Dell Reference Architectures of Dell EMC Ready Bundle for HPC Life Sciences - Refresh with 14th Generation Servers Owner's Manual, User Guide
Summary
Dell EMC Ready Bundle for HPC Life Sciences Reference Architecture. This document presents a high-performance computing architecture for life sciences applications, featuring 14th generation Dell servers with Intel Xeon Scalable Processors for genomic data processing. Target users: HPC architects, bioinformatics professionals, and IT decision-makers in life sciences research organizations.
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REFERENCE ARCHITECTURES OF DELL EMC READY BUNDLE FOR HPC LIFE SCIENCES Refresh with 14th Generation servers
ABSTRACT Dell EMC’s flexible HPC architecture for Life Sciences has been through a dramatic improvement with new Intel® Xeon® Scalable Processors. Dell EMC Ready Bundle for HPC Life Sciences equipped with better 14G servers, faster CPUs, and more memory bring a much higher performance in terms of throughput compared to the previous generation especially in genomic data processing.
March 2018
Page Summary Contents For Dell Reference Architectures of Dell EMC Ready Bundle for HPC Life Sciences - Refresh with 14th Generation Servers Owner's Manual, User Guide
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REFERENCE ARCHITECTURES OF DELL EMC READY BUNDLE FOR HPC LIFE SCIENCES Refresh with 14th Generation servers ABSTRACT Dell EMC’s flexible HPC architecture for Life Sciences has been through a dramatic ...
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TABLE OF CONTENTS EXECUTIVE SUMMARY ...........................................................................................................3 AUDIENCE ................................................
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EXECUTIVE SUMMARY Since Dell EMC announced Dell EMC HPC solution for Life Science in September 2016, the current Dell EMC Ready Bundle for HPC Life Sciences can process 485 genomes per dayi with 64x C...
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INTRODUCTION Although the successful completion of the Human Genome Project was announced on April 14, 2003 after a 13-year-long endeavor and numerous exciting breakthroughs in technology and medicine...
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The solutions are nearly identical for Intel® OPA and IB EDR versions except for a few changes in the switching infrastructure and network adapter. The solution ships in a deep and wide 48U rack enclo...
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Management o Dell EMC Power Edge R440 for master node CPU: 2x Intel® Xeon® Gold 5118 @2.3GHz 12 cores (Skylake) Memory: 12x 8GB @2666 MHz Disk: 10x 1.8TB 10K RPM SAS 12Gbps 512e 2.5in Hot-plug...
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assistance of the two fence devices; and ensure that the failed server does not return to life without the administrator’s knowledge or control. Figure 2 NSS7.0-HA 480TB configuration; recommended PDU...
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240 TB: One Power Vault MD3460 with 6 virtual disks 480 TB: One Power Vault MD3460 + One Power Vault MD3060e with 12 virtual disks Dell EMC Ready Bundle for HPC Lustre Storage The Dell EMC Ready B...
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o CPU: 2x Intel Xeon™ E5-2697 v4 @ 2.3GHz 18 cores o Memory: 8x 16 GB @2400 MHz 2x Dell EMC Power Edge R730 for OSS nodes o CPU: 2x Intel Xeon™ E5-2630V4 @ 2.20GHz 10 cores o Memory: 16x 16 GB @2133...
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Network Components Dell Networking H1048-OPF Intel® Omni-Path Architecture (OPA) is an evolution of the Intel® True Scale Fabric Cray Aries interconnect and internal Intel® IP [9]. In contrast to Inte...
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Reference Architecture Case 1 This reference architecture is configured with Intel® OPA fabric, Dell EMC Ready Bundle for HPC NFS Storage and Dell EMC Ready Bundle for HPC Lustre Storage. Dell EMC Rea...
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Figure 9 Management Network Figure 10 shows high-speed interconnect with Intel® OPA. The network topology is 2:1 blocking fat tree which requires three Dell Network H1048-OPF 48 port switches. Figure ...
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Reference Architecture Case 2 Dell EMC Isilon storage, F800 All-flash is configured into Dell EMC Ready Bundle for HPC Life Sciences. In this reference architecture, the interconnect for the F800 has ...
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Figure 12 Interconnection with 10Gb E (1:1 Non-blocking) The management network is identical to case 1 except for the connections to the Lustre storage (Figure 13). Figure 13 Management Network
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Reference Architecture Case 3 This example shows Dell EMC Ready Bundle for HPC Life Sciences with Dell EMC Isilon Storage H600. The H600 is one of Dell EMC Isilon Hybrid Scale-out NAS storages. The de...
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Figure 15 Interconnection with 10Gb E (1:1 Non-blocking) and IB QDR Software Components Along with the hardware components, the solution includes the following software components: Bright Cluster Ma...
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PERFORMANCE EVALUATION AND ANALYSIS GENOMICS/NGS DATA ANALYSIS PERFORMANCE A typical variant calling pipeline consists of three major steps 1) aligning sequence reads to a reference genome sequence; 2...
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Figure 17 Performances in 13/14 generation servers with Isilon and Lustre The number of compute nodes used for the tests are 64x C6420s and 63x C6320s (64x C6320s for testing H600). The number of samp...
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MOLECULAR DYNAMICS SIMULATION SOFTWARE PERFORMANCE Over the past decade, GPUs has become popular in scientific computing because of their great ability to exploit a high degree of parallelism. NVIDIA ...
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Figure 19 Figure 19 AMBER JAC Benchmark Figure 20 AMBER STMV benchmark Figure 19 and Figure 20 illustrate AMBER’s results with DHFR and STMV dataset. On SXM2 system (Config K), AMBER scales weakly wit...
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LAMMPS Large-scale Atomic/Molecular Massively Parallel Simulator (LAMMPS) is a classical molecular dynamics code and has potentials for solid-state materials (metals, semiconductors) and soft matter (...
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viruses and protein complexes at molecular resolution. A rapid vitrification at cryogenic temperature is the key step to avoid water molecule crystallization and forming amorphous solid that does almo...
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REFERENCES 1. Blueprint for High Performance Computing. Dell Tech Center. [Online] http://en.community.dell.com/techcenter/blueprints/blueprint_for_hpc/m/mediagallery/2044347 3. 2. ETL: The Silent Kil...
Manual Details
| Brand | Dell |
|---|---|
| Pages | 24 |
| File Size | 2.16 MB |
| Published | June 24, 2026 |
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Frequently Asked Questions
What kind of processors does the system use?
It uses Intel Xeon Scalable Processors (code name: Skylake).
How much better is the current system compared to previous versions?
It offers a roughly two-fold improvement due to the 14th generation servers and updates in memory, storage, and CPUs.
What is the measured genomic data processing rate?
The system can process 485 genomes per day using 64x C6420s and Dell EMC Isilon F800.
Who should use this solution overview document?
It is intended for organizations interested in accelerating genomic research, including system administrators and solution architects.