3
2-4 Installing the System into a Rack ................................................................... 2-4
2-5 Checking the Motherboard Setup .................................................................. 2-8
2-6 Checking the Drive Bay Setup ..................................................................... 2-10
Chapter 3: System Interface
3-1 Overview ......................................................................................................... 3-1
3-2 Control Panel Buttons .................................................................................... 3-1
Reset ........................................................................................................ 3-1
Power ....................................................................................................... 3-1
3-3 Control Panel LEDs ........................................................................................ 3-2
Power Fail ................................................................................................ 3-2
Overheat/Fan Fail .................................................................................... 3-2
NIC1 ......................................................................................................... 3-2
NIC2 ......................................................................................................... 3-2
HDD .......................................................................................................... 3-2
Power ....................................................................................................... 3-3
3-4 Drive Carrier LEDs ......................................................................................... 3-3
SUPERSERVER 5025M-UR User's Manual

Chapter 4: System Safety
4-1 Electrical Safety Precautions .......................................................................... 4-1
4-2 General Safety Precautions ........................................................................... 4-2
4-3 ESD Precautions ............................................................................................ 4-3
4-4 Operating Precautions .................................................................................... 4-4
Chapter 5: Advanced Motherboard Setup
5-1 Handling the Motherboard .............................................................................. 5-1
5-2 Processor and Heatsink Installation ............................................................... 5-2
5-3 Connecting Cables ......................................................................................... 5-5
Connecting Data Cables .......................................................................... 5-5
Connecting Power Cables ....................................................................... 5-5
Connecting the Control Panel .................................................................. 5-6
5-4 I/O Ports ......................................................................................................... 5-7
5-5 Installing Memory ........................................................................................... 5-7
5-6 Adding PCI Cards ........................................................................................... 5-9
5-7 Motherboard Details ..................................................................................... 5-10
PDSMU Layout ...................................................................................... 5-10
PDSMU Quick Reference ...................................................................... 5-11
5-8 Connector Definitions ................................................................................... 5-12
ATX Power Connector ........................................................................... 5-12
Processor Power Connector .................................................................. 5-12
NMI Button ............................................................................................. 5-12
Power LED ............................................................................................. 5-12
HDD LED ............................................................................................... 5-13
NIC1 LED ............................................................................................... 5-13
NIC2 LED ............................................................................................... 5-13
Overheat/Fan LED ................................................................................. 5-13
Power Fail LED ...................................................................................... 5-14
Reset Button .......................................................................................... 5-14
Power Button .......................................................................................... 5-14
Universal Serial Bus (USB0/1) ............................................................... 5-14
Universal Serial Bus Headers ................................................................ 5-15
Serial Ports ............................................................................................. 5-15
Fan Headers .......................................................................................... 5-15
Chassis Intrusion .................................................................................... 5-16
Speaker Connector ................................................................................ 5-16
ATX PS/2 Keyboard and PS/2 Mouse Ports ......................................... 5-16
Wake-On-LAN ........................................................................................ 5-16
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viii
Wake-On-Ring ........................................................................................ 5-17
Power SMB Connector .......................................................................... 5-17
Power Supply Fail .................................................................................. 5-17
Alarm Reset ........................................................................................... 5-17
LAN 1/2 (Ethernet Ports) ....................................................................... 5-18
Power LED ............................................................................................. 5-18
5-9 Jumper Settings ............................................................................................ 5-19
Explanation of Jumpers ......................................................................... 5-19
CMOS Clear ........................................................................................... 5-19
VGA Enable/Disable ............................................................................... 5-19
LAN Enable/Disable ............................................................................... 5-20
Watch Dog Enable/Disable .................................................................... 5-20
Power Force On Enable/Disable ........................................................... 5-20
5-10 Onboard Indicators ....................................................................................... 5-21
LAN1/2 LEDs ......................................................................................... 5-21
LE1 ......................................................................................................... 5-21
PWR_LED .............................................................................................. 5-21
5-11 Floppy, IDE and SATA Drive Connections ................................................... 5-22
Floppy Connector ................................................................................... 5-22
IDE Connector ........................................................................................ 5-23
SATA Ports ............................................................................................. 5-23
Chapter 6: Advanced Chassis Setup
6-1 Static-Sensitive Devices ................................................................................. 6-1
6-2 Control Panel .................................................................................................. 6-2
6-3 System Fans ................................................................................................... 6-3
System Fan Failure .................................................................................. 6-3
Replacing System Fans ........................................................................... 6-3
6-4 Drive Bay Installation/Removal ...................................................................... 6-4
SATA Drive Installation ............................................................................. 6-5
DVD-ROM and Floppy Drive Installation ................................................. 6-7
6-5 Power Supply ................................................................................................. 6-8
Power Supply Failure ............................................................................... 6-8
Removing/Replacing the Power Supply ................................................... 6-8
Chapter 7: BIOS
7-1 Introduction ..................................................................................................... 7-1
7-2 Running Setup ................................................................................................ 7-2
7-3 Main BIOS Setup ............................................................................................ 7-2
SUPERSERVER 5025M-UR User's Manual

Table of Contents
ix
7-4 Advanced Setup ............................................................................................. 7-6
7-5 Security ......................................................................................................... 7-16
7-6 Boot .............................................................................................................. 7-17
7-7 Exit ................................................................................................................ 7-18
Appendices:
Appendix A: BIOS POST Messages
Appendix B: BIOS POST Codes
Appendix C: Intel HostRAID
Appendix D: Adaptec HostRAID Setup Guidelines
Appendix E: System Specifications

Notes
x
SUPERSERVER 5025M-UR User's Manual

Chapter 1
Introduction
1-1 Overview
The 5025M-UR is a 2U server comprised of two main subsystems: the SC825TQ-
R700U chassis and the PDSMU single processor motherboard. Please refer to our
web site for information on operating systems that have been certified for use with
the server (www.supermicro.com). In addition to the motherboard and chassis, vari-
ous hardware components have been included with the system, as listed below:
 One (1) slim DVD-ROM drive [DVM-PNSC-824(B)]
 Three (3) 8-cm fans (FAN-0094L)
 One (1) air shroud (MCP-310-00022-00)
 One (1) front panel cable (CBL-0087)
 Riser Cards: (see Section 5-6 for details)
One (1) RSC-R2UU-UA3E8 for 1 UIO and three (3) PCI-E x8 cards
 SATA Accessories
One (1) SATA backplane (BPN-SAS-825TQ)
Two (2) SATA iPASS cables (CBL-0188L)
Eight (8) SATA drive carriers (MCP-220-00001-01)
One (1) USB tray (MCP-220-00007-01)
 One (1) rackmount kit (MCP-290-00002-00)
 One (1) CD containing drivers and utilities
 SuperServer 5025M-UR User's Manual
Note: a "V" at the end of the server name indicates the chassis is silver, "B" indicates
black.
Chapter 1: Introduction
1-1

1-2
SUPERSERVER 5025M-UR User's Manual
1-2 Motherboard Features
At the heart of the SuperServer 5025M-UR lies the PDSMU, a single processor
motherboard based on Intel's 3010 chipset. Below are the main features of the
PDSMU (see Figure 1-1 for a block diagram of the chipset).
Processors
The PDSMU supports a single 775-pin Intel®Xeon® 3000 Series, Pentium® D,
Pentium Extreme Edition, Pentium 4, and Celeron D processors at a FSB speed
of 1066/667/533 MHz. Please refer to the motherboard description pages on our
web site for a complete listing of supported processors.
Memory
The PDSMU has four 240-pin DIMM sockets that can support up to 8 GB of un-
buffered ECC/non-ECC DDR2-667/533/400 SDRAM. Memory may be installed in
either interleaved or non-interleaved configurations. Please refer to Chapter 5 for
details.
UIO
The PDSMU is a specially-designed motherboard that features Supermicro's UIO
(Universal I/O) technology. UIO motherboards have a PCI-Express x8 connector
that can support any one of several types of UIO card types to add SAS ports,
additional LAN ports, etc. to the motherboard. This allows the user to tailor the
motherboard to their own needs. Note: the 5025M-UR does not come with a
UIO card installed.
Serial ATA
An on-chip (ICH7R) SATA controller is integrated into the PDSMU to provide a
four-port, 3 Gb/sec Serial ATA subsystem, which is RAID 0, 1, 5 and 10 supported.
The SATA drives are hot-swappable units. Note: The operating system you use
must have RAID support to enable the hot-swap capability and RAID function of
the SATA drives.
Onboard Controllers/Ports
One floppy drive controller and one onboard ATA/100 controller are provided to
support up to two IDE hard drives or ATAPI devices. The color-coded I/O ports
include one COM port, a VGA (monitor) port, two USB 2.0 ports, PS/2 mouse and
keyboard ports and two gigabit Ethernet ports.

1-3
Chapter 1: Introduction
ATI Graphics Controller
The PDSMU features an integrated ATI video controller based on the ES1000
graphics chip. The ES1000 was designed specifically for servers, featuring low
power consumption, high reliability and superior longevity.
Other Features
Other onboard features that promote system health include onboard voltage moni-
tors, a chassis intrusion header, auto-switching voltage regulators, chassis and CPU
overheat sensors, virus protection and BIOS rescue.
1-3 Server Chassis Features
The SuperServer 5025M-UR is a high-end, scaleable server platform built upon the
SC825TQ-R700U 2U server chassis. The following is a general outline of the main
features of the SC825TQ-R700U chassis.
System Power
The SC825TQ-R700U features a redundant 700W power supply composed of two
separate power modules. This power redundancy feature allows you to replace a
failed power supply without shutting down the system.
SATA Subsystem
The SC825TQ-R700LP supports up to six 3 Gb/s Serial ATA drives. The Serial
ATA drives are hot-swappable units and are connected to a backplane that provides
power and control.
Note: The operating system you use must have RAID support to enable the hot-
swap capability of the Serial ATA drives.
PCI Expansion Slots
A riser card on the left side of the chassis supports a UIO card and three PCI-E x8
cards. (Right and left refer to the side when viewed from the front of the system.

1-4
SUPERSERVER 5025M-UR User's Manual
Front Control Panel
The chassis' control panel provides you with system monitoring and control. LEDs
indicate system power, HDD activity, network activity, system overheat and power
supply failure. A main power button and a system reset button are also included.
In addition, two USB ports have been incorporated into the control panel to provide
front side USB access.
I/O Backplane
The SC825TQ-R700U is an ATX form factor chassis designed to be used in a
2U rackmount configuration. The I/O backplane provides seven low-profile PCI
expansion slots, one COM port, a VGA port, two USB 2.0 ports, PS/2 mouse and
keyboard ports and two gigabit Ethernet ports.
Cooling System
The SC825TQ-R700U chassis has an innovative cooling design that includes three
8-cm hot-plug system cooling fans located in the middle section of the chassis. An
air shroud channels the airflow from the system fans to efficiently cool the processor
area of the system. The power supply module also includes a cooling fan.

1-5
Chapter 1: Introduction
Figure 1-1. Intel 3010 Chipset:
System Block Diagram
Note: This is a general block diagram. Please see Chapter 5 for details.
Intel 3010
ES1000
LGA775_PROCESSOR
ICH-7R
USB
PORT_0~5
FWH
LPC I/O
MS.
KB. FDD. SER.1
SER.2
PRN.
PRI_IDE
VRM 11.0
ADDR CTRL CTRL
ADDR DATADATA
UDMA/100
PCI_32_BUS
DDR2_667/533/400
DMI
ATI
S-ATA/300
4 x SATA
CK410 CLK
MCH
PORTS
1XGb_LAN
PCIE_x1
W83627HG
FSB: 1066/800/533MHz
USB 2.0/1.1
SMBUS I/F
PCIE_x8
W83793G
H/W
MONITOR
LPC
CH_B1-2
DDR2
CH_A1-2
1x PCIE_x8
1XGb_LAN
PCIE_x1
PCIE_x8 1x PCIE_x8
1PCIE_x16 Slot

1-6
SUPERSERVER 5025M-UR User's Manual
1-4 Contacting Supermicro
Headquarters
Address: SuperMicro Computer, Inc.
980 Rock Ave.
San Jose, CA 95131 U.S.A.
Tel: [phone]
Fax: [phone]
Email: [email protected] (General Information)
[email protected] (Technical Support)
Web Site: www.supermicro.com
Europe
Address: SuperMicro Computer B.V.
Het Sterrenbeeld 28, 5215 ML
's-Hertogenbosch, The Netherlands
Tel: [phone]
Fax: [phone]
Email: [email protected] (General Information)
[email protected] (Technical Support)
[email protected] (Customer Support)
Asia-Pacific
Address: SuperMicro, Taiwan
4F, No. 232-1, Liancheng Rd.
Chung-Ho 235, Taipei County
Taiwan, R.O.C.
Tel: [phone]
Fax: [phone]
Web Site: www.supermicro.com.tw
Technical Support:
Email: [email protected]
Tel: [phone], ext.132 or 139

Chapter 2: Server Installation
2-1
Chapter 2
Server Installation
2-1 Overview
This chapter provides a quick setup checklist to get your SuperServer 5025M-UR up
and running. Following these steps in the order given should enable you to have
the system operational within a minimum amount of time. This quick setup assumes
that your system has come to you with the processors and memory preinstalled. If
your system is not already fully integrated with a motherboard, processors, system
memory etc., please turn to the chapter or section noted in each step for details on
installing specific components.
2-2 Unpacking the System
You should inspect the box the SuperServer 5025M-UR was shipped in and note
if it was damaged in any way. If the server itself shows damage you should file a
damage claim with the carrier who delivered it.
Decide on a suitable location for the rack unit that will hold the SuperServer 5025M-
UR. It should be situated in a clean, dust-free area that is well ventilated. Avoid
areas where heat, electrical noise and electromagnetic fields are generated. You
will also need it placed near a grounded power outlet. Read the Rack and Server
Precautions in the next section.
2-3 Preparing for Setup
The box the SuperServer 5025M-UR was shipped in should include two sets of rail
assemblies, two rail mounting brackets and the mounting screws you will need to
install the system into the rack. Follow the steps in the order given to complete
the installation process in a minimum amount of time. Please read this section
in its entirety before you begin the installation procedure outlined in the sections
that follow.

2-2
SUPERSERVER 5025M-UR User's Manual
Choosing a Setup Location
- Leave enough clearance in front of the rack to enable you to open the front
door completely (~25 inches).
- Leave approximately 30 inches of clearance in the back of the rack to allow for
sufficient airflow and ease in servicing.
-This product is for installation only in a Restricted Access Location (dedicated
equipment rooms, service closets and the like).
- This product is not suitable for use with visual display work place devices according
to §2 of the the German Ordinance for Work with Visual Display Units.
Rack Precautions
- Ensure that the leveling jacks on the bottom of the rack are fully extended to the
floor with the full weight of the rack resting on them.
- In single rack installation, stabilizers should be attached to the rack.
- In multiple rack installations, the racks should be coupled together.
- Always make sure the rack is stable before extending a component from the
rack.
- You should extend only one component at a time - extending two or more simul-
taneously may cause the rack to become unstable.
Server Precautions
- Review the electrical and general safety precautions in Chapter 4.
- Determine the placement of each component in the rack before you install the
rails.
- Install the heaviest server components on the bottom of the rack first, and then
work up.
- Use a regulating uninterruptible power supply (UPS) to protect the server from
power surges, voltage spikes and to keep your system operating in case of a power
failure.
-Allow the hot plug SATA drives and power supply units to cool before touch-
ing them.
- Always keep the rack's front door and all panels and components on the servers
closed when not servicing to maintain proper cooling.
!!
Warnings and Precautions!

Chapter 2: Server Installation
2-3
Rack Mounting Considerations
Ambient Operating Temperature
If installed in a closed or multi-unit rack assembly, the ambient operating tempera-
ture of the rack environment may be greater than the ambient temperature of the
room. Therefore, consideration should be given to installing the equipment in an
environment compatible with the manufacturer’s maximum rated ambient tempera-
ture (Tmra).
Reduced Airflow
Equipment should be mounted into a rack so that the amount of airflow required
for safe operation is not compromised.
Mechanical Loading
Equipment should be mounted into a rack so that a hazardous condition does not
arise due to uneven mechanical loading.
Circuit Overloading
Consideration should be given to the connection of the equipment to the power
supply circuitry and the effect that any possible overloading of circuits might have
on overcurrent protection and power supply wiring. Appropriate consideration of
equipment nameplate ratings should be used when addressing this concern.
Reliable Ground
A reliable ground must be maintained at all times. To ensure this, the rack itself
should be grounded. Particular attention should be given to power supply connec-
tions other than the direct connections to the branch circuit (i.e. the use of power
strips, etc.).

2-4
SUPERSERVER 5025M-UR User's Manual
2-4 Installing the System into a Rack
This section provides information on installing the SuperServer 5025M-UR into a
rack unit. If the 5025M-UR has already been mounted into a rack, you can skip
ahead to Sections 2-5 and 2-6. There are a variety of rack units on the market, which
may mean the assembly procedure will differ slightly. The following is a guideline
for installing the system into a rack with the rack rails provided. You should also
refer to the installation instructions that came with the rack unit you are using.
Identifying the Sections of the Rack Rails
You should have received a total of six rack rail sections with the SuperServer
5025M-UR. Two of these sections secure directly to the 5025M-UR and the third
(which actually consists of two joined sections) secures directly to the rack itself.
All screws and hardware mentioned in the installation steps should be included in
the hardware kit.
Refer to Figure 2-1 to determine which rail section gets attached to the front of the
chassis and which gets attached to the rear of the chassis. (The longer of the two
is the front section. The third rail section attaches to the rack.)
Installing the Chassis Rails
Position the front and rear chassis rail sections along the side of the 5025M-UR
making sure the screw holes line up. Note that these two rails are left/right specific.
Screw the front chassis rail (the long piece) securely to the side of the chassis
(see Figure 2-1, step 1). There should be two screws for each side. Repeat this
procedure for the other rail on the opposite side of the chassis. Then attach the
two rear chassis rails to the chassis in the same manner, again keeping in mind
that the rails are left/right specific. (You will also need to attach the rail brackets
when installng into a telco rack.)
Locking Tabs: Both front chassis rails and the rack rails have a locking tab, which
serves two functions. The first is to lock the server into place when installed and
pushed fully into the rack, which is its normal position. Secondly, these tabs also
lock the server in place when fully extended from the rack. This prevents the server
from coming completely out of the rack when you pull it out for servicing.