Altos R360 F5 SFF User manual

R360 F5
USER’S MANUAL
Revision 1.0

Unlessyourequestandreceivewritten permission from AltosComputer,Inc.,youmaynotcopyanypartofthisdocument.
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 holders.

Preface
3
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 server. Installation and maintenance should be
performed by experienced technicians only.
Warnings
Special attention should be given to the following symbols used in this manual.
Warning! Indicates important information given to prevent equipment/property damage
or personal injury.
Warning! Indicates high voltage may be encountered when performing a procedure.

Chapter 1: Introduction
4
Chapter 1
Introduction
1.1 Overview
This chapter provides a brief outline of the functions and features of the SuperServer
120U-TNR. The following provides an overview of the specifications and capabilities.
System Overview
Motherboard
X12DPU-6
Chassis
119UH3TS-R1K22P-T
Processor
Support
Dual P+ (LGA4189) sockets 3rd Gen Intel Xeon Scalable
Memory
32 DIMM slots, DDR4 RDIMM/LRDIMM or Intel Optane PMem 200 Series*
(up to 8TB for DDR4, or up to 8TB of PMem and 4TB DDR4)
Up to 3200MHz; size up to 256GB
* Note: PMem 200 Series are supported on 3rd gen Intel Xeon Scalable Platinum, Gold
and selected Silver processors.
Drive Support
Twelve hot-swap 2.5" SATA/SAS/NVMe hybrid drive bays
Two SuperDOM (disk on modules)
Expansion Slots
Two PCIe 4.0 x16 (FH, 10.5” L)
One PCIe 4.0 x16 (LP)
One PCIe 4.0 x16 (LP, internal)
I/O Ports
LAN ports depend on
One VGA port (rear)
One serial port (rear)
Three USB 3.0 ports (2 rear, 1 front)
System Cooling
Eight heavy duty fans with Optimal Fan Speed Control
Air Shrouds
Power
Two Redundant Power Supplies, 80Plus Titanium level
Default: 1200W
Form Factor
1U; (WxHxD) 17.2” x 1.7” x 29.1” (437x43x739 mm)

Chapter 1: Introduction
5
Configuration Options
Riser Cards
Ultra Riser cards provide network connections and other capabilities. The customer must
choose one when purchasing the system.
LAN Ports
Description
No NIC
PCIe 4.0 x16 (Internal), four NVMe ports
Two 10GBaseT
Two RJ45, Intel X710-AT2,
PCIe 4.0 x16 (Internal), four NVMe ports
Four 10GBaseT
(two SFP+)
Two RJ45 and two SFP+, Intel X710-TM4,
PCIe 4.0 x16 (Internal), four NVMe ports
Two 25GbE
Two SFP28, Mellanox ConnectX-6,
PCIe 4.0 x16 (Internal), four NVMe ports
Storage Protocols
The storage drive bays can support SATA, SAS, and NVMe in any combination. To enable
SAS and NVMe, additional hardware is required. Once the supporting hardware is installed for
a selection of bays, drives of any storage protocol type can be inserted.
SATA –The default configuration supports up to twelve SATA drives.
SAS –An add-on controller card and cables can support up to twelve SAS drives.
NVMe –The motherboard supports up to ten NVMe drives. The Ultra Riser card supports
two more. Additional cables are required.
Power Supply Options
Watts
80Plus Level
1200
Titanium

Chapter 1: Introduction
6
1.2 System Features
The following views of the system display the main features. Refer toAppendix B for additional
specifications.
Front View
R360 F5 SFF
Figure 1-1. Front View
Logical Storage Drive Numbers
Item
Description
0-5
2.5" hot-swap SATA/SAS3*/NVMe* drive bays (NVMe from CPU1)
6-11
2.5" hot-swap SATA/SAS3*/NVMe* drive bays (NVMe from CPU2)
* SAS3 and NVMe support requires with additional parts
R360 F5 LFF
USB 3.0 Port
Service/Asset Tag
with BMC Password
Control Panel
1
0
3
2
5
4
7
6
9
8
11
10

Chapter 1: Introduction
7
Drive Carrier Indicators
Each drive carrier has two LED indicators: an activity indicator and a status indicator. For RAID
configurations using a controller, the meaning of the status indicator is described in the table
below. For OS RAID or non-RAID configurations, some LED indications are not supported,
such as hot spare. For VROC configurations, refer to the VROC section in this manual.
Drive Carrier LED Indicators
Color
Blinking Pattern
Behavior for Device
Activity
LED
Blue
Solid On
Idle SAS or NVMe drive installed
Blue
Blinking
I/O activity
Off
Idle SATA or no drive
Status
LED
Red
Solid On
Failure of drive with RSTe support
Red
Blinking at 1 Hz
Rebuild drive with RSTe support
Red
Blinking at 4 Hz
Identify drive with RSTe support
Red
Blinking with two blinks
and one stop at 1 Hz
Hot spare for drive with RSTe support
Red
On for five seconds,
then off
Power on for drive with RSTe support
Amber
Blinking
Safe to remove NVMe drive
Green
Solid on
Ejecting an NVMe drive

Chapter 1: Introduction
8
Control Panel
R360 F5 SFF
Information LED HDD
UID Button/LED
BMC Reset NIC LED Power LED Power
Figure 1-2. Control Panel
Control Panel Features
Feature
Description
UID button/LED
BMC reset
The unit identification (UID) button turns on or off the blue light function of the Information
LED and a blue LED on the rear of the chassis.
This button can also be used to reset the BMC.
Information LED
Alerts operator to several states, as noted in the table below.
NIC LED
Indicates network activity on LANs when flashing.
HDD
Indicates activity on the storage drives when flashing.
Power LED
Steady on –Power on
Blinking at 4Hz –Checking BIOS/BMC integrity
Blinking at 4Hz and "i" LED is blue –BIOS firmware updating
Two blinks at 4Hz, one pause 2hz and "i" LED blue –BMC firmware updating
Blinking at 1Hz and "i" LED red –Fault detected
Power button
The main power switch applies or removes primary power from the power supply to the server
but maintains standby power. Hold for four seconds to force a shut-down.
Information LED
Color, Status
Description
Red, solid
An overheat condition has occurred.
Red, blinking at 1Hz
Fan failure, check for an inoperative fan.
Red, blinking at 0.25Hz
Power failure, check for a non-operational power
supply.

Chapter 1: Introduction
9
Red, solid, with Power LED blinking
green
Fault detected
Blue and red, blinking at 10 Hz
Recovery mode
Blue, solid
UID has been activated locally to locate the
server in a rack environment.
Blue, blinking at 1Hz
UID has been activated using the BMC to locate
the server in a rack environment.
Blue, blinking at 2Hz
BMC is resetting
Blue, blinking at 4Hz
BMC is setting factory defaults
Blue, blinking at 10Hz with Power LED
blinking green
BMC/BIOS firmware is updating

Chapter 1: Introduction
10
Rear View
Figure 1-3. System: Rear View
System Features: Rear
Feature
Description
Power Supplies
Two redundant power supply modules, PWS1 on the left, PWS2 on the right
0
LAN ports; specifications depend on your Ultra riser card option
1 to 4
Expansion card slots; see below for details
USB
Two USB 3.0 ports
BMC LAN
BMC LAN port; for indicator details, see BMC LAN LEDs
UID Button/
BMC Reset
UID button and BMC reset button (similar to Control Panel button on previous page)
COM
Serial port
VGA
Video port
Expansion Slots and Riser Cards
This system include riser cards that provide PCIe capabilities—one Ultra Riser card (described
in Section 1.1), one right-facing WIO riser card, and one left-facing WIO riser card.
Riser Card
Slot
Description (all PCIe 4.0)
Ultra Riser card
1
x16 Internal LP (CPU2)
Right-facing
2
x16 low profile (CPU1)
Left-facing
3
4
x16 FH, 10.5”L (CPU2)
x16 FH, 10.5”L (CPU1)
One riser card slot may be used for a controller card that supports SAS.
1
2
0
3
4
USB Ports
Power Supplies
VGA
UID Button/BMC Reset
BMC LAN COM

Chapter 1: Introduction
11
LAN Speed Indicator
LAN ports are provided by the Ultra Riser cards. One LED indicates the network speed.
LAN LED (Speed Indicator)
Color
10GbE
25GbE
Green
10 Gb/s
25 Gb/s
Amber
1 Gb/s
10 Gb/s
Power Supply Indicator
LEDs on the power supplies indicate the status of the module.
Power Supply Indicator
LED Color and State
Power Supply Condition
Solid Green
Indicates that the power supply is on
Blinking Green
Indicates that the power supply is plugged in and turned off by the system.
Blinking Amber
Indicates that the power supply has a warning condition and continues to operate.
Solid Amber
Indicates that the power supply is plugged in, and is in an abnormal state. The
system might need service. Please contact Altos technical support.
Off
No AC power to modules

Chapter 1: Introduction
12
Top View
Power Supply Modules
SATADOM Ports
Dual Processors
DIMM Slots
System Fans
Figure 1-4. System: Top View
System Features: Top
Feature
Description
Power Supply
Dual redundant modules; see options on a previous page
SATADOM ports
Two Disk-on-Module ports allows for flash cards to be mounted directly on the
Motherboard
DIMM slots
32 memory slots
Processors
Dual Intel Xeon Scalable Processors with heatsinks, SNK-P0077P
System fans
Eight 4-cm dual counter-rotating PWM fans, FAN-0201L4

Chapter 1: Introduction
13
1.3 System Architecture
This section shows the locations of the system electrical components, and a block diagram
of the overall system.
Main Components
Riser Card,
Left-facing
Ultra Riser Card;
(options)
Motherboard
X12DPU-6
Storage Backplane
BPN-NVMe4-119A-S12
(manual)
Figure 1-5. Main Component Locations
Riser Card,
Right-facing

Chapter 1: Introduction
14
System Block Diagram
The block diagram below shows the connections and relationships between the subsystems
and major components of the overall system.
Figure 1-6. System Block Diagram
BMC LAN

Chapter 1: Introduction
15
BP PWR3
JGPW1
JGPW2
SXB3B
CPU2_PORT0A
Front VGA
GPU PWR4
JIPMB1
JCOM1
GPU PWR3
I-SATA4~7
NVME5
SXB1_1
SXB1_2 CPU1_PORT1A
CPU2_PORT2A
1.4 Motherboard Layout
Below is a layout of the X12DPU-6 motherboard with jumper, connector and LED locations
shown. See the table on the following page for descriptions. For detailed descriptions, pinout
information and jumper settings, refer to Chapter 4 or the Motherboard Manual.
LED1 (Rear UID LED)
JUIDB (UID/BMC Reset SW)
LEDM1 (BMC HB LED)
VGA
SXB2
JVGA1
SXB2
SXB1_A
SXB1A
VGA
JUIDB
LED1
JUID
BMC
COM1
BMC
COM1
JIPMB1
BMC_LAN
BMC_LAN USB0/1(3.0)
USB0/1(3.0)
JUID (UID Jumper)
JLAN1 JNCSI
Front VGA (Optional)
BIOS1
BIOSFW1
SXB1_B
BIOSFW2
SXB1B
BMC FW1
BIOS1
JVGA2 JRK1
VROC
VROC (JRK1)
JNVI2C4
SXB3_1
JNVI2C4
BIOS2
PWR-On LED (LE2)
SXB1_C
I-SATA4-7
LE2
PWR_On LE D
BMC FW2
BIOS2
PCH
SXB3_2
BATTERY
JSD2
SXB3B
Battery
SXB3C
JBT1
I-SATA0-3
S-SATA0-3
S-SATA4
S-SATA5
SXB1C
JS1 JS2 JS3
SATA4 SATA5
JSD2
JSD1
BT1
JBT1 JSD1
PW Supply2 PSU2
PSU2
PSU1
PW Supply1
PSU1 JGPW2
T-SGPIO3
P1-DIMMG2
P1-DIMMG1
FP1
P1-DIMMH2
P1-DIMMH1
P1-DIMME2
P1-DIMME1
P1-DIMMF2
P1-DIMMF1
JTPM1
USB3/4 (3.0)
P1-NVMe0/1
GPU3PW3
GPU3PW4
CPU1
BIOS
LICENS
E
JGPW3 JGPW4
X12DPU-6
REV:1.02
SXB3_3
GPU PWR2
CPU2
GPU PWR1
T-SGPIO3
JPW4 JPW3 JPW4
JPW3
JGPW1
P2-DIMMF1
P2-DIMMF2
P2-DIMME1
P2-DIMME2
P2-DIMMB1
P2-DIMMB2
P2-DIMMA1
P2-DIMMA2
P2-DIMMD1
P2-DIMMD2
P2-DIMMC1
P2-DIMMC2
JF1
JF1
JF2
JL1
JL1
P1_NVMe6 P1_NVMe5 JPW2 JPW1
JNVI2C3 JNVI2C3 JF3 JF4 FAN5
JF3
JF4 FAN8
P1-NVMe4 FAN7
FAN6 P1-NVMe6 P2-NVME8 P2-NVME7 FAN3 FAN2FAN1 JPW2
JPW1
P1-NVMe3
P1-DIMMC2
P1-DIMMC1
P1-DIMMD2
P1-NVMe5
P1-DIMMA2
P1-DIMMA1
P1-DIMMB2
FAN4
P2-DIMMH1
P2-DIMMH2
P2-DIMMG1
P2-NVME10
P2-NVME9
P1-DIMMD1 P1-DIMMB1 P2-DIMMG2
Figure 1-7. Motherboard Layout
BP PWR1
BP PWR4
BP PWR2 P2_NVMe9
NVME9
NVME10
P2_NVMe10
FAN1 FAN2
P2-DIMMB1 P2-DIMMB2
P2-DIMMA1
P2-DIMMA2 P2-DIMMD1 P2-DIMMD2 P2-DIMMC1 P2-DIMMC2
FAN3
P2-DIMMG2 P2-DIMMG1 P2-DIMMH2 P2-DIMMH1 P2-DIMME2 P2-DIMME1 P2-DIMMF2 P2-DIMMF1
FAN4
P2_NVMe7
NVME7
NVME8
P2_NVMe8
CPU2_PORT1C
CPU1_PORT2A
CPU2_PORT1A
SXB3A
SXB3C CPU2_PORT0C
JNCSI1
S-SATA5
S-SATA4
LEDM1
I-SATA0~3
P1-DIMMB1 P1-DIMMB2
P1-DIMMA1
NVME6
FAN5
USB3/4(3.0)
P1-DIMMA2
P1-DIMMD1
S-SATA0~3
P1-DIMMD2
JUSB3
CPU1_PORT0A CPU1_PORT1C
P1-DIMMC1
P1-DIMMC2
CPU2_PORT2C
SXB1_3
P1_NVMe1
FAN6
FAN7
P1-DIMMG2 P1-DIMMG1
NVME1
BMC CODE
BAR CODE TPM
JTPM1
P1-DIMMH2
P1-DIMMH1 P1-DIMME2 P1-DIMME1 P1-DIMMF2 P1-DIMMF1
P1_NVMe3
NVME3
NVME4
P1_NVMe4
FAN8
JF2
FP1
FP CTRL
FFC Connector
SXB3A

Chapter 1: Introduction
16
Quick Reference
Jumper
Description
Default Setting
JBT1
Clear CMOS
Open (Normal)
JUID
UID Enable/System Reset Jumper
Pins 1-2 (UID Enabled)
Connector
Description
BT1
Onboard CMOS battery
COM1
Backplane COM port
FAN1 ~ FAN8
CPU/System fan headers
FP1
FFC (Flat Flexible Cable) connector
BMC_LAN
Dedicated BMC LAN port (JLAN1)
I-SATA 0~3, I-SATA 4~7
Intel® PCH SATA 3.0 ports
S-SATA 0~3, S-SATA 4/S-SATA 5
S-SATA 0~3, S-SATA 4/S-SATA 5 supported by Intel PCH (S-SATA 4/5: Powered SATA
connectors (with power pins built-in to be used of SuperDOM devices)
JF1
Front Control Panel header
JF3
Front Panel sensor
JF4
BMC I2C Signal for 24 NVMe BPN (Backplane)
JIPMB1
4-pin BMC external I2C header (for an BMC card)
JL1
Chassis intrusion header
JNCSI
NC-SI (Network Controller Sideband Interface) connector
JNVI2C3/JNVI2C4
NVMe I2C headers (JNVI2C3: for VPP#1/JNVI2C4: for VPP#2)
JGPW1/JGPW2/JGPW3/JGPW4
GPU 8-pin power connectors (power connectors for GPU use)
JPW1/JPW2/JPW3/JPW4
Backplane 8-pin power connectors (for backplane devices)
JUIDB
UID LED/BMC Reset switch
JVGA2
Front accessible VGA connection header (optional)
PSU1/PSU2
Power Supply Unit #1/Power Supply Unit #2 for system use
JSD1/JSD2
SATA DOM (Disk_On_Module) power connectors
JTPM1
Trusted Platform Module connector
P1-NVMe1/3/4/5/6
PCIe 4.0 x8 NVME ports
P2-NVMe7/8/9/10
PCIe 4.0 x8 NVME ports
SXB1A/SXB1B/SXB1C
PCIe 4.0 (x16 + x16) Left riser card slot supported by CPU1/CPU2
SXB2
PCIe 4.0 x16 slot supported by CPU1
SXB3A/SXB3B/SXB3C
PCIe 4.0 (x16 + x16 + x8) Ultra riser slot supported by CPU2
T-SGPIO3
Serial_Link General-Purpose I/O connection header (for S-SATA 4/5 SuperDOM support)
USB0/1 (3.0)
Rear I/O USB 3.0 ports
USB3/4 (3.0)
Front accessible USB header with two USB 3.0 connections
VGA
Backplane VGA port
VROC (JRK1)
Intel VROC Key Header for NVMe RAID
LED
Description
State: Status
JF2
LAN LED
Ethernet LAN LED Indicators (Blink: Active)
LE2
Power_on LED
System Power LED: (On: System Power on)

Chapter 1: Introduction
17
x8
Port A
Port B
64GB/s 64GB/s 64GB/s
LED
Description
State: Status
LEDM1
BMC Heartbeat LED
Blinking Green: BMC Normal
LED1
Rear UID (Unit Identifier) LED
Solid Blue: Unit Identified
Motherboard Block Diagram
X12DPU-6
WIO
Ultra IO
x8
NIC
x16
32MB BIOS
SPI FLASH
TPM
Header
JS2
MUX
SPI
PE[5]
PCH
LPC/eSPI
Port A
0~7
x8
Port B
0~7
Port B
x16
x16
x8 (0-7)
x8 (8-15)
I-SATA0~3
JS3
I-SATA4~7
SATA Gen3 [0..3]
SATA Gen3 [4..7]
sSATA Gen3 [0..3]
sSATA Gen3 [4, 5]
USB3.0 [0,1, 3,4]
x4
DMI
port 0,1
REAR
port 3,4
FRONT
x8
x8 3bit
5bit
8~15
Port C
0~10
Port C
11~15
10.4G/11.2G T/s
Polarity Inversion
P1F P1E P1H
P1G
x4
PE2 PE1 PE0
UPI3UPI2 UPI0
10.4G/11.2G T/s
Polarity Inversion
P1C P1D P1A
P1B P2F P2E P2H P2G P2C P2D
P2A
P2B
#2 #2
#3 #3
#2 #2
#3 #3
DMI
CPU 1
Socket ID00
VCCP1
#1 #1 #1
#2 #2
#1 #1 #1
#2 #2 #2
#1 #1
#2 #2
#1 #1
#2 #2
x8
NVMe On Board
OCuLink OCuLink
PE3
VCCP1 12v
VR13HC
UPI1
NVMe On Board
OCuLink OCuLink
10.4G/11.2G T/s
VCCP2 12v
VR13HC
#2
Port C
NCSI Port C
Port B
S-SATA5 S-SATA4
Upper
Lower
Upper
Lower
DDR4 DIMM
DDR4 DIMM
DDR4 DIMM
DDR4 DIMM
8GB/s
64GB/s
UPI
DDR4 DIMM
DDR4 DIMM
DDR4 DIMM
DDR4 DIMM
DDR4 DIMM
DDR4 DIMM
DDR4 DIMM
DDR4 DIMM
64GB/s
64GB/s
64GB/s
64GB/s
DDR4 DIMM
DDR4 DIMM
DDR4 DIMM
DDR4 DIMM
DDR4
VGA
PHY
RTL8211F
COM1

Chapter 1: Introduction
18
OCuLink
x4
x4 4x4
7+1 PHASE
x4 x4
4x4
7+1 PHASE
x8
OCuLink OCuLink OCuLink OCuLink
x4 x4 x4 x4
Figure 1-8. Motherboard Block Diagram

Chapter 2: Server Installation
19
Chapter 2
Server Installation
2.1 Overview
This chapter provides advice and instructions for mounting your system in a server rack.
If your system is not already fully integrated with processors, system memory etc., refer to
Chapter 3 for details on installing those specific components.
Caution: Electrostatic Discharge (ESD) can damage electronic components. To prevent such
damage to PCBs (printed circuit boards), it is important to use a grounded wrist strap, handle
all PCBs by their edges and keep them in anti-static bags when not in use.
2.2 Unpacking the System
Inspect the box in which the system was shipped, and note if it was damaged. If any equipment
appears damaged, file a claim with the carrier.
Decide on a suitable location for the rack unit that will hold the server. 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. It will also require a grounded AC power outlet nearby.
Be sure to read the precautions and considerations noted in Appendix A.
2.3 Preparing for Setup
The box in which the system was shipped should include the rackmount hardware needed to
install it into the rack. Please read this section in its entirety before you begin the installation.
Choosing a Setup Location
•The system should be situated in a clean, dust-free area that is well ventilated. Avoid areas
where heat, electrical noise and electromagnetic fields are generated.
•Leave enough clearance in front of the rack so that you can open the front door completely
(~25 inches) and approximately 30 inches of clearance in the back of the rack to allow
sufficient space for airflow and access when servicing.
•This product should be installed only in a Restricted Access Location (dedicated equipment
rooms, service closets, etc.).

Chapter 2: Server Installation
20
•This product is not suitable for use with visual display workplace devices according to §2
of the German Ordinance for Work with Visual Display Units.
Rack Precautions
•Ensure that the leveling jacks on the bottom of the rack are extended to the floor so that
the full weight of the rack rests on them.
•In single rack installations, stabilizers should be attached to the rack. In multiple rack in-
stallations, the racks should be coupled together.
•Always make sure the rack is stable before extending a server or other component from
the rack.
•You should extend only one server or 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 Appendix A.
•Determine the placement of each component in the rack before you install the rails.
•Install the heaviest server components at the bottom of the rack first and then work your
way up.
•Use a regulating uninterruptible power supply (UPS) to protect the server from power
surges and voltage spikes and to keep your system operating in case of a power failure.
•Allow any drives and power supply modules to cool before touching them.
•When not servicing, always keep the front door of the rack and all covers/panels on the
servers closed to maintain proper cooling.
Rack Mounting Considerations
Ambient Operating Temperature
If installed in a closed or multi-unit rack assembly, the ambient operating temperature of
the rack environment may be greater than the room's ambient temperature. Therefore,
consideration should be given to installing the equipment in an environment compatible with
the manufacturer’s maximum rated ambient temperature (TMRA).