progress – computing portal and data management in the cluster of suns michał kosiedowski sun hpc...

PROGRESS – Computing Portal and Data Management in the

Cluster of SUNs

Michał KosiedowskiSun HPC Consortium

Heidelberg 2003

Sun HPC Consortium 2003 2

R & D Center

• PSNC was established in 1993 and is an R&D Center in:– New Generation Networks

• POZMAN and PIONIER networks• 6-NET, SEQUIN, ATRIUM projects

– HPC and Grids• GRIDLAB, CROSSGRID, PROGRESS projects

– Portals and Content Delivery Tools• Polish Educational Portal "Interkl@sa", Multimedia

City Guide, dLibra framework


Center of Excellence

• PSNC became the Sun CoE in New Generation Networks, Grids and Portals in November 2002


PROGRESS

• Duration: December 2001 – May 2003 (R&D)• Budget: ~4,0 MEuro• Project Partners

– SUN Microsystems Poland– PSNC IBCh Poznań– Cyfronet AMM, Kraków– Technical University Łódź

• Co-funded by The State Committee for Scientific Research (KBN) and SUN Microsystems Poland


PROGRESS (2)

• Cluster of 80 processors

• Networked Storage of 1,3 TB

• Software: ORACLE, HPC Cluster Tools, Sun ONE, Sun Grid Engine


PROGRESS – architecture


PROGRESS – the talk

• HPC Window – the access environment to grid resources: user interfaces (Computing Portal and Migrating Desktop) + Grid Service Provider

• Data Management System – a distributed system designed for storing scientific data used in experiments performed in the computing cluster (grid)


HPC Window - motivation

• grid access environments lacked flexibility: one grid -> one portal

• user must have relied on the grid as far as the history is concerned

• user interfaces were not that much functional


Grid-Portal EnvironmentPORTAL

HPCRESOURCES

GRIDMANAGEMENT

SYSTEM

GRID SERVICEPROVIDER

4-tier new4-tier newgrid-portal environmentgrid-portal environment

PORTAL

HPCRESOURCES

GRIDMANAGEMENT

SYSTEM

3-tier classical3-tier classicalgrid-portal grid-portal

environmentenvironment


PROGRESS GPE

Co

nte

nt P

rovid

er

We

bse

rvice

Se

ssion

Be

an

En

tity Be

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s


PROGRESS HPC Portal

• interaction with users• presentation of data obtain from

services


PROGRESS HPC Portal (2)


Grid Service Provider

• the use of the grid resources more comfortable to the end users

• allows for easy building of numerous portals and other user interfaces; users can switch from one to another and use the same GSP services

• various thematic scientific web portals sharing the same grid resources

• possibility of providing all clients (user interfaces) with computing resources belonging to two or more different grids


Grid Service Provider (2)

• Necessary services to provide:– job submission service

• managing the creation of user jobs, their submission to the grid and the monitoring of their execution (typically through reverse reporting performed by the Grid Management System about events connected with the execution of jobs)

– application management service• storing information about applications available for

running in the grid• assisting application developers in adding new

applications to the application repository– provider management service

• keeping up-to-date information on the services available within the provider


GSP: Job submission service

• computing job building, submitting them to the grid for execution and viewing the results

• job description is prepared using the XRSL language and transferred to the grid resource broker for the execution of the job

• grid resource broker reverse reports on grid events connected with the job

• "workflowed" jobs: sequences and parallels


GSP: Application mgmt. srv.

• application repository management• application descriptor contains a reference to the

application executable: a reference to a file stored in the DMS or a path to a binary on grid computing server filesystems

• also included in the application descriptor: available (required or optional) arguments, required environment variables and required input and output files

• applications in PROGRESS may be unconfigured or configured: one executable -> multiple configured applications

• virtual applications


GSP: Provider mgmt. service

• enables keeping up-to-date information on services available in the grid service provider

• a service descriptor contains information on the Web Service interface: URL at which the service is available, the service namespace reference (URN) and the service WSDL reference

• services may have multiple instances: informational services


GSP: Informational services

• examples of instance enabled services

• intended for use by web portals• PROGRESS example: short news

service• other: document directory,

discussion forum (under development)


GSP: XRSL Language

• Extended Resource Specification Language (XRSL) is an XML based language designed for description of computing jobs

• the XML documents describing grid computing jobs are passed to the grid resource broker, which analyzes them and executes jobs in accordance with requirements included


Data Mgmt. Syst. - motivation

• data management systems were not oriented towards grid access environment

• data management systems concentrated on distributing data between grid computers


Data Management SystemINTERNET

DBFile System

Data Broker

Data Storage

Mirror & Proxy

Data Storage Data Storage

MetadataRepository

SRS

UniTree

WS

GASSFTPGrid FTP(...)

Clients

PortalPortal

Grid brokerGrid broker

Migrating desktop

Migrating desktop


Data Management System (2)

• provides seamless access to data and information for grid computing

• uses metadata for describing stored data

• stores data on various media such as files, tapes and databases

• serves as the source of input data and the destination for the results of computing experiments


DMS: Data brokerINTERNET

DBFile System

Data Broker

Data Storage

Mirror & Proxy


MetadataRepository

SRS

UniTree

WS


Clients

PortalPortal


Migrating desktop

Migrating desktop


DMS: Data broker (2)

• serves as an interface (Web Services based) for external clients, such as the HPC Portal and the grid resource broker

• delivers DMS functions for directory, file and metadata management


DMS: Data broker (3)

• directory mgmt.: add, remove and rename directories, retrieve root and current path, change path, list contents

• file mgmt.: add, remove and rename files, add, remove and retrieve physical location, add and remove archives, add and remove symbolic links

• metadata mgmt.: metadata scheme mgmt., retrieve list of schemes and attributes, assign schemes to files and edit values and attributes, search metadata repository


DMS: Metadata repositoryINTERNET

DBFile System

Data Broker

Data Storage

Mirror & Proxy


MetadataRepository

SRS

UniTree

WS


Clients

PortalPortal


Migrating desktop

Migrating desktop


DMS: Metadata repository (2)

• responsible for storing and managing metadata

• format of the metadata scheme associated with a file can be defined by the user or chosen from the predefined formats like the Dublin Core


DMS: Data storage modules

INTERNET

DBFile System

Data Broker

Data Storage

Mirror & Proxy


MetadataRepository

SRS

UniTree

WS


Clients

PortalPortal


Migrating desktop

Migrating desktop


DMS: Data storage mod. (2)

• enable access to physical data• data are arranged in data containers

and can be stored on all media types and accessed by a uniform interface

• data can be organized as files on generic filesystems, BLOBs in databases or files on data tapes

• GASS, GridFTP and FTP as the data transport protocols


DMS: Mirror & proxy module

INTERNET

DBFile System

Data Broker

Data Storage

Mirror & Proxy


MetadataRepository

SRS

UniTree

WS


Clients

PortalPortal


Migrating desktop

Migrating desktop


DMS: Mirror & proxy mod. (2)

• enables access to external scientific databanks

• mirrors earlier defined sets of data (like the SRS databank in PROGRESS)

• serves as a proxy to internet based data resources (with caching functions)


Web Services Communication

HPC PortalGrid

Service Provider

DataManagement System

GridResource Broker

saveJob()getApplications()saveTaskOfJob()saveStdOfTask()submitJob()getUserJobs()getJobStatus()

listUserDirectory()addUserFile()

getUserFileLocation()

submitJob() changeJobStatus()


Authentication & authorization

• utilize the services available within the Sun One Portal Server 6.0 package: authentication techniques, user database, portlet access control, identity server

• design an authorization system for the grid service provider and the data management system: based on the RAD model

• apply a Single Sign-On mechanism


Authorization scheme

Port

al

GRID SERVICEPROVIDER

Identity serverRAD based

authorizationsystem

Logon

Authentication

Request

Method invocation

Token validation

Resource access

authorization


Visualization of job results


Where to go now?

• Project: Research & Development finished; the test and deployment phase now

• We will continue the R&D on the tools, including the grid service provider and the data management system


Where to go now? (2)

• PROGRESS HPC Portal is a bioinformatic thematic portal: other thematic scientific portals possible to deploy, using the same grid service provider, data management system and grid resources and utilizing the same portal tools



• The grid service provider may be equipped with means of communication with multiple grids:– cooperation with GRIDLAB– perhaps some Sun Grid Engine based

grids?



• encourage application developers to add their applications to the PROGRESS repository

• encourage visualization module developers to add their software to the PROGRESS repository

• encourage bioinformatic experts to take over as information services editors


PROGRESS

http://progress.psnc.pl/

http://progress.psnc.pl/portal/

[email protected]

progress – computing portal and data management in the cluster of suns michał kosiedowski sun hpc...

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