Supermicro SuperServer 5039MS-H12NR User Manual Download Page 1

Page: 1 / 111

USER’S MANUAL

Revision 1.0

SuperServer

5039MS-H12NR

Summary of Contents for SuperServer 5039MS-H12NR

Page 1: ...USER S MANUAL Revision 1 0 SuperServer 5039MS H12NR...

Page 2: ...ent 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...

Page 3: ...and the user s manual for your server Supermicro product manuals http www supermicro com support manuals Product drivers and utilities https www supermicro com wftp Product safety info http www super...

Page 4: ...16 Choosing a Setup Location 16 Rack Precautions 16 Server Precautions 17 Rack Mounting Considerations 17 Ambient Operating Temperature 17 Airflow 17 Mechanical Loading 17 Circuit Overloading 17 Reli...

Page 5: ...g Nodes and Fans 36 Replacing Fans 37 Power Supply 38 Chapter 4 Motherboard Connections 4 1 Node Front Panel Controls 39 4 2 Headers and Connectors 40 4 3 Ports 42 4 4 Jumpers 42 4 5 LED Indicators 45...

Page 6: ...ver 5039MS H12NR User s Manual 6 8 Save Exit 82 Appendix A BIOS Error Codes Appendix B Standardized Warning Statements for AC Systems Appendix C UEFI BIOS Recovery Instructions Appendix D System Speci...

Page 7: ...Het Sterrenbeeld 28 5215 ML s Hertogenbosch The Netherlands Tel 31 0 73 6400390 Fax 31 0 73 6416525 Email sales supermicro nl General Information support supermicro nl Technical Support rma supermicr...

Page 8: ...he motherboards and chassis several included parts are listed below 1 2 Unpacking the System Inspect the box in which the server was shipped and note if it was damaged If any equipment appears damaged...

Page 9: ...ket Type H4 LGA1151 Memory Four 288 pin VLP UDIMM slots that can support up to 64 GB of 72 bit DDR4 unbuffered ECC 2400 2133 1866 1600 MHz SDRAM Chipset Intel PCH C236 chipset Expansion Slots One Micr...

Page 10: ...he button will alternately power on or remove power from the node See the table below for the LED indications Power Button LED LED6 LED5 LED1 Power Button LEDs LED Description Status Power Button LED...

Page 11: ...s Cascade Connect one to a managment device and the other to another server Redundancy For redundant IPMI managment connect each port to a different subnetwork that is each to a different switch Six N...

Page 12: ...the chassis Exhaust Fans 4 Power Plugs 2 Node Features Item Feature Description 1 UID button Unit identifier button and LED 2 Power button Power button and LED 3 KVM port Connect the adapter to this...

Page 13: ...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 Notes indicates the lo...

Page 14: ...SATA 3 0 Connectors J21 CPU Micro LP PCI E 3 0 x8 Slot JKVM1 VGA KVM VGA Monitor UART Connector for Remote Console Redirection or Remote Network Interface JSD1 SATA Disk On Module DOM Power Connector...

Page 15: ...M Port 19 USB3 5 2 X USB 2 0 MLP USB2 0 480Mbps USB2 5 Port 9 Port 14 1000BASE X 1Gb s AOM PDB MC12S 1000BASE X 1Gb s PCIe3 0 x4 8 0Gb s PEX8725 x4 x4 x4 x4 x4 x4 PCIe3 0 x4 8GT s 8GT s PCIe3 0 x4 NVM...

Page 16: ...or 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 Rest...

Page 17: ...it 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...

Page 18: ...s stable The following guidelines are provided to ensure your safety This unit should be mounted at the bottom of the rack if it is the only unit in the rack When mounting this unit in a partially fil...

Page 19: ...ons of the screws for the rails 3 In each rail set the two sections are screwed together to keep them immobile during shipping Release these screws just enough to allow the rail sections to slide apar...

Page 20: ...each handle Note These handles need only be installed when mounting the system into a short rack When mounting into a deep rack they are unnecessary and regular screws should be used instead of thumb...

Page 21: ...21 Chapter 2 Installation in a Rack Figure 2 3 Installing the Server onto the Rails Note Figures are for illustrative purposes only Always install servers to the bottom of a rack first...

Page 22: ...e follow the procedures given in each section 3 1 Removing Power Use the following procedure to ensure that power has been removed from the system This step is necessary when removing or installing no...

Page 23: ...Cover 1 Remove the power from the system as described in Section 3 1 2 Remove the screws securing the cover to the chassis four on top and two on each side See Figure 3 1 3 Lift the cover from the ch...

Page 24: ...alling a Node Release Tab Handle Removing Nodes from the System 1 Power down the individual node by pressing the node s power button 2 Press and hold down the release tab on the front of the node 3 Us...

Page 25: ...nent Installation Connecting to a Node USB COM and serial port capabilties can be added to any node through the KVM port on the front Plug in the adapter dongle to use these ports Figure 3 3 Adapter t...

Page 26: ...ed make sure that the plastic protective socket cover is in place and none of the socket pins are bent otherwise contact your retailer immediately Refer to the Supermicro website for updates on CPU su...

Page 27: ...ket Do not drop the processor on the socket move or rub the processor against the socket or against any socket pins as this may damage the components Make sure the processor is properly aligned and se...

Page 28: ...top of the CPU so that the four mounting holes are aligned with those on the heatsink retention mechanism 2 Screw in two diagonal screws i e the 1 and the 2 screws until they are just snug Do not full...

Page 29: ...on Memory Support The X11SSE F supports up to 64GB of ECC DDR4 2133 1866 1600 1333 unbuffered UDIMM memory in four memory slots Populating two adjacent slots at a time with memory modules of the same...

Page 30: ...M Module Population Sequence When installing memory modules the DIMM slots must be populated in the following order DIMMB2 DIMMA2 then DIMMB1 DIMMA1 The blue slots must be populated first Note Be sure...

Page 31: ...on both ends of the module press it straight down into the slot until the module snaps into place 4 Press the release tabs to the locked position to secure the DIMM module into the slot 5 Repeat the...

Page 32: ...supported for the 5039MS H12NR system 4 NVMe U 2 connectors AOM BPN MC12S4 P 1 MicroLP singleport AOM C25G M1SM P The MicroLP expansion module is inserted into a riser card and secured to two brackets...

Page 33: ...Battery 1 Remove power from the system as described in section 3 1 and remove the node from the chassis 2 Push aside the small clamp that covers the edge of the battery When the battery is released l...

Page 34: ...Chassis Components 2280 SATA M 2 The 2280 SATA M 2 should be installed on AOM BPN MC12S4 before installing the NVMe drives A small bracket is added to secure the AOM to the motherboard tray with thre...

Page 35: ...ives 1 Power down the node and remove it from the chassis following the procedure in Section 3 2 2 Secure four standoffs beneath the NVMe drives and insert drives to AOM BPN MC12S4 3 Secure the bracke...

Page 36: ...default there is one fan zone for the entire system This may be changed to two fan zones by opening jumper JP37 on the BPN SAS 939HS The figure below shows the two fan zone configuration Corresponding...

Page 37: ...no tools required and no need to remove any other parts inside the chassis Replacing a Fan 1 Visually inspect the fans to see which one has failed 2 Push both release tabs on the fan inward 3 Remove...

Page 38: ...amber light will be illuminated on the power supply when the power is off An illuminated green light indicates that the power supply is operating Changing the Power Supply 1 With the system running un...

Page 39: ...escribed in Chapter 1 Unit Identifier Switch UID LED Indicator A Unit Identifier UID switch and an LED Indicator are located on the motherboard The UID switch is located at JUIDB1 which is next to the...

Page 40: ...nnection Additionally there is one SATA 3 0 receptacle connector at I SATA6 for SATA DOM connection Note The system can only support SATA M 2 connections not PCI E 3 0 Note I SATA6 is a Supermicro Sup...

Page 41: ...form Module Header Pin Definitions Pin Definition Pin Definition 1 LCLK 2 GND 3 LFRAME 4 KEY 5 LRESET 6 5V 7 LAD3 8 LAD2 9 3 3V 10 LAD1 11 LAD0 12 GND 13 SMB_CLK 14 SMB_DAT 15 3V Stdby 16 SERIRQ 17 GN...

Page 42: ...ernet ports are provided by means of an add on module mounted in the Micro LP expansion slot 4 4 Jumpers Explanation of Jumpers To modify the operation of the motherboard jumpers are used to choose be...

Page 43: ...Clearing CMOS will also clear all passwords Do not use the PW_ON connector to clear CMOS JBT1 contact pads VGA Enable Disable JPG1 allows you to enable or disable the VGA port using the onboard graphi...

Page 44: ...tem setting modifications Refer to the table below for jumper settings The default setting is Normal Manufacturer Mode Jumper Settings Jumper Setting Definition Pins 1 2 Normal Pins 2 3 Manufacturer M...

Page 45: ...re information SFP28 SFP1 Link Activity LED Indicator One LAN Link Activity LED indicator is located at D2 on the add on card See the table below for the LED states and location LAN Port Link Activity...

Page 46: ...Configuration User Guides posted on our website at www supermicro com support manuals Installing the OS 1 Create a method to access the MS Windows installation ISO file That might be a DVD perhaps usi...

Page 47: ...click on Load driver link at the bottom left corner Figure 5 2 Load Driver Link For non RAID choose the SATA sSATA AHCI driver indicated then choose the storage drive on which you want to install it...

Page 48: ...preferred Another option is to go to the Supermicro website at http www supermicro com products Find the product page for your motherboard and Download the Latest Drivers and Utilities Insert the flas...

Page 49: ...Protocol SNMP SuperDoctor 5 comes in local and remote management versions and can be used with Nagios to maximize your system monitoring needs With SuperDoctor 5 Management Server SSM Server you can r...

Page 50: ...Figure 1 2 Multi node information and the system information can be displayed at the same time In IPMI Web GUI view information can be displayed by clicking the Multi Node tab under the Server Health...

Page 51: ...F1 F2 etc Each main BIOS menu option is described in this manual The Main BIOS screen has two main frames The left frame displays all the options that can be configured Grayed out options cannot be co...

Page 52: ...system System Time System Date You can edit this field to change the system time and date Highlight System Time or System Date using the Arrow keys Enter new values through the keyboard Press the Tab...

Page 53: ...eys to select Boot Setup and press Enter to access the submenu items Boot Feature Quiet Boot Use this feature to select the screen display between the POST messages and the OEM logo upon bootup Select...

Page 54: ...ction as bootable devices at bootup The options are Immediate and Postponed Re try Boot If this item is enabled the BIOS will automatically reboot the system from a specified boot device after its ini...

Page 55: ...st State to allow the system to resume its last power state before a power loss The options are Power On Stay Off and Last State CPU Configuration The following CPU information will display CPU Signat...

Page 56: ...e CPU If set to Enabled the hardware prefetcher will prefetch streams of data and instructions from the main memory to the L2 cache to improve CPU performance The options are Disabled and Enabled Adja...

Page 57: ...he CPU core in relation to the bus speed when one CPU core is active Press or on your keyboard to change the value Enter 0 to use the manufacture default setting 2 Core Ratio Limit Override This incre...

Page 58: ...this feature to enable or disable the C State Pre Wake The options are Disabled and Enabled Package C State Limit Use this feature to set the Package C State limit The options are C0 C1 C2 C3 C6 C7 C...

Page 59: ...CH mode Each mode has different values which can be entered manually The options are No Change in Owner EPOCHs Change to New Random Owner EPOCHs and Manual User Defined Owner EPOCHs PRMRR Size The BIO...

Page 60: ...n a small form factor SFF computer The options are Enabled and Disabled PM Support Use this item to enable the IGFX Power Management function The options are Enabled and Disabled PAVP Enable Use this...

Page 61: ...G0 Slot Power Limit Value Use this feature to set the upper limit on the power supplied by the PCIE slot Press or on your keyboard to change this value The default setting is 75 PEG0 Slot Power Limit...

Page 62: ...B 3 GB 3 25 GB and 3 5 GB Energy Performance Gain Use this feature to enable or disable the energy performance gain The options are Disabled and Enabled Memory Scrambler Select Enabled to enable memor...

Page 63: ...Disabled SATA Mode Selection Use this item to select the mode for the installed SATA drives The options are AHCI and RAID SATA Frozen Use this item to enable the HDD Security Frozen Mode The options a...

Page 64: ...t PCI decoding Select Enabled to decode a PCI device that supports 64 bit in the space above 4G Address The options are Enabled and Disabled SR IOV Support Use this feature to enable or disable Single...

Page 65: ...ial port The options are Enabled and Disabled Logical Device Settings This item displays the status of a serial part specified by the user Serial Port 1 Change Settings This feature specifies the base...

Page 66: ...8h IRQ 3 4 5 6 7 9 10 11 12 Intel Server Platform Services The following Intel Server Platform Services information will display ME BIOS Interface Version SPS Version ME FW Status Value ME FW State ME...

Page 67: ...Bits and 8 Bits COM1 Parity A parity bit can be sent along with regular data bits to detect data transmission errors Select Even if the parity bit is set to 0 and the number of 1 s in data bits is eve...

Page 68: ...set to Always Enable legacy console redirection remains enabled when booting the OS The options are Always Enable and Bootloader SOL Console Redirection Select Enabled to use the SOL port for Console...

Page 69: ...f slower devices are used The options are 1 and 2 SOL Flow Control Use this feature to set the flow control for Console Redirection to prevent data loss caused by buffer overflow Send a Stop signal to...

Page 70: ...ency Management Services EMS to communicate with a remote host server The options are COM1 and SOL COM2 Terminal Type Use this feature to select the target terminal emulation type for Console Redirect...

Page 71: ...Trusted Computing Configuration Security Device Support If this feature and the TPM jumper on the motherboard are both set to Enabled onboard security devices will be enabled for TPM Trusted Platform...

Page 72: ...may not be supported by all operating systems The options are Sha 1 and Sha256 Device Select Use this feature to select the TPM version TPM 1 2 will restrict support to TPM 1 2 devices TPM 2 0 will re...

Page 73: ...to enable or disable all features of the SMBIOS Event Logging during system boot The options are Enabled and Disabled Erasing Settings Erase Event Log Select No for data stored in the event log to not...

Page 74: ...bled MECI The Multiple Event Count Increment MECI counter counts the number of occurences that a duplicate event must happen before the MECI counter is incremented This is a numeric value The default...

Page 75: ...re installed in your system System Event Log Enabling Disabling Options SEL Components Select Enabled for all system event logging to start at bootup The options are Enabled and Disabled Erasing Setti...

Page 76: ...s the user to select the source of the IP address for this computer If Static is selected you will need to know the IP address of this computer and enter it to the system manually in the field If DHCP...

Page 77: ...tions are Disable and Enable 6 6 Security This menu allows the user to configure the following security settings for the system Password Check Select Setup for the system to check for a password at Se...

Page 78: ...ed Key Management This submenu allows the user to configure the following Key Management settings Provision Factory Default Keys Select Enabled to install the default Secure Boot keys set by the manuf...

Page 79: ...om the manufacturer s defaults to the existing DB Select No to load the DB from a file The options are Yes and No Forbiden Signatures Set New Key Select Yes to load the DBX from the manufacturer s def...

Page 80: ...orities This option prioritizes the order of bootable devices that the system boots from Press Enter on each entry from top to bottom to select devices If the item above is set to Legacy UEFI Dual the...

Page 81: ...from which the system will boot during startup The settings are any pre defined boot device Hard Disk Drive BBS Priorities This feature allows the user to specify which hard disk drive devices are bo...

Page 82: ...ss Enter Save Changes and Reset When you have completed the system configuration changes select this option to leave the BIOS setup utility and reboot the computer so the new system configuration para...

Page 83: ...lect Save as User Defaults from the Exit menu and press Enter This enables the user to save any changes to the BIOS setup for future use Restore User Defaults To set this feature select Restore User D...

Page 84: ...boot up procedure If a fatal error occurs you should consult with your system manufacturer for possible repairs These fatal errors are usually communicated through a series of audible beeps The numbe...

Page 85: ...com support manuals AMI BIOS POST Codes User s Guide When BIOS performs the Power On Self Test it writes checkpoint codes to I O port 0080h If the computer cannot complete the boot process a diagnosti...

Page 86: ...or assistance Only certified technicians should attempt to install or configure components Read this appendix in its entirety before installing or configuring components in the Supermicro chassis Thes...

Page 87: ...o considere los riesgos de la corriente el ctrica y familiar cese con los procedimientos est ndar de prevenci n de accidentes Al final de cada advertencia encontrar el n mero que le ayudar a encontrar...

Page 88: ...ken dient u zich bewust te zijn van de bij een elektrische installatie betrokken risico s en dient u op de hoogte te zijn van de standaard procedures om ongelukken te voorkomen Gebruik de nummers aan...

Page 89: ...mentaci n Attention Avant de brancher le syst me sur la source d alimentation consulter les directives d installation Circuit Breaker Waarschuwing Raadpleeg de installatie instructies voordat u het sy...

Page 90: ...tes del edificio Aseg rese de que el dispositivo de protecci n no sea superior a 250 V 20 A Attention Pour ce qui est de la protection contre les courts circuits surtension ce produit d pend de l inst...

Page 91: ...e energ a y del cable el ctrico quitado de los m dulos de fuente de alimentaci n antes de tener acceso el interior del chasis para instalar o para quitar componentes de sistema Attention Le syst me do...

Page 92: ...abels aangesloten op de voeding en van de behuizing te verwijderen Equipment Installation Warning Only trained and qualified personnel should be allowed to install replace or service this equipment Wa...

Page 93: ...tention Il est vivement recommand de confier l installation le remplacement et la maintenance de ces quipements des personnels qualifi s et exp riment s Warning This unit is intended for installation...

Page 94: ...a una de estas reas mediante la utilizaci n de una herramienta especial cerradura con llave u otro medio de seguridad Attention Cet appareil doit tre install e dans des zones d acc s r serv s L acc s...

Page 95: ...mblable ou quivalent recommand e par le fabricant Jeter les piles usag es conform ment aux instructions du fabricant Advertencia Existe peligro de explosi n si la bater a se reemplaza de manera incorr...

Page 96: ...aanbevolen wordt Gebruikte batterijen dienen overeenkomstig fabrieksvoorschriften afgevoerd te worden Redundant Power Supplies Warning This unit might have more than one power supply connection All co...

Page 97: ...mloos te maken Advertencia Puede que esta unidad tenga m s de una conexi n para fuentes de alimentaci n Para cortar por completo el suministro de energ a deben desconectarse todas las conexiones Atten...

Page 98: ...dvertencia Cuando el sistema est en funcionamiento el voltaje del plano trasero es peligroso Tenga cuidado cuando lo revise Attention Lorsque le syst me est en fonctionnement des tensions lectriques c...

Page 99: ...umplir con las normas de electricidad locales y nacionales Backplane Waarschuwing Een gevaarlijke spanning of energie is aanwezig op de backplane wanneer het systeem in gebruik is Voorzichtigheid is g...

Page 100: ...ale elektriciteitsvoorschriften Warnung Die Entsorgung dieses Produkts sollte gem allen Bestimmungen und Gesetzen des Landes erfolgen Warning Ultimate disposal of this product should be handled accord...

Page 101: ...e recyclage de ce produit sont g n ralement soumis des lois et ou directives de respect de l environnement Renseignez vous aupr s de l organisme comp tent Hot Swap Fan Warning Warning Hazardous moving...

Page 102: ...estornilladores y todos los objetos lejos de las aberturas del ventilador Attention Pieces mobiles dangereuses Se tenir a l ecart des lames du ventilateur Il est possible que les ventilateurs soient t...

Page 103: ...UL oder CAS zertifizierten Kabeln mit UL CSA gekennzeichnet an Ger ten oder Produkten die nicht mit Supermicro gekennzeichnet sind AC AC UL CSA UL CSE Supermicro Supermicro UL CSA UL CSA Supermicro U...

Page 104: ...r le code pour tous les autres appareils lectriques sauf les produits d sign s par Supermicro seulement AC AC UL CSA UL CSA Supermicro UL CSA UL CSA Supermicro Advertencia Cuando instale el producto u...

Page 105: ...Aansluitmethode deze moet altijd voldoen aan de lokale voorschriften en veiligheidsnormen inclusief de juiste kabeldikte en stekker Het gebruik van niet geschikte Kabels en of Adapters kan een storin...

Page 106: ...nds off control to a computer system at bootup C 2 How to Recover the UEFI BIOS Image the Main BIOS Block A UEFI BIOS flash chip consists of a recovery BIOS block and a main BIOS block a main BIOS ima...

Page 107: ...ebsite at www supermicro com to download the BIOS image into a USB flash device and rename it Super ROM for BIOS recovery use 2 Insert the USB device that contains the new BIOS image Super ROM into yo...

Page 108: ...you want to start with BIOS recovery If you decide to proceed with BIOS recovery follow the procedures below 5 When the screen as shown above displays use the arrow key to select the item Proceed with...

Page 109: ...t Note Do not interrupt this process until BIOS flashing is completed 9 After seeing the message that the BIOS update is complete unplug the AC power cable from the power supply to clear the CMOS and...

Page 110: ...VMe PCI Expansion Slots One MicroLP x8 expansion module two NVMe PCI E 3 0 x4 slots through backplane Motherboard X11SSE F proprietary form factor Dimensions 4 6 x 11 70 11 68 x 29 72 cm Chassis SC939...

Page 111: ...24 EN 61000 4 2 EN 61000 4 3 EN 61000 4 4 EN 61000 4 5 EN 61000 4 6 EN 61000 4 8 EN 61000 4 11 Other VCCI CISPR 32 and AS NZS CISPR 32 Environmental Directive 2011 65 EU Deligated Directive EU 2015 8...

Search results

Summary of Contents for SuperServer 5039MS-H12NR

Reviews:

Related manuals for SuperServer 5039MS-H12NR

Brands by name

Popular brands

Supermicro SuperServer 5039MS-H12NR, User Manual

Search results

Summary of Contents for SuperServer 5039MS-H12NR

Reviews:

Related manuals for SuperServer 5039MS-H12NR

Brands by name

Popular brands