Intel M50CYP1UR Series User manual

Intel® Server System
M50CYP1UR Family
System Integration and Service Guide
A guide providing instructions for the insertion and
extraction of system components and available
Intel accessories and spares
Rev. 1.0
May 2021
Delivering Breakthrough Data Center System Innovation –Experience What’s Inside!

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Intel® Server System M50CYP1UR Family System Integration and Service Guide
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Document Revision History
Date
Revision
Changes
May 2021
1.0
Initial production release

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Disclaimers
Intel technologies’ features and benefits depend on system configuration and may require enabled hardware, software, or service
activation. Performance varies depending on system configuration. No computer system can be absolutely secure. Check with your
system manufacturer or retailer or learn more at intel.com.
You may not use or facilitate the use of this document in connection with any infringement or other legal analysis concerning Intel
products described herein. You agree to grant Intel a non-exclusive, royalty-free license to any patent claim thereafter drafted which
includes subject matter disclosed herein.
No license (express or implied, by estoppel or otherwise) to any intellectual property rights is granted by this document.
The products described may contain design defects or errors known as errata which may cause the product to deviate from
published specifications. Current characterized errata are available on request.
Intel disclaims all express and implied warranties, including without limitation, the implied warranties of merchantability, fitness
for a particular purpose, and non-infringement, as well as any warranty arising from course of performance, course of dealing, or
usage in trade.
This document contains information on products, services and/or processes in development. All information provided here is subject
to change without notice. Contact your Intel representative to obtain the latest Intel product specifications.
Copies of documents which have an order number and are referenced in this document may be obtained by calling 1-800-548-4725
or by visiting www.intel.com/design/literature.htm.
Intel, the Intel logo, Xeon, and Intel Optane are trademarks of Intel Corporation or its subsidiaries in the U.S. and/or other countries.
*Other names and brands may be claimed as the property of others.
© Intel Corporation

Intel® Server System M50CYP1UR Family System Integration and Service Guide
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Safety Warnings
Heed safety instructions: Before working with your server product, whether you are using this guide or any
other resource as a reference, pay close attention to the safety instructions. You must adhere to the
assembly instructions in this guide to ensure and maintain compliance with existing product certifications
and approvals. Use only the described, regulated components specified in this guide. Use of other
products/components will void the UL listing and other regulatory approvals of the product and will most
likely result in noncompliance with product regulations in the region(s) in which the product is sold.
System power on/off: The power button DOES NOT turn off the system AC power. To remove power from
the system, you must unplug the AC power cord. Make sure the AC power cord is unplugged before you
open the chassis, add, or remove any components.
Hazardous conditions, devices and cables: Hazardous electrical conditions may be present on power,
telephone, and communication cables. Turn off the server and disconnect the power cord,
telecommunications systems, networks, and modems attached to the server before opening it. Otherwise,
personal injury or equipment damage can result.
Installing or removing jumpers: A jumper is a small plastic encased conductor that slips over two jumper
pins. Some jumpers have a small tab on top that you can grip with your fingertips or with a pair of fine needle
nosed pliers. If your jumpers do not have such a tab, take care when using needle nosed pliers to remove or
install a jumper; grip the narrow sides of the jumper with the pliers, never the wide sides. Gripping the wide
sides can damage the contacts inside the jumper, causing intermittent problems with the function controlled
by that jumper. Take care to grip with, but not squeeze, the pliers or other tool you use to remove a jumper,
or you may bend or break the pins on the board.
Electrostatic Discharge (ESD)
Electrostatic discharge can damage the computer or the components within it. ESD can occur without the
user feeling a shock while working inside the system chassis or while improperly handling electronic devices
like processors, memory or other storage devices, and add-in cards.
Intel recommends the following steps be taken when performing any procedures described within this
document or while performing service to any computer system.
•Where available, all system integration and/or service should be performed at a properly equipped
ESD workstation
•Wear ESD protective gear like a grounded antistatic wrist strap, sole grounders, and/or conductive
shoes
•Wear an anti-static smock or gown to cover any clothing that may generate an electrostatic charge
•Remove all jewelry
•Disconnect all power cables and cords attached to the server before performing any integration or
service
•Touch any unpainted metal surface of the chassis before performing any integration or service
•Hold all circuit boards and other electronic components by their edges only
•After removing electronic devices from the system or from their protective packaging, place them
component side up on to a grounded anti-static surface or conductive workbench pad. Do not place
electronic devices on to the outside of any protective packaging.

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Caution: Slide / Rail mounted equipment is not to be used as a shelf or a workspace
Intel warranties that this product will perform to its published specifications. However, all computer systems
are inherently subject to unpredictable system behavior under various environmental and other conditions.
This product is not intended to be the sole source for any critical data and the user must maintain a verified
backup. Failure to do so or to comply with other user notices in the product user guide and specification
documents may result in loss of or access to data.
Weight of the system:
•Due to the weight of a system, Intel recommends carrying the system with two people supporting the
system from the sides or using a mechanical lift or a cart when moving the system from one location
to another.
•If your system has rack handles installed, do not lift or carry the system by the rack handles
•When lifting or moving a chassis, always grasp it by all four corners. Do not grasp the chassis by two
points at opposing diagonal corners, doing so may damage the internal components.
•If you can only grasp the chassis at two different points, always grasp the chassis by the sides at the
midpoint.

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Table of Contents
1. Introduction............................................................................................................................................................... 14
1.1 Reference Documents and Support Collaterals................................................................................................16
2. L6 Integrated System –Essential System Component Installation .............................................................. 18
2.1 Chassis Component Identification..........................................................................................................................19
2.2 System Cover Removal / Installation.....................................................................................................................19
2.2.1 System Cover Removal................................................................................................................................................19
2.2.2 System Cover Installation...........................................................................................................................................21
2.3 Processor Assembly and Installation.....................................................................................................................21
2.3.1 Processor Heat Sink Module (PHM) Assembly ..................................................................................................23
2.3.2 Processor Installation...................................................................................................................................................26
2.4 Memory Module Installation .....................................................................................................................................28
2.4.1 DIMM Installation ...........................................................................................................................................................28
2.5 Power Supply Module Installation..........................................................................................................................30
2.5.1 Power Supply Module Installation..........................................................................................................................30
3. System Options / Accessory Kit Installation...................................................................................................... 31
3.1 System Cover Removal / Installation.....................................................................................................................32
3.1.1 System Cover Removal................................................................................................................................................32
3.1.2 System Cover Installation...........................................................................................................................................33
3.2Riser Card Assembly / Add-in Card Assembly Installation / Removal.....................................................34
3.2.1 Riser Card Bracket Removal.......................................................................................................................................36
3.2.2 Riser Card Installation ..................................................................................................................................................36
3.2.3 PCIe* Add-in Card Installation..................................................................................................................................37
3.2.4 Add-in Card Assembly Installation –Riser Slot #1, Riser Slot #2, and
PCIe* Interposer Riser Slot..........................................................................................................................................39
3.3 2.5” SSD Drive Removal, Assembly, and Installation ......................................................................................39
3.3.1 2.5” SSD Drive Assembly for 7 mm Drives ..........................................................................................................40
3.3.2 2.5” SSD Drive Installation .........................................................................................................................................41
3.3.3 2.5” SSD Drive / Drive Blank Removal...................................................................................................................43
3.4 Ethernet Network Adapter for OCP* –Installation / Removal ...................................................................44
3.4.1 OCP* Adapter Bay Filler Removal / Installation ................................................................................................45
3.4.2 OCP* Adapter with Pull Tab Installation ..............................................................................................................46
3.4.3 OCP* Adapter with Pull Tab Removal ...................................................................................................................46
3.4.4 OCP* Adapter with Ejector Latch Installation.....................................................................................................47
3.4.5 OCP* Adapter with Ejector Latch Removal..........................................................................................................47
3.4.6 OCP* Adapter with Internal Lock Installation.....................................................................................................47
3.4.7 OCP* Adapter with Internal Lock Removal..........................................................................................................49
3.5 M.2 Storage Device Installation / Removal..........................................................................................................49
3.5.1 M.2 SSD Installation......................................................................................................................................................50

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3.5.2 M.2 SSD Removal ...........................................................................................................................................................50
3.6 Trusted Platform Module (TPM) Installation......................................................................................................51
3.7 Intel® VROC 7.5 Key Installation / Removal ........................................................................................................51
3.7.1 Intel® VROC 7.5 (VMD NVMe* RAID) Key Installation......................................................................................52
3.7.2 Intel® VROC 7.5 (VMD NVMe* RAID) Key Removal ...........................................................................................53
3.8 Intel® SAS Interposer Card and SAS RAID Module Installation / Removal ............................................53
3.8.1 Intel® SAS Interposer Card Installation.................................................................................................................54
3.8.2 Intel® SAS Interposer Card Removal ......................................................................................................................55
3.8.3 Intel® SAS RAID Module Installation ......................................................................................................................56
3.8.4 Intel® SAS RAID Module Removal............................................................................................................................57
3.9 Intel® RAID Maintenance Free Backup Unit (RMFBU) and
Mounting Bracket Installation / Removal.............................................................................................................57
3.9.1 Intel® RMFBU Mounting Bracket Installation...................................................................................................... 59
3.9.2 Intel® RMFBU Mounting Bracket Removal ...........................................................................................................59
4. System Software Updates and Configuration.................................................................................................... 60
5. System Service –System Features Overview..................................................................................................... 61
5.1 Front Drive Bay Options..............................................................................................................................................61
5.2 Back Panel, Front Control Panel, Front I/O Features......................................................................................61
5.3 Drive Bay LED Identification ......................................................................................................................................63
5.4 Server Board Features..................................................................................................................................................64
5.5 System Configuration and Recovery Jumpers ..................................................................................................66
6. System Service and FRU Replacement................................................................................................................ 67
6.1 System Cover Removal / Installation.....................................................................................................................67
6.1.1 System Cover Removal................................................................................................................................................68
6.1.2 System Cover Installation...........................................................................................................................................69
6.2 System Fan Replacement ...........................................................................................................................................69
6.3 Memory Module Replacement .................................................................................................................................71
6.4 Power Supply Replacement.......................................................................................................................................73
6.5 Processor Replacement...............................................................................................................................................74
6.5.1 Processor Heat Sink Module (PHM) and Processor Removal......................................................................74
6.5.2 PHM and Processor Installation...............................................................................................................................76
6.6 2.5” SSD Drive Removal, Assembly, and Installation ......................................................................................81
6.7 Backplane Replacement..............................................................................................................................................85
6.7.1 4 x 2.5” Backplane Replacement .............................................................................................................................85
6.7.2 12 x 2.5” Backplane Replacement...........................................................................................................................88
6.7.3 4 x 2.5” Backplane and 12 x 2.5” Backplane Cabling......................................................................................89
6.8 System Battery Replacement....................................................................................................................................91
6.9 Server Board Replacement ........................................................................................................................................92
Appendix A. Getting Help.......................................................................................................................................... 94
Appendix B. Internal Cable Routing Channels...................................................................................................... 95
Appendix C. General Memory Population Rules.................................................................................................. 96
C.1 DDR4 DIMM Population Rules ..................................................................................................................................96

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C.2Intel® Optane™ Persistent Memory 200 Series Module Rules.....................................................................97
Appendix D. System Status LED Operating States and Definition................................................................... 99
Appendix E. POST Code Diagnostic LED Decoder............................................................................................. 101
E.1 Early POST Memory Initialization MRC Diagnostic Codes......................................................................... 102
E.2 BIOS POST Progress Codes.................................................................................................................................... 104
Appendix F. POST Code Errors .............................................................................................................................. 107
F.1 POST Error Beep Codes ........................................................................................................................................... 113
F.2 Processor Initialization Error Summary............................................................................................................. 114
Appendix G. System Packaging Assembly Instructions.................................................................................... 116
Appendix H. Safety Instructions............................................................................................................................. 119
Appendix I. Glossary ............................................................................................................................................... 131

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List of Figures
Figure 1. Chassis Component Identification..................................................................................................................................19
Figure 2. System Top Cover Panel Shipping Screws.................................................................................................................. 20
Figure 3. System Cover Removal........................................................................................................................................................20
Figure 4. System Cover Installation...................................................................................................................................................21
Figure 5. 1U Heat Sinks...........................................................................................................................................................................22
Figure 6. Processor Heat Sink Module (PHM) Reference Diagram .......................................................................................22
Figure 7. Installing Processor Carrier Clip onto Processor –Part 1 .....................................................................................23
Figure 8. Installing Processor Carrier Clip onto Processor –Part 2 .....................................................................................24
Figure 9. Removing Heat Sink from its Packaging.......................................................................................................................24
Figure 10. Setting the Processor Heat Sink Anti-tilt Wires to the Outward Position ................................................... 25
Figure 11. Pin 1 Indicator of Processor Carrier Clip....................................................................................................................25
Figure 12. Socket Protective Cover Removal ................................................................................................................................26
Figure 13. PHM Alignment with Socket Assembly......................................................................................................................26
Figure 14. PHM Installation onto Server Board............................................................................................................................27
Figure 15. Tighten Heat Sink Extension Fasteners .....................................................................................................................27
Figure 16. DIMM Blank Removal.........................................................................................................................................................28
Figure 17. Memory Module Installation...........................................................................................................................................29
Figure 18. Power Supply Installation................................................................................................................................................30
Figure 19. System Top Cover Panel Shipping Screws...............................................................................................................32
Figure 20. System Cover Removal .....................................................................................................................................................33
Figure 21. System Cover Installation ................................................................................................................................................33
Figure 22. Bracket for Riser Card on Riser Slot #1–Two Views............................................................................................. 34
Figure 23. Bracket for Riser Card on Riser Slot #2–Two Views............................................................................................. 34
Figure 24. Bracket for Riser Card on Riser Slot #3–Two Views (Support for NVMe* Riser Only) ...........................35
Figure 25. Bracket for PCIe* Interposer Riser Card –Two Views ..........................................................................................35
Figure 26. Riser Card Bracket Removal............................................................................................................................................36
Figure 27. Riser Card Installation onto the Bracket....................................................................................................................36
Figure 28. PCIe* Add-in Card Installation for Riser Card on Riser Slot #1 or PCIe* Interposer Riser Card .........37
Figure 29. PCIe* Add-In Card Installation for Riser Card on Riser Slot #2........................................................................38
Figure 30. Add-in Card Assembly Installation ..............................................................................................................................39
Figure 31. 2.5” Drive Bay Components ............................................................................................................................................40
Figure 32. Separating Top and Bottom Parts of Drive Blank..................................................................................................40
Figure 33. Attaching the Drive Blank to 7 mm SSD ....................................................................................................................41
Figure 34. 2.5” 7 mm Drive Outside Chassis, Ready for Installation....................................................................................41
Figure 35. 2.5” 7 mm Drive Installation............................................................................................................................................42
Figure 36. 2.5” 15 mm Drive Outside Chassis, Ready for Installation.................................................................................42
Figure 37. 2.5” 15 mm Drive Installation......................................................................................................................................... 43
Figure 38. 2.5” 7 mm Drive Removal.................................................................................................................................................43
Figure 39. 2.5” 15 mm Drive Removal.............................................................................................................................................. 44