MI100 High Performance Computing and Tuning Guide

MI100 High Performance Computing and Tuning Guide#

Applies to Linux and Windows

2023-07-27

17 min read time

System Settings#

This chapter reviews system settings that are required to configure the system for AMD Instinct™ MI100 accelerators and that can improve performance of the GPUs. It is advised to configure the system for best possible host configuration according to the “High Performance Computing (HPC) Tuning Guide for AMD EPYC™ 7002 Series Processors” or “High Performance Computing (HPC) Tuning Guide for AMD EPYC™ 7003 Series Processors” depending on the processor generation of the system.

In addition to the BIOS settings listed below the following settings (System BIOS Settings) will also have to be enacted via the command line (see Operating System Settings):

Core C states
AMD-PCI-UTIL (on AMD EPYC™ 7002 series processors)
IOMMU (if needed)

System BIOS Settings#

For maximum MI100 GPU performance on systems with AMD EPYC™ 7002 series processors (codename “Rome”) and AMI System BIOS, the following configuration of System BIOS settings has been validated. These settings must be used for the qualification process and should be set as default values for the system BIOS. Analogous settings for other non-AMI System BIOS providers could be set similarly. For systems with Intel processors, some settings may not apply or be available as listed in Table 19.

Table 19 Recommended settings for the system BIOS in a GIGABYTE platform.#
BIOS Setting Location	Parameter	Value	Comments
Advanced / PCI Subsystem Settings	Above 4G Decoding	Enabled	GPU Large BAR Support
AMD CBS / CPU Common Options	Global C-state Control	Auto	Global Core C-States
AMD CBS / CPU Common Options	CCD/Core/Thread Enablement	Accept	Global Core C-States
AMD CBS / CPU Common Options / Performance	SMT Control	Disable	Global Core C-States
AMD CBS / DF Common Options / Memory Addressing	NUMA nodes per socket	NPS 1,2,4	NUMA Nodes (NPS)
AMD CBS / DF Common Options / Memory Addressing	Memory interleaving	Auto	Numa Nodes (NPS)
AMD CBS / DF Common Options / Link	4-link xGMI max speed	18 Gbps	Set AMD CPU xGMI speed to highest rate supported
AMD CBS / DF Common Options / Link	3-link xGMI max speed	18 Gbps	Set AMD CPU xGMI speed to highest rate supported
AMD CBS / NBIO Common Options	IOMMU	Disable
AMD CBS / NBIO Common Options	PCIe Ten Bit Tag Support	Enable
AMD CBS / NBIO Common Options	Preferred IO	Manual
AMD CBS / NBIO Common Options	Preferred IO Bus	“Use lspci to find pci device id”
AMD CBS / NBIO Common Options	Enhanced Preferred IO Mode	Enable
AMD CBS / NBIO Common Options / SMU Common Options	Determinism Control	Manual
AMD CBS / NBIO Common Options / SMU Common Options	Determinism Slider	Power
AMD CBS / NBIO Common Options / SMU Common Options	cTDP Control	Manual
AMD CBS / NBIO Common Options / SMU Common Options	cTDP	240
AMD CBS / NBIO Common Options / SMU Common Options	Package Power Limit Control	Manual
AMD CBS / NBIO Common Options / SMU Common Options	Package Power Limit	240
AMD CBS / NBIO Common Options / SMU Common Options	xGMI Link Width Control	Manual
AMD CBS / NBIO Common Options / SMU Common Options	xGMI Force Link Width	2
AMD CBS / NBIO Common Options / SMU Common Options	xGMI Force Link Width Control	Force
AMD CBS / NBIO Common Options / SMU Common Options	APBDIS	1
AMD CBS / NBIO Common Options / SMU Common Options	DF C-states	Auto
AMD CBS / NBIO Common Options / SMU Common Options	Fixed SOC P-state	P0
AMD CBS / UMC Common Options / DDR4 Common Options	Enforce POR	Accept
AMD CBS / UMC Common Options / DDR4 Common Options / Enforce POR	Overclock	Enabled
AMD CBS / UMC Common Options / DDR4 Common Options / Enforce POR	Memory Clock Speed	1600 MHz	Set to max Memory Speed, if using 3200 MHz DIMMs
AMD CBS / UMC Common Options / DDR4 Common Options / DRAM Controller Configuration / DRAM Power Options	Power Down Enable	Disabled	RAM Power Down
AMD CBS / Security	TSME	Disabled	Memory Encryption

NBIO Link Clock Frequency#

The NBIOs (4x per AMD EPYC™ processor) are the serializers/deserializers (also known as “SerDes”) that convert and prepare the I/O signals for the processor’s 128 external I/O interface lanes (32 per NBIO).

LCLK (short for link clock frequency) controls the link speed of the internal bus that connects the NBIO silicon with the data fabric. All data between the processor and its PCIe lanes flow to the data fabric based on these LCLK frequency settings. The link clock frequency of the NBIO components need to be forced to the maximum frequency for optimal PCIe performance.

For AMD EPYC™ 7002 series processors, this setting cannot be modified via configuration options in the server BIOS alone. Instead, the AMD-IOPM-UTIL (see Section 3.2.3) must be run at every server boot to disable Dynamic Power Management for all PCIe Root Complexes and NBIOs within the system and to lock the logic into the highest performance operational mode.

For AMD EPYC™ 7003 series processors, configuring all NBIOs to be in “Enhanced Preferred I/O” mode is sufficient to enable highest link clock frequency for the NBIO components.

Memory Configuration#

For the memory addressing modes (see Table 19), especially the number of NUMA nodes per socket/processor (NPS), the recommended setting is to follow the guidance of the “High Performance Computing (HPC) Tuning Guide for AMD EPYC™ 7002 Series Processors” and “High Performance Computing (HPC) Tuning Guide for AMD EPYC™ 7003 Series Processors” to provide the optimal configuration for host side computation.

If the system is set to one NUMA domain per socket/processor (NPS1), bidirectional copy bandwidth between host memory and GPU memory may be slightly higher (up to about 16% more) than with four NUMA domains per socket processor (NPS4). For memory bandwidth sensitive applications using MPI, NPS4 is recommended. For applications that are not optimized for NUMA locality, NPS1 is the recommended setting.

Operating System Settings#

CPU Core State - “C States”#

There are several Core-States, or C-states that an AMD EPYC CPU can idle within:

C0: active. This is the active state while running an application.
C1: idle
C2: idle and power gated. This is a deeper sleep state and will have a greater latency when moving back to the C0 state, compared to when the CPU is coming out of C1.

Disabling C2 is important for running with a high performance, low-latency network. To disable power-gating on all cores run the following on Linux systems:

cpupower idle-set -d 2

Note that the cpupower tool must be installed, as it is not part of the base packages of most Linux® distributions. The package needed varies with the respective Linux distribution.

Ubuntu

sudo apt install linux-tools-common

Red Hat Enterprise Linux

sudo yum install cpupowerutils

SUSE Linux Enterprise Server

sudo zypper install cpupower

AMD-IOPM-UTIL#

This section applies to AMD EPYC™ 7002 processors to optimize advanced Dynamic Power Management (DPM) in the I/O logic (see NBIO description above) for performance. Certain I/O workloads may benefit from disabling this power management. This utility disables DPM for all PCI-e root complexes in the system and locks the logic into the highest performance operational mode.

Disabling I/O DPM will reduce the latency and/or improve the throughput of low-bandwidth messages for PCI-e InfiniBand NICs and GPUs. Other workloads with low-bandwidth bursty PCI-e I/O characteristics may benefit as well if multiple such PCI-e devices are installed in the system.

The actions of the utility do not persist across reboots. There is no need to change any existing firmware settings when using this utility. The “Preferred I/O” and “Enhanced Preferred I/O” settings should remain unchanged at enabled.

Tip

The recommended method to use the utility is either to create a system start-up script, for example, a one-shot systemd service unit, or run the utility when starting up a job scheduler on the system. The installer packages (see Power Management Utility) will create and enable a systemd service unit for you. This service unit is configured to run in one-shot mode. This means that even when the service unit runs as expected, the status of the service unit will show inactive. This is the expected behavior when the utility runs normally. If the service unit shows failed, the utility did not run as expected. The output in either case can be shown with the systemctl status command.

Stopping the service unit has no effect since the utility does not leave anything running. To undo the effects of the utility, disable the service unit with the systemctl disable command and reboot the system.

The utility does not have any command-line options, and it must be run with super-user permissions.

Systems with 256 CPU Threads - IOMMU Configuration#

For systems that have 256 logical CPU cores or more (e.g., 64-core AMD EPYC™ 7763 in a dual-socket configuration and SMT enabled), setting the Input-Output Memory Management Unit (IOMMU) configuration to “disabled” can limit the number of available logical cores to 255. The reason is that the Linux® kernel disables X2APIC in this case and falls back to Advanced Programmable Interrupt Controller (APIC), which can only enumerate a maximum of 255 (logical) cores.

If SMT is enabled by setting “CCD/Core/Thread Enablement > SMT Control” to “enable”, the following steps can be applied to the system to enable all (logical) cores of the system:

In the server BIOS, set IOMMU to “Enabled”.
When configuring the Grub boot loader, add the following arguments for the Linux kernel: amd_iommu=on iommu=pt

Update Grub to use the modified configuration:

sudo grub2-mkconfig -o /boot/grub2/grub.cfg

Reboot the system.

Verify IOMMU passthrough mode by inspecting the kernel log via dmesg:

[...]
[   0.000000] Kernel command line: [...] amd_iommu=on iommu=pt
   [...]

Once the system is properly configured, the AMD ROCm platform can be installed.

System Management#

For a complete guide on how to install/manage/uninstall ROCm on Linux, refer to Deploy ROCm on Linux. For verifying that the installation was successful, refer to Verifying Kernel-mode Driver Installation and Validation Tools. Should verification fail, consult the System Debugging Guide.

Hardware Verification with ROCm#

The AMD ROCm™ platform ships with tools to query the system structure. To query the GPU hardware, the rocm-smi command is available. It can show available GPUs in the system with their device ID and their respective firmware (or VBIOS) versions:

rocm-smi --showhw output on an 8*MI100 system. — Fig. 41 `rocm-smi --showhw` output on an 8*MI100 system.#

Another important query is to show the system structure, the localization of the GPUs in the system, and the fabric connections between the system components:

rocm-smi --showtopo output on an 8*MI100 system. — Fig. 42 `rocm-smi --showtopo` output on an 8*MI100 system.#

The previous command shows the system structure in four blocks:

The first block of the output shows the distance between the GPUs similar to what the numactl command outputs for the NUMA domains of a system. The weight is a qualitative measure for the “distance” data must travel to reach one GPU from another one. While the values do not carry a special (physical) meaning, the higher the value the more hops are needed to reach the destination from the source GPU.
The second block has a matrix for the number of hops required to send data from one GPU to another. For the GPUs in the local hive, this number is one, while for the others it is three (one hop to leave the hive, one hop across the processors, and one hop within the destination hive).
The third block outputs the link types between the GPUs. This can either be “XGMI” for AMD Infinity Fabric™ links or “PCIE” for PCIe Gen4 links.
The fourth block reveals the localization of a GPU with respect to the NUMA organization of the shared memory of the AMD EPYC™ processors.

To query the compute capabilities of the GPU devices, the rocminfo command is available with the AMD ROCm™ platform. It lists specific details about the GPU devices, including but not limited to the number of compute units, width of the SIMD pipelines, memory information, and instruction set architecture:

rocminfo output fragment on an 8*MI100 system. — Fig. 43 `rocminfo` output fragment on an 8*MI100 system.#

For a complete list of architecture (LLVM target) names, refer to GPU OS Support.

Testing Inter-device Bandwidth#

mi100-hw-verification showed the rocm-smi --showtopo command to show how the system structure and how the GPUs are located and connected in this structure. For more details, the rocm-bandwidth-test can run benchmarks to show the effective link bandwidth between the components of the system.

The ROCm Bandwidth Test program can be installed with the following package-manager commands:

Ubuntu

sudo apt install rocm-bandwidth-test

Red Hat Enterprise Linux

sudo yum install rocm-bandwidth-test

SUSE Linux Enterprise Server

sudo zypper install rocm-bandwidth-test

Alternatively, the source code can be downloaded and built from source.

The output will list the available compute devices (CPUs and GPUs):

rocm-bandwidth-test output fragment on an 8*MI100 system listing devices. — Fig. 44 `rocm-bandwidth-test` output fragment on an 8*MI100 system listing devices.#

The output will also show a matrix that contains a “1” if a device can communicate to another device (CPU and GPU) of the system and it will show the NUMA distance (similar to rocm-smi):

rocm-bandwidth-test output fragment on an 8*MI100 system showing inter-device access matrix. — Fig. 45 `rocm-bandwidth-test` output fragment on an 8*MI100 system showing inter-device access matrix.#

rocm-bandwidth-test output fragment on an 8*MI100 system showing inter-device NUMA distance. — Fig. 46 `rocm-bandwidth-test` output fragment on an 8*MI100 system showing inter-device NUMA distance.#

The output also contains the measured bandwidth for unidirectional and bidirectional transfers between the devices (CPU and GPU):

rocm-bandwidth-test output fragment on an 8*MI100 system showing uni- and bidirectional bandwidths. — Fig. 47 `rocm-bandwidth-test` output fragment on an 8*MI100 system showing uni- and bidirectional bandwidths.#