IBM Systems Magazine, Power Systems edition - August 2014 - 31

to-end reference architecture
that defines the enterprise
capability of data management,
workflow orchestration and global
access across key platforms for
genomics, translational and
personalized medicine. Based
on this architecture, IBM has
successfully built data-centric,
software-defined and applicationready platforms in support of
large-scale genomics sequencing
and downstream data analytics.
Close to a dozen of the world's
leading healthcare and life science
organizations have adopted IBM
reference architecture for their
integrated research computing
infrastructure.

Data Management
With Datahub
Data management is critical for
genomics because of the volume,
velocity and variety of data.
Genomic data volume is surging
as the cost of sequencing drops
precipitously. The I/O throughput
on a genomic system can be
extremely demanding due to data
volume and the large number of file
and directory objects. Many data
formats also exist, with varying
degrees of lifecycle management
requirements ranging from
transient files in scratch space
to variant calling files that must
perpetually remain online.
Leveraging IBM Elastic
Storage, the Datahub datamanagement layer defines an
enterprise capability to meet
these challenges based on its
high-performance, scalable and
extensible architecture.
First developed and optimized
as a high-performance computing
(HPC) file system, Elastic Storage
manages to serve large volumes at
a high bandwidth and in parallel
to all of the compute nodes in
the computing system(s). As
genomic pipelines can consist
of hundreds of applications

engaged in concurrent data
processing on large numbers of
files, this capability is critical in
feeding data to the computational
genomics workflow.
A system pool built on SSD
and flash disk with high-IOPS
capability can be dedicated to
store metadata for files/directories
and, in some cases, small files
directly. This drastically improves
file-system performance and
responsiveness to metadata-heavy
operations such as listing all files
in any given directory.
As a file system with a
connector to MapReduce,
Datahub can also serve
MapReduce/big data jobs
on the same set as compute
nodes, eliminating the need
for and complexity of Hadoop
Distributed File System.
The policy-based data lifecycle
management capability lets
Datahub move data from one
storage pool to the others,
maximizing I/O performance
and storage utilization while
minimizing operational cost.
These storage pools can range
from the high-I/O flash disk to
high-capacity storage appliance
(GPFS* Storage Server) to low-cost
tape media (through integration
with a tape management solution).
The increasingly distributed
nature of genomics infrastructure
also requires data management
on a much larger and global scale.
Not only must data be moved or
shared across different sites, its
movement or sharing must also be
coordinated with computational
workload and workflow. To
achieve this, Datahub leverages
a key function of Elastic Storage
called Advanced File Management
(AFM). It enables Elastic Storage
to extend the global name space
to multiple sites, letting them
share a common metadata catalog
and a cache copy of home data
for a remote client site to access

W

Infrastructure
for genomic
medicine
must be:
Data-centric
meeting the
challenge of
explosive growth
of genomics and
clinical data with
data management
capabilities
Softwaredefined
defining the
architecture based
on software-based
abstraction layers
for computation,
storage, big data
and cloud
Applicationready
integrating a
multitude of
applications
with a workload
and workflow
orchestrator

locally. For example, a genomic
center can own, operate and
version control all reference
databases or data sets while the
partnering sites can access the
reference data set through AFM.
When the centralized copy of the
database is updated, so are the
cache copies of the other sites.
With Datahub, a systemwide
metadata engine can also be built
to index and search all of the
genomic and clinical data, enabling
powerful downstream analytics and
translational research.

Workflow Management
With Orchestrator
The workflow for genomics is
complex, yet important. The
number of genomic applications
is growing and represents
varying degrees of maturity and
types of programming models-
many are single-threaded or
embarrassingly parallel while
a few others are multithreaded
or message passing interface
(MPI)-enabled (mpiBLAST),
yet all applications must
work in concert or tandem in
a high-throughput and highperformance mode to generate
final results.
Through Orchestrator, the
reference architect defines
the capability to orchestrate
applications and workflow. A
unique combination of workload
manager (Platform* LSF*) and
workflow engine (Platform
Process Manager) links and
coordinates a spectrum of
computational and analytical
jobs into fully automated
pipelines that can be easily built,
customized, shared and run on a
common platform. This provides
the necessary abstraction of
applications from the underlying
infrastructure, such as an HPC
cluster with graphical unit
processor or a big data cluster in
the cloud.

ibmsystemsmag.com AUGUST 2014 // 31


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IBM Systems Magazine, Power Systems edition - August 2014

Table of Contents for the Digital Edition of IBM Systems Magazine, Power Systems edition - August 2014

Table of Contents
Editor's Desk: Killing cancer
IBM Perspective: Healthcare's grand challenge
Techbits: Shape-shifters in the sky
Partner PoV: An integration layer can beat rip-and-replace or custom code
Case Study: Fields of Dreams: MEDHOST accommodates growing healthcare providers with expanding field lengths
Cover Story: Paradigm Shift: How MD Anderson and Watson are transforming healthcare
Feature: Treating Healthcare’s Pain Points: IBM Watson pairs with Power Systems to bring new tools to medical service providers
Trends: IBM reference architecture for genomics brings power to research
R&D: The Watt-Sun program is poised to improve weather forecasting for solar energy
Solutions: Accelerator for .NET 5.0; Open Access for COBOL; Capture With Business-Items; Nitro AutoCode; Formtastic 5.4.5; Advanced Job Scheduler 12; Profound UI 5.0
Snapshot: Amy Hoerle
Reference Point - Global Events, Education, Resources for Power Systems
2014 Power Systems Solution Edition Product Index
IBM Systems Magazine, Power Systems edition - August 2014 - Intro
IBM Systems Magazine, Power Systems edition - August 2014 - Cover1
IBM Systems Magazine, Power Systems edition - August 2014 - Cover2
IBM Systems Magazine, Power Systems edition - August 2014 - 1
IBM Systems Magazine, Power Systems edition - August 2014 - Table of Contents
IBM Systems Magazine, Power Systems edition - August 2014 - 3
IBM Systems Magazine, Power Systems edition - August 2014 - 4
IBM Systems Magazine, Power Systems edition - August 2014 - Editor's Desk: Killing cancer
IBM Systems Magazine, Power Systems edition - August 2014 - IBM Perspective: Healthcare's grand challenge
IBM Systems Magazine, Power Systems edition - August 2014 - Techbits: Shape-shifters in the sky
IBM Systems Magazine, Power Systems edition - August 2014 - Partner PoV: An integration layer can beat rip-and-replace or custom code
IBM Systems Magazine, Power Systems edition - August 2014 - 9
IBM Systems Magazine, Power Systems edition - August 2014 - 10
IBM Systems Magazine, Power Systems edition - August 2014 - 11
IBM Systems Magazine, Power Systems edition - August 2014 - Case Study: Fields of Dreams: MEDHOST accommodates growing healthcare providers with expanding field lengths
IBM Systems Magazine, Power Systems edition - August 2014 - 13
IBM Systems Magazine, Power Systems edition - August 2014 - 14
IBM Systems Magazine, Power Systems edition - August 2014 - 15
IBM Systems Magazine, Power Systems edition - August 2014 - 16
IBM Systems Magazine, Power Systems edition - August 2014 - 17
IBM Systems Magazine, Power Systems edition - August 2014 - Cover Story: Paradigm Shift: How MD Anderson and Watson are transforming healthcare
IBM Systems Magazine, Power Systems edition - August 2014 - 19
IBM Systems Magazine, Power Systems edition - August 2014 - 20
IBM Systems Magazine, Power Systems edition - August 2014 - 21
IBM Systems Magazine, Power Systems edition - August 2014 - 22
IBM Systems Magazine, Power Systems edition - August 2014 - 23
IBM Systems Magazine, Power Systems edition - August 2014 - Feature: Treating Healthcare’s Pain Points: IBM Watson pairs with Power Systems to bring new tools to medical service providers
IBM Systems Magazine, Power Systems edition - August 2014 - 25
IBM Systems Magazine, Power Systems edition - August 2014 - 26
IBM Systems Magazine, Power Systems edition - August 2014 - 27
IBM Systems Magazine, Power Systems edition - August 2014 - 28
IBM Systems Magazine, Power Systems edition - August 2014 - 29
IBM Systems Magazine, Power Systems edition - August 2014 - Trends: IBM reference architecture for genomics brings power to research
IBM Systems Magazine, Power Systems edition - August 2014 - 31
IBM Systems Magazine, Power Systems edition - August 2014 - 32
IBM Systems Magazine, Power Systems edition - August 2014 - 33
IBM Systems Magazine, Power Systems edition - August 2014 - R&D: The Watt-Sun program is poised to improve weather forecasting for solar energy
IBM Systems Magazine, Power Systems edition - August 2014 - 35
IBM Systems Magazine, Power Systems edition - August 2014 - 36
IBM Systems Magazine, Power Systems edition - August 2014 - Solutions: Accelerator for .NET 5.0; Open Access for COBOL; Capture With Business-Items; Nitro AutoCode; Formtastic 5.4.5; Advanced Job Scheduler 12; Profound UI 5.0
IBM Systems Magazine, Power Systems edition - August 2014 - 38
IBM Systems Magazine, Power Systems edition - August 2014 - 39
IBM Systems Magazine, Power Systems edition - August 2014 - Snapshot: Amy Hoerle
IBM Systems Magazine, Power Systems edition - August 2014 - Cover3
IBM Systems Magazine, Power Systems edition - August 2014 - Cover4
IBM Systems Magazine, Power Systems edition - August 2014 - Reference Point - Global Events, Education, Resources for Power Systems
IBM Systems Magazine, Power Systems edition - August 2014 - 2014 Power Systems Solution Edition Product Index
IBM Systems Magazine, Power Systems edition - August 2014 - SE2
IBM Systems Magazine, Power Systems edition - August 2014 - SE3
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