Access Keys:
Skip to content (Access Key - 0)

Community

  2013/03/12
caGrid Training Grid Migration
Last Changed by William Stephens, Mar 12, 2013 14:27

  caGrid News


caGrid Training Grid Migration

The caGrid Training Grid has been migrated to a new network using the same service URLs. By default, the JVM caches all resolved IP addresses forever. As a result, users who have deployed applications or services that rely on the core services of the Training Grid will need to perform the following steps:

  1. Login to your application/service hosts
  2. Shutdown your Tomcat or JBoss containers
  3. Start your Tomcat or JBoss containers

Your applications and services will now resolve the new IP addresses of the Training Grid.

Thanks your your use of the OSU-based Training Grid!

William Stephens
Director of Software Engineering
Dept. of Biomedical Informatics
The Ohio State University

Posted at Mar 12, 2013 by William Stephens 0 Comments
  2011/07/18
July caGrid User Group Teleconference
Last Changed by William Stephens, Jul 18, 2011 10:35

  caGrid News


July caGrid User Group Teleconference

The monthly caGrid User Group meeting is scheduled for Thursday, July 21.

Creating a JRuby on Rails Web Application backed by caGrid

JRuby is a 100% Java implementation of the Ruby programming language that runs on the JVM. It offers access both Java and Ruby libraries and compatibility with previously written Java programs, such as caGrid. Because it implements Ruby, it is completely compatible with Rails and is able to utilize all of the functionality and ease of use provided by the web app framework.

On this call, Mark Vance will walk us through a tutorial that teaches web application developers how to build a JRuby on Rails web application that consumes the following grid functionality:

  • SyncGTS: for establishing trust with the grid
  • Dorian Service: for user authentication
  • Index Service: for discovering services on the grid
  • Data Service Querying: for retrieving data from secure and non-secure services

Presenters:
Mark Vance, Software Developer, caGrid Knowledge Center

Agenda:

  1. Update on caGrid
    1. Training Grid Outage: 7/26/2011
    2. Update: SHA-256 release
  2. Target Discussion
    1. Creating a JRuby on Rails Web Application backed by caGrid
  3. Open Floor: Issues, concerns, and questions on caGrid

Meeting info:

When: Thursday, July 21 at 11:00am Eastern

Adobe Connect: http://cbiit.acrobat.com/cagridkc/

  • Select: "Enter as a Guest"
  • Provide your name and click the "Enter Room" button

Phone number: 1-877-939-0845
Passcode: 8983390

Posted at Jul 18, 2011 by William Stephens 0 Comments
  2011/06/02
June caGrid User Group Teleconference
Last Changed by William Stephens, Jun 02, 2011 08:50

  caGrid News


June caGrid User Group Teleconference

The monthly caGrid User Group meeting is scheduled for Thursday, June 16.

caGrid SHA-256 Support Release

The National Institute for Standards and Technology (NIST) has mandated that all federal systems which leverage security make use of SHA 2 family or better certificates for host identities and signing. The SHA-2 family of algorithms creates a unique ‘message digest’ of any block of information that can be used to quickly verify that the contents of the block did not change. More information about the NIST approved hashing algorithms can be found at: http://csrc.nist.gov/groups/ST/toolkit/secure_hashing.html

This mandate affects the Training, QA, Stage and Production caBIG deployments of caGrid, and any other services maintained by federal entities. The caBIG team is preparing to comply with that mandate by 31 December 2011.

This mandated security update will require:

  • Updates to the core services of the caGrid
  • Minor changes and recompiling all services and applications using caGrid.

The caGrid Knowledge Center and Development teams are working diligently to make sure that there is a clear upgrade path and that all impacts will be minimal. The development team and project management will update the caGrid stakeholders regularly as more information becomes available.
Presenters:
David Ervin, caGrid Architect, Ohio State University
Joe George, caGrid Security Architect, Ohio State University
William Stephens, caGrid Knowledge Center

Agenda:

  1. Update on caGrid
  2. Target Discussion
    1. caGrid SHA-256 Support
  3. Open Floor: Issues, concerns, and questions on caGrid

Meeting info:

When: Thursday, June 16 at 11:00am Eastern

Adobe Connect: http://cbiit.acrobat.com/cagridkc/

  • Select: "Enter as a Guest"
  • Provide your name and click the "Enter Room" button

Phone number: 1-877-939-0845
Passcode: 8983390

Posted at Jun 02, 2011 by William Stephens 0 Comments
  2011/05/18
May caGrid User Group Teleconference
Last Changed by William Stephens, May 18, 2011 13:26

  caGrid News


May caGrid User Group Teleconference

The monthly caGrid User Group meeting is scheduled for Thursday, May 19.

Topic 1: caGrid 1.4 Release

The upgrade of the NCI Production Grid to caGrid 1.4 is scheduled for this weekend. This will mark the public release of caGrid 1.4 to the community. Join us as we review the caGrid new features and deprecations.

Presenter:
William Stephens, caGrid Knowledge Center Operations Manager
David Ervin, caGrid Architect, Ohio State University

Topic 2: caGrid SHA-256 Support Release

The National Institute for Standards and Technology (NIST) has mandated that all federal systems which leverage security make use of SHA 2 family or better certificates for host identities and signing. The SHA-2 family of algorithms creates a unique ‘message digest’ of any block of information that can be used to quickly verify that the contents of the block did not change. More information about the NIST approved hashing algorithms can be found at: http://csrc.nist.gov/groups/ST/toolkit/secure_hashing.html

This mandate affects the Training, QA, Stage and Production caBIG deployments of caGrid, and any other services maintained by federal entities. The caBIG team is preparing to comply with that mandate by 31 December 2011.

This update will involve updates to the core services of the caGrid and minor changes and recompiling all services and applications using caGrid. The caGrid Knowledge Center and Development teams are working diligently to make sure that there is a clear upgrade path and that all impacts will be minimal. The development team and project management will update the caGrid stakeholders regularly as more information becomes available.

Presenters:
David Ervin, caGrid Architect, Ohio State University
Joe George, caGrid Security Architect, Ohio State University

Agenda:

  1. Update on caGrid
  2. Target Discussions
    1. caGrid 1.4 Production Release
    2. caGrid SHA-256 Support
  3. Open Floor: Issues, concerns, and questions on caGrid

Meeting info:

When: Thursday, May 19 at 11:00am Eastern

Adobe Connect: http://cbiit.acrobat.com/cagridkc/

  • Select: "Enter as a Guest"
  • Provide your name and click the "Enter Room" button

Phone number: 1-877-939-0845
Passcode: 8983390

Posted at May 18, 2011 by William Stephens 0 Comments
caGrid Announcement - SHA-256 support release
Last Changed by William Stephens, May 18, 2011 13:03

caGrid SHA-256 support release

caBIG and caGrid Users,

The National Institute for Standards and Technology (NIST) has mandated that all federal systems which leverage security make use of SHA 2 family or better certificates for host identities and signing. The SHA-2 family of algorithms creates a unique ‘message digest’ of any block of information that can be used to quickly verify that the contents of the block did not change. More information about the NIST approved hashing algorithms can be found at:
http://csrc.nist.gov/groups/ST/toolkit/secure_hashing.html

This mandate affects the Training, QA, Stage and Production caBIG deployments of caGrid, and any other services maintained by federal entities. The caBIG team is preparing to comply with that mandate by 31 December 2011.

This update will involve updates to the core services of the caGrid and minor changes and recompiling all services and applications using caGrid. The caGrid Knowledge Center and Development teams are working diligently to make sure that there is a clear upgrade path and that all impacts will be minimal. The development team and project management will update the caGrid stakeholders regularly as more information becomes available.

Questions and concerns can be sent to either of the following:
caGrid KC Security Forum: https://cabig-kc.nci.nih.gov/CaGrid/forums/viewforum.php?f=15
email: knowledge@osu-citih.org

~/larry
Lawrence Brem
(571) 499-2361
SAIC-Frederick
caBIG Technical Program Manager
ARCH and VCDE Workspaces

Posted at May 18, 2011 by William Stephens 0 Comments
  2011/04/18
April caGrid User Group Teleconference
Last Changed by William Stephens, Apr 18, 2011 15:54

  caGrid News


April caGrid User Group Teleconference

The monthly caGrid User Group meeting is scheduled for Thursday, April 21.

Topic: Novartis: Image Electronic Data Capture for Clinical Trials

ImagEDC is an electronic data capture (EDC) tool for DICOM images collected for use in clinical trials. It provides image grouping, de-identification, tagging with clinical trial identifiers, and submission to a remote caGrid compatible service. See the NCIs caBIG initiative for more details on caGrid.

ImagEDC is a reference application that implements SOA based image transport services. It is released under a BSD license.

Web Site: http://code.google.com/p/imagedc/

Presenter:
Josh Snyder
BMD / CIM, Imaging Infrastructure Expert
Novartis Institutes for BioMedical Research, Inc.

Agenda:

  1. Update on caGrid
  2. Target Discussion
    1. Novartis ImageEDC
  3. Open Floor: Issues, concerns, and questions on caGrid

Meeting info:

When: Thursday, May 19 at 11:00am Eastern

Adobe Connect: http://cbiit.acrobat.com/cagridkc/

  • Select: "Enter as a Guest"
  • Provide your name and click the "Enter Room" button

Phone number: 1-877-939-0845
Passcode: 8983390

Posted at Apr 18, 2011 by William Stephens 0 Comments
  2011/03/14
Canceled - March caGrid User Group Teleconference
Last Changed by William Stephens, Mar 14, 2011 13:19

  caGrid News


Canceled: March caGrid User Group Teleconference

Due to events beyond our control, the monthly caGrid User Group meeting, originally scheduled for Thursday, March 17, has been canceled.

We will attempt to schedule the same presentation for our next scheduled meeting.

We apologize for the inconvenience.

Next Meeting info:

When: Thursday, April  21 at 11:00am Eastern

Adobe Connect: http://cbiit.acrobat.com/cagridkc/

  • Select: "Enter as a Guest"
  • Provide your name and click the "Enter Room" button

Phone number: 1-877-939-0845
Passcode: 8983390

Posted at Mar 14, 2011 by William Stephens 0 Comments
  2011/02/16
February caGrid User Group Teleconference
Last Changed by William Stephens, Feb 16, 2011 12:25

  caGrid News


February caGrid User Group Teleconference

The monthly caGrid User Group meeting is scheduled for Thursday, February 17.

Topic: caGrid Knowledge Center Workshop

The caGrid Knowledge Center will review the information gathered at the caGrid KC Workshop and solicit additional responses form the User Group.

Presentations: http://software.cagrid.org/knowledgecenter/Workshop-2011/

Agenda:

  1. Update on caGrid
    1. caGrid.org WIKI update
  2. Target Discussion
    1. caGrid Knowledge Center Workshop
  3. Open Floor: Issues, concerns, and questions on caGrid

Meeting info:

When: Thursday, February 20 at 11:00am Eastern

Adobe Connect: http://cbiit.acrobat.com/cagridkc/

  • Select: "Enter as a Guest"
  • Provide your name and click the "Enter Room" button

Phone number: 1-877-939-0845
Passcode: 8983390

Posted at Feb 16, 2011 by William Stephens 0 Comments
  2011/01/14
January caGrid User Group Teleconference
Last Changed by William Stephens, Jan 20, 2011 08:29

  caGrid News


January caGrid User Group Teleconference

The monthly caGrid User Group meeting is scheduled for Thursday, January 20.

Topic: Ant and Ivy Usage in caGrid

The caGrid Knowledge Center will present information about the current use of Ant and Ivy usage in caGrid for building, deploying and resolving external dependencies.

Presentation: Ant and Ivy Use in caGrid

Agenda:

  1. Update on caGrid
    1. caGrid Workshop
    2. caGrid.org WIKI update
    3. caGrid KC Update
  2. Target Discussion
    1. Ant and Ivy Usage in caGrid
  3. Open Floor: Issues, concerns, and questions on caGrid

Meeting info:

When: Thursday, January 20 at 11:00am Eastern

Adobe Connect: http://cbiit.acrobat.com/cagridkc/

  • Select: "Enter as a Guest"
  • Provide your name and click the "Enter Room" button

Phone number: 1-877-939-0845
Passcode: 8983390

Posted at Jan 14, 2011 by William Stephens 0 Comments
  2011/01/05
caGrid Knowledge Center Workshop
Last Changed by William Stephens, Jan 05, 2011 14:49

caGrid KC Workshop: Enterprise deployment of caGrid – Lessons Learned and Best Practices

caGrid Users,

The caGrid Knowledge Center is pleased to announce that we will be hosting a workshop on February 6th and 7th at the Blackwell Inn on the campus of The Ohio State University.

Agenda

Sunday 2/6/2011

  • 6:00PM : Reception
  • 7:00PM : Dinner and networking

Monday 2/7/2011

  • 9:00 – 9:30 : Agenda overview and last-minute topic solicitations
  • 9:30 – 11:45 : Details on caGrid service functional capabilities and service interactions
    • Introduction to core services of caGrid (20 minutes)
    • Service creation, advertisement, discovery - including caCORE SDK integration, ISO 21090 integration (30 minutes)
    • Security - security basics, GAARDS, deployment and use of security infrastructure (45 minutes)
    • Federated query and Workflows (40 minutes)
  • 11:45 – 12:45 : Lunch
  • 12:45 – 2:00 : caGrid "In the Wild":
    • Integration of caGrid infrastructure with non-caBIG software applications
    • caGrid application development best practices
  • 2:00 – 2:30 : Looking ahead: caGrid community requirements in the context of caGrid 2.0
  • 2:30 – 3:30 What additional role(s) should caGrid KC play moving forward?
    • To broaden and enhance the impact of caGrid in basic/clinical/translational research
    • To ease transition from caGrid 1.x to caGrid 2.0
  • 3:30 – 4:00 : Meeting wrap-up and adjournment

Registration

To register for the workshop, please fill out the registration form at:http://tinyurl.com/32kbush

There is no registration fee.

Location

The Blackwell:

Reservations:

When making reservations, attendees should identify themselves as being with the KC Workshop program. All reservations should be made by Friday, January 7, 2011 in order to receive the group rate (plus taxes and valet parking). After this date, the hotel will release rooms not sold from the group block for general sales and all subsequent hotel reservations will be taken on an availability basis. Every attempt will be made to accommodate special requests for room types. This includes location however; due to arrival and departure patterns not all requests may be fulfilled.

Reservations made on an individual basis will be guaranteed by each individual and the individual will be responsible for all charges upon arrival. Reservations made on an individual basis, without a rooming list, are required by the hotel to guarantee each reservation with a credit card. Reservations should be made by the designated cutoff date in order to take advantage of your special grouprate. To receive the negotiated group rate, participants should identify themselves as being with the KC Workshop program when making reservations. Individuals should cancel reservations prior to 4:00pm the day before theirscheduled arrival to avoid one night's room and tax charge to the credit card on file. Should cancellation of reservations by individuals exceed 20% of the total contracted room block, cancellation charges may apply. No shows (reservations made for an individual that do not show for any reason) are not considered to be a cancellation and will be charged accordingly (whether the room was guaranteed to the group or by the individual themselves, via a credit card).

Posted at Jan 05, 2011 by William Stephens 0 Comments
  2010/12/13
December caGrid User Group Teleconference
Last Changed by William Stephens, Dec 13, 2010 15:53

  caGrid News


December caGrid User Group Teleconference

The monthly caGrid User Group meeting is scheduled for Thursday, Dec. 16.

Topic: caGrid User Group Open Forum

The caGrid Knowledge Center will facilitate an Open Forum to allow discussion on any grid-related topic that is raised. The caGrid Development Team will be available to answer in-depth questions.

Possible Topics (to get the ball rolling):

  • caGrid-related issues
  • Future caGrid enhancements
  • Deployment questions

Agenda:

  1. Update on caGrid
    1. Updated Client Development Guide
      1. Added support for production grid
      2. Added support for Grid Grouper
  2. Target Discussion
    1. Open Forum
  3. Open Floor: Issues, concerns, and questions on caGrid

The Knowledge Center continues to request recommendations for User Group presenters. Please email knowledge@osu-citih.org to to recommend a Topic.

  • Ant tips and tricks for caGrid Developer

Meeting info:

When: Thursday, December 16 at 11:00am Eastern
Teleconference: 1-800-619-0279 Passcode: 91671

Posted at Dec 13, 2010 by William Stephens 0 Comments
  2010/11/18
Creating caGrid Data Services for SQL Server 2008
Last Changed by Clayton Clark, Nov 18, 2010 10:55

  caGrid News


A new knowledgebase article is available on the Knowledge Center wiki regarding the creation of caGrid data services for SQL Server 2008.

Find the article here.

Posted at Nov 18, 2010 by Clayton Clark 0 Comments
  2010/11/15
November caGrid User Group Teleconference
Last Changed by Joe George, Nov 18, 2010 10:51

  caGrid News


November caGrid User Group Teleconference

The monthly caGrid User Group meeting is scheduled for Thursday, Nov. 18.

Topic: Large Data Set "Chunking" Enhancements for FQP

The Biomedical Informatics team at the University of Alabama at Birmingham (UAB) has been investigating the use of the Federated Query Processor (FQP) against large data sets. During the investigation, they experienced some issues and have found a solution which has been contributed back to the caGrid KC and Dev Teams as a new Community Project.

Join us as John Osborne shares the use case and findings for the investigation.

Presenters:
John Osborne, University of Alabama at Birmingham

Agenda:

  1. Update on caGrid
  2. Target Discussion
    1. Large Data Set "Chunking" Enhancements for FQP
  3. Open Floor: Issues, concerns, and questions on caGrid
  4. Meeting Plan for December 16: Year end caGrid User Open Forum with user generated topics.
    1. Examples:
      1. caGrid-related issues
      2. Future caGrid enhancements
      3. Deployment questions

The Knowledge Center continues to request recommendations for User Group presenters. Please email knowledge@osu-citih.org to to recommend a Topic.

  • Ant tips and tricks for caGrid Developer

Meeting info:

When: Thursday, November 18 at 11:00am Eastern
Teleconference: 1-800-619-0279 Passcode: 91671
Centra: http://ncicb.centra.com
Centra Meeting ID: CAGRID_USER
Guest Attend URL: http://mt202.centra.com/GA/main/0000006d6aa0000001211ed7786dccd5

Posted at Nov 15, 2010 by William Stephens 0 Comments
  2010/08/19
caGrid 1.4 Deprecation Plan
Last Changed by William Stephens, Aug 19, 2010 11:00

CaGrid 1.4 Deprecation Plan


Table of Contents

Overview


This document provides the deprecation plan for caGrid 1.4, in adherence with the [deprecation policy]. As caGrid only supports the current release and two previous versions, the release of caGrid 1.4 will mark the removal of support for caGrid 1.1 and earlier releases.

Stable APIs


A Stable API is one in which there may be additional methods, but no existing public method signatures will change, nor will the runtime behavior change.

As a general philosophy on backwards compatibility, caGrid has always attempted to maintain service-level backwards compatibility of its core service along the caGrid 1.x release stream. That is, the client API of a core service from a given 1.x release should be able to communicate with a service running 1.x or newer code. We are continuing this general philosophy in this specific plan (with exceptions noted below). The items enumerated in this list represent the APIs and other items which can be considered stable and backwards compatible in the caGrid 1.4 release (from the 1.3 release).

NOTE: The omission of an API from the Stable list does not necessarily mean use of the API should be avoided or it will change in the release, but rather that its stability between releases is not currently considered a requirement (as of the caGrid 1.3 release, there were 3137 Classes in the published javadocs; complete backwards compatibility is not feasible). If you have concerns with a particular omission, please contact the development team for its consideration into future deprecation plans.

Core Service Interfaces (WSDL Operations)


Authentication Service


Main Service

  • Service Security:
    • getServiceSecurityMetadata
  • WS-ResourceProperties:
    • QueryResourceProperties
    • GetMultipleResourceProperties
    • GetResourceProperty
  • Authentication Service
    • authenticateUser

Credential Delegation Service (CDS)


Main Service

  • Service Security:
    • getServiceSecurityMetadata
  • WS-ResourceProperties:
    • QueryResourceProperties
    • GetMultipleResourceProperties
    • GetResourceProperty
  • CDS
    • initiateDelegation
    • approveDelegation
    • findDelegatedCredentials
    • updateDelegatedCredentialStatus
    • findCredentialsDelegatedToClient
    • searchDelegatedCredentialAuditLog
    • deleteDelegatedCredential
    • addAdmin
    • removeAdmin
    • getAdmins

Delegated Credential Resource

  • Service Security:
    • getServiceSecurityMetadata
  • WS-Resource Lifetime:
    • Destroy
  • Delegated Credential
    • getDelegatedCredential

Dorian


Main Service

  • Service Security:
    • getServiceSecurityMetadata
  • WS-ResourceProperties:
    • QueryResourceProperties
    • GetMultipleResourceProperties
    • GetResourceProperty
  • Local Identity Provider
    • registerLocalUser
    • authenticateUser
    • changeLocalUserPassword
    • doesLocalUserExist
  • Federation
    • getCACertificate
    • requestUserCertificate
    • requestHostCertificate
    • getOwnedHostCertificates
    • getTrustedIdentityProviders

Federated Query Processor Service (FQP)


Main Service

  • Service Security:
    • getServiceSecurityMetadata
  • WS-ResourceProperties:
    • QueryResourceProperties
    • GetMultipleResourceProperties
    • GetResourceProperty
  • FQP

Results Service

  • Service Security:
    • getServiceSecurityMetadata
  • WS-ResourceProperties:
    • QueryResourceProperties
    • GetMultipleResourceProperties
    • GetResourceProperty
  • WS-Resource Lifetime:
    • SetTerminationTime
    • Destroy
  • WS-Notification:
    • Subscribe
  • FQP

Global Model Exchange (GME)


Main Service

  • Service Security:
    • getServiceSecurityMetadata
  • WS-ResourceProperties:
    • QueryResourceProperties
    • GetMultipleResourceProperties
    • GetResourceProperty
  • GME
    • publishXMLSchemas
    • getXMLSchema
    • getXMLSchemaNamespaces
    • getXMLSchemaAndDependencies
    • deleteXMLSchemas
    • getImportedXMLSchemaNamespaces
    • getImportingXMLSchemaNamespaces

Grid Grouper


Main Service

  • Service Security:
    • getServiceSecurityMetadata
  • WS-ResourceProperties:
    • QueryResourceProperties
    • GetMultipleResourceProperties
    • GetResourceProperty
  • Grid Grouper
    • getStem
    • getChildStems
    • getParentStem
    • updateStem
    • getSubjectsWithStemPrivilege
    • getStemPrivileges
    • hasStemPrivilege
    • grantStemPrivilege
    • revokeStemPrivilege
    • addChildStem
    • deleteStem
    • getGroup
    • getChildGroups
    • addChildGroup
    • deleteGroup
    • updateGroup
    • addMember
    • getMembers
    • isMemberOf
    • getMemberships
    • deleteMember
    • addCompositeMember
    • deleteCompositeMember
    • grantGroupPrivilege
    • revokeGroupPrivilege
    • getSubjectsWithGroupPrivilege
    • getGroupPrivileges
    • hasGroupPrivilege
    • isMember
    • getMember
    • getMembersGroups

Grid Trust Service (GTS)


Main Service

  • Service Security:
    • getServiceSecurityMetadata
  • WS-ResourceProperties:
    • QueryResourceProperties
    • GetMultipleResourceProperties
    • GetResourceProperty
  • GTS
    • addTrustedAuthority
    • findTrustedAuthorities
    • removeTrustedAuthority
    • addPermission
    • findPermissions
    • revokePermission
    • updateTrustedAuthority
    • addTrustLevel
    • updateTrustLevel
    • getTrustLevels
    • removeTrustLevel
    • addAuthority
    • updateAuthority
    • updateAuthorityPriorities
    • getAuthorities
    • removeAuthority
    • updateCRL
    • validate

Index Service


Main Service

  • WS-Resource Lifetime:
    • SetTerminationTime
    • Destroy
  • WS-ResourceProperties:
    • QueryResourceProperties
    • GetMultipleResourceProperties
    • GetResourceProperty
  • WS-ServiceGroup:
    • Add
    • create
  • WS-Notification:
    • Subscribe
    • GetCurrentMessage

Entry Service

  • WS-Resource Lifetime:
    • SetTerminationTime
  • WS-ResourceProperties:
    • QueryResourceProperties
    • GetMultipleResourceProperties
    • GetResourceProperty

Metadata Model Service (MMS)


Main Service

  • Service Security:
    • getServiceSecurityMetadata
  • WS-ResourceProperties:
    • QueryResourceProperties
    • GetMultipleResourceProperties
    • GetResourceProperty
  • MMS
    • generateDomainModelForProject
    • generateDomainModelForPackages
    • generateDomainModelForClasses
    • generateDomainModelForClassesWithExcludes
    • annotateServiceMetadata
    • getModelSourceMetadata

Taverna Workflow Service


Main Service

  • Service Security
    • getServiceSecurityMetadata
  • WS-ResourceProperties:
    • QueryResourceProperties
    • GetMultipleResourceProperties
    • GetResourceProperty
  • Taverna
    • createWorkflow

Taverna Workflow Service Impl (Context Service)

  • WS-Lifetime
    • Destroy
    • SetTerminationTime
  • WS-ResourceProperties:
    • QueryResourceProperties
    • GetMultipleResourceProperties
    • GetResourceProperty
  • WS-Notification
    • Subscribe
  • Taverna Impl
    • start
    • pause
    • resume
    • cancel
    • getWorkflowOutput
    • getStatus
    • getDetailedStatus

Transfer Service Context


  • getDataTransferDescriptor
  • getStatus
  • setStatus
  • Service Security
    • getServiceSecurityMetadata
  • WS-Lifetime
    • Destroy
    • SetTerminationTime
  • WS-Notification
    • Subscribe

Provided Operations (WSDL Operations)


WS-Enumeration


  • PullOp
  • RenewOp
  • GetStatusOp
  • ReleaseOp
  • WS-ResourceProperties
    • QueryResourceProperties
    • GetMultipleResourceProperties
    • GetResourceProperty

Data Services


  • Service Security:
    • getServiceSecurityMetadata
  • WS-ResourceProperties:
    • QueryResourceProperties
    • GetMultipleResourceProperties
    • GetResourceProperty
  • Data Services
    • query

WS-Lifetime


  • Destroy
  • SetTerminationTime

WS-Notification


  • Subscribe

WS-ResourceProperties


  • QueryResourceProperties
  • GetMultipleResourceProperties
  • GetResourceProperty

Service Security Provider


  • getServiceSecurityMetadata

Client APIs


gov.nih.nci.cagrid.advertisement.AdvertisementClient

  • All public methods

gov.nih.nci.cagrid.advertisement.TerminationClient

  • All public methods

gov.nih.nci.cagrid.discovery.client.DiscoveryClient

  • All public methods

org.cagrid.gaards.authentication.client.AuthenticationClient

  • All public methods

org.cagrid.gaards.dorian.client.LocalUserClient

  • All public methods

org.cagrid.gaards.dorian.client.GridUserClient

  • All public methods

org.cagrid.gme.client.GlobalModelExchangeClient

  • All public methods

org.cagrid.gme.common.FilesystemCacher

  • All public methods

org.cagrid.gme.common.FilesystemLoader

  • All public methods

org.cagrid.mms.client.MetadataModelServiceClient

  • All public methods

gov.nih.nci.cagrid.gts.client.GTSPublicClient

  • All public methods

gov.nih.nci.cagrid.gts.client.GTSAdminClient

  • All public methods

gov.nih.nci.cagrid.syncgts.core.SyncGTS

  • All public methods

gov.nih.nci.cagrid.gridgrouper.client.GridGrouper

  • All public methods

gov.nih.nci.cagrid.gridgrouper.client.Group

  • All public methods

gov.nih.nci.cagrid.gridgrouper.client.Member

  • All public methods

gov.nih.nci.cagrid.gridgrouper.client.Membership

  • All public methods

gov.nih.nci.cagrid.gridgrouper.client.NamingPrivilege

  • All public methods

gov.nih.nci.cagrid.gridgrouper.client.Stem

  • All public methods

org.cagrid.gaards.cds.client.DelegationUserClient

  • All public methods

org.cagrid.gaards.cds.client.DelegationAdminClient

  • All public methods

org.cagrid.gaards.cds.client.DelegatedCredentialUserClient

  • All public methods

gov.nih.nci.cagrid.fqp.client.FederatedQueryProcessorClient

  • getMultipleResourceProperties
  • getResourceProperty
  • queryResourceProperties

gov.nih.nci.cagrid.fqp.results.client.FederatedQueryResultsClient

  • destroy
  • setTerminationTime
  • subscribe
  • isProcessingComplete
  • enumerate
  • transfer
  • getMultipleResourceProperties
  • getResourceProperty
  • queryResourceProperties
  • getExecutionStatus

gov.nih.nci.cagrid.data.client.DataServiceClient

  • getResourceProperty
  • getServiceSecurityMetadata

gov.nih.nci.cagrid.data.enumeration.client.EnumerationDataServiceClient

  • getResourceProperty
  • getServiceSecurityMetadata

Utility APIs


Transfer Services

org.cagrid.transfer.context.client.helper.TransferClientHelper

  • All public methods

org.cagrid.transfer.context.service.helper.TransferServiceHelper

  • All public methods

Data Services

gov.nih.nci.cagrid.data.cql.validation.DomainModelValidator

  • All public methods

gov.nih.nci.cagrid.data.cql.validation.JaxPCqlValidator

  • All public methods

gov.nih.nci.cagrid.data.cql.validation.ObjectWalkingCQLValidator

  • All public methods

gov.nih.nci.cagrid.data.utilities.* (All Utility Classes, except BdtDataServiceHandle)

  • All public methods

WS-Enumeration

gov.nih.nci.cagrid.wsenum.utils.EnumIteratorFactory

  • All public methods

gov.nih.nci.cagrid.wsenum.utils.EnumerationResponseHelper

  • All public methods

Other

gov.nih.nci.cagrid.metadata.MetadataUtils

  • All public methods

gov.nih.nci.cagrid.gridgrouper.client.GridGrouperClientUtils

  • All public methods

Introduce


Utility API

gov.nih.nci.cagrid.introduce.common.CommonTools

  • All public methods, except the createAndOutputProcess(String cmd), which is deprecated and replaced by createAndOutputProcess(List<String> cmd)

Common API

  • gov.nih.nci.cagrid.introduce.common.ImportInformation
  • gov.nih.nci.cagrid.introduce.common.NamespaceInformation
  • gov.nih.nci.cagrid.introduce.common.SchemaInformation
  • gov.nih.nci.cagrid.introduce.common.ServiceInformation
  • gov.nih.nci.cagrid.introduce.common.SpecificMethodInformation
  • gov.nih.nci.cagrid.introduce.common.SpecificServiceInformation

Extension API

Deployment

  • gov.nih.nci.cagrid.introduce.portal.extension.DeploymentUIPanel

Discovery

  • gov.nih.nci.cagrid.introduce.portal.modification.discovery.NamespaceTypeDiscoveryComponent
  • gov.nih.nci.cagrid.introduce.portal.discoverytools.NamespaceTypeToolsComponent

Service

  • gov.nih.nci.cagrid.introduce.extension.CodegenExtensionException
  • gov.nih.nci.cagrid.introduce.extension.CodegenExtensionPostProcessor
  • gov.nih.nci.cagrid.introduce.extension.CodegenExtensionPreProcessor
  • gov.nih.nci.cagrid.introduce.extension.CreationExtensionException
  • gov.nih.nci.cagrid.introduce.extension.CreationExtensionPostProcessor
  • gov.nih.nci.cagrid.introduce.portal.extension.CreationExtensionUIDialog
  • gov.nih.nci.cagrid.introduce.portal.extension.ServiceDeploymentUIPanel
  • gov.nih.nci.cagrid.introduce.portal.extension.ServiceModificationUIPanel
  • gov.nih.nci.cagrid.introduce.upgrade.common.ExtensionUpgraderI

Other


WebSSO

WebSSO-Client-Acegi: An application that uses the default implementation of WebSSO Acegi Client must extend the abstract class org.cagrid.websso.client.acegi.BaseUserDetailsService and implement the abstract protected method loadUserByGridId(String gridId) method to load the following User information accountenabled/disabled, accountNonExpired/accountexpired, credentialsNonExpired/credentialsExpired, accountNonLocked/accountlocked and the authorities from database using CSM or Data Access Service.

org.cagrid.websso.client.acegi.BaseUserDetailsService

  • abstract protected WebSSOUser loadUserByGridId(String gridId)

WebSSO Acegi client puts the loaded WebSSOUser object in Acegi SessionContextHolder.

The process and WebSSOUser class are stable; to retrieve user credentials:

  • (WebSSOUser)SecurityContextHolder.getContext().getAuthentication().getPrincipal();

caGrid Standard Metadata Models


  • The following main Class models and all associated Classes of:
    • gov.nih.nci.cagrid.metadata.ServiceMetadata
    • gov.nih.nci.cagrid.metadata.dataservice.DomainModel
    • gov.nih.nci.cagrid.metadata.security.ServiceSecurityMetadata

Deprecated Services and APIs


CQL 1.0


Reason for deprecation

Since the caGrid 1.0 release, CQL has been the standardized simple query language used by all Data Services. Over the course of several years of production use by the community, a variety of use cases have arisen that cannot be supported by CQL. This led to the creation of a successor language, CQL2 which aims to address many of these use cases while staying true to the intent of CQL being a "minimum barrier to entry" query language for data resources on the grid (as opposed to a full fledged query language like SQL). A technology preview of CQL2 was released with caGrid 1.3, and the language has been further refined and is now stabilized for use going forward as a proper super set language of CQL, and thus its replacement.

Migration Plan

caGrid 1.4 will support both CQL and CQL2 in its Data Service infrastructure (client APIs, Introduce extensions, etc), as well as Federated Query Processor Service. Users are encouraged to migrate their clients, applications, and service implementations towards exclusive use of CQL2. Introduce will provide Data Service extension upgraders to migrate services by adding the new CQL2 operations, however service developers will be required to implement a CQL2 query processor for any data services which make use of a non-cagrid provided data source. Data services backed by (for example) the caCORE SDK 4.x will automatically be upgraded with a new CQL2 query processor. CQL support may be removed in a caGrid 2.x release.

Legacy CQL method Preferred CQL 2 method
query executeQuery
enumerationQuery executeEnumerationQuery
transferQuery executeTransferQuery

DCQL 1.0


Reason for deprecation

DCQL, by definition, is an extension of CQL to add support for querying and joining multiple data services, using CQL. As CQL is deprecated, DCQL is also deprecated and superseded by DCQL2.

Migration Plan

caGrid 1.4 will support both DCQL and DCQL2 in its Federated Query Processor Service. Users are encouraged to migrate their clients and applications towards exclusive use of DCQL2. DCQL support may be removed in a caGrid 2.x release.

The Federated Query Processor Service in caGrid 1.4 will continue to support the DCQL methods, however their continued use is discouraged, and all new development should make use of DCQL 2.

Legacy DCQL method Preferred DCQL 2 method
execute executeQuery
executeAndAggregateResults executeQueryAndAggregate
executeAsynchronously queryAsynchronously
query queryAsynchronously

Additionally, the FederatedQueryResults client is deprecated. Users should migrate to make use of the FederatedQueryResultsRetrieval client, which handles DCQL 2 results, and is returned by the queryAsynchronously method of the FederatedQueryProcessorClient.

Grid Grouper Authorization Plugin for GridFTP (gridftpauthz Project)


Reason for deprecation

This project provided a Grid Grouper authorization callout from a GridFTP server using JNI. There has been very little uptake of GridFTP for caGrid users, due largely to its difficulty in installation, and platform specific requirements (which are major reasons for the development of caGrid Transfer as a lighter weight and simpler solution). As such, supporting extensions to GridFTP in the core caGrid distribution no longer makes sense.

Migration Plan

The caGrid Transfer documentation provides a tutorial on how to effectively and easily create data transfers with its API and services. It does not currently support Grid Grouper based authorization, but that feature could easily be added should there be need from the caGrid community.

Legacy CSM and XPath based PDPs (authz Project)


Reason for deprecation

The authz project provides Globus Policy Decision Points and utility APIs for performing authorization decisions based on information from a CSM installation. The primary usage of these APIs was via Introduce extensions. In caGrid 1.3, a simpler CSM authorization extension was added, making use of the Introduce authorization extension framework new to Introduce 1.3. The authz project works with an old version of CSM (version 3.2), and requires features of CSM that are no longer supported. Additionally, it provides more complex capabilities than have been adopted the caGrid user community (identifying protected information via XPath expressions over the SOAP envelope).

Migration Plan

Introduce 1.3 introduced an Introduce Authorization Extension for CSM , which satisfies the basic CSM integration use cases (protecting services and operations via protection elements), and leverages a modern CSM version (4.0). The more powerful XPath-based selectors, which implement Globus interfaces, will continue to work after they are desupported by caGrid, and interested users could incorporate them into their projects' source code if necessary.

Dorian and Authentication Service Client Wrapper APIs (in gov.nih.nci.cagrid.* packages)


Reason for deprecation

In caGrid 1.3, newer client APIs were introduced in org.cagrid.gaards.* packages, which in some cases, make more intelligent use of modern features of Dorian and the Authentication Service (such as new metadata), and can better handle communicating with all caGrid 1.x versions of the services (using new features where possible). While the existing client APIs are still provided, and we have no immediate plans of removing them, developers should migrate to the newer client APIs if at all possible.

Migration Plan

As of caGrid 1.3, newer versions of these APIs where released in the org.cagrid.gaards.* packages. All these clients are stable from 1.3 to 1.4. The mapping is shown below:

Legacy client Preferred caGrid 1.4 client
gov.nih.nci.cagrid.authentication.client.AuthenticationClient org.cagrid.gaards.authentication.client.AuthenticationClient
gov.nih.nci.cagrid.dorian.client.IdPRegistrationClient org.cagrid.gaards.dorian.client.LocalUserClient
gov.nih.nci.cagrid.dorian.client.IdPUserClient org.cagrid.gaards.dorian.client.LocalUserClient
gov.nih.nci.cagrid.dorian.client.IFSUserClient org.cagrid.gaards.dorian.client.GridUserClient
gov.nih.nci.cagrid.dorian.client.DorianClient org.cagrid.gaards.dorian.client.DorianClient

Retired Services and Components


Data Service support for caCORE SDK 3.x


Overview

The various releases of caGrid Data Services support a variety of caCORE SDK versions , via Introduce extensions and CQL Query Processor implementations.

Reason for Retirement

The caCORE SDK team has discontinued support for versions 3.1, 3.2, and 3.2.1, and thus with the release of caGrid 1.3, their use was discouraged and users were requested to migrated to versions 4.0, 4.1.1, 4.2, or 4.3 The caGrid Data Service support for caCORE SDK versions 3.1, 3.2, and 3.2.1 is now being completely removed from caGrid 1.4.

Migration Plan

Users should migrate their systems to a supported version.

Bulk Data Transfer (BDT) Operation Provider


Overview

BDT provided an Introduce extension, and operation providers for a common way to leverage GridFTP, ws-transfer, and ws-enumeration.

Reason for Retirement

The BDT was deprecated in the [caGrid 1.3 Deprecation Plan], as it was replaced by caGrid Transfer in caGrid 1.2.

Migration Plan

The caGrid Transfer documentation provides a tutorial on how to effectively and easily create data transfers with its API and services.

authz


Reason for Retirement

The authz service made use of a deprecated version of the CSM and has been superseded by the CSM grid service.
*Additional discussion

Migration Plan

The CSM service provides similar functionality and contains appropriate guides for administrators and developers.

gridftpauthz


Reason for retirement

The GridFTPauthz service and APIs were useful for securing GridFTP in the context of the Bulk Data Transfer (BDT) services of caGrid. As BDT has been retired from this release, gridftpauthz is no longer used or needed.

Workflow Factory Service (BPEL)


Service Overview

The BPEL-based workflow service provided the capability to execute BPEL workflows.

Reason for Retirement

Due to a variety of reasons, uptake of BPEL as a language was practically non-existent in the caGrid community. This lead to the development of support in caGrid 1.3 for executing SCUFL workflows, developed primarily through the Taverna workbench which is extremely popular in the scientific community. Using caGrid resources to maintain the BPEL service is not currently in the best interests of the caGrid user community. Standard policy would be to first deprecate this service, and later remove it, but due to lack of adoption, we are simply removing it.

Migration Plan

Users should migrate to the Taverna workflow service. The caGrid 1.4 release will no longer contain the service and client APIs for the BPEL service, but the production and training grids will keep the existing 1.3 service available for a yet to be determined sunset period. Users which cannot migrate to the Taverna workflow service in that timeframe may deploy their own caGrid 1.3-based BPEL service, and configure their clients to leverage it instead of the core deployment provided service.

API-Level Details

The WSDL and client API of the Taverna workflow service is basically identical to the BPEL-based service, with the exception that a SCUFL workflow is provided instead of a BPEL workflow.

Support for Upgrading Introduce 1.1 based Services


Overview

Introduce supports automatically upgrading services created with previous Introduce releases, to a service equivalent to one created with the current release of Introduce. Such upgrades are supported from the past two stable releases of Introduce.

Reason for Retirement

The past two stable releases of Introduce will be version 1.2 and 1.3.

Migration Plan

Introduce users with services created by Introduce 1.0 or 1.1 are encouraged to recreate their service using Introduce 1.4. If this is not possible, they may first use Introduce 1.3 to upgrade their service to 1.3, before using Introduce 1.4 to upgrade to 1.4.

Grid Protocol Changes


There are no grid protocol/specification changes for this release.

The current stable release of the Globus toolkit (version 4.2), introduces incompatible specification changes, but caGrid 1.4 will not make use of that release.
Posted at Aug 19, 2010 by William Stephens 0 Comments
  2010/07/12
July caGrid User Group Teleconference
Last Changed by William Stephens, Jul 12, 2010 10:03

  caGrid News


July caGrid User Group Teleconference

The monthly caGrid User Group meeting is scheduled for Thursday, July 15.

Topic: Tooling support for ISO 21090 Data Types.

Several tools have been updated to provide support for the NCI CBIIT localization of ISO 21090 data types in caGrid data and analytical services for caBIG. Please join us for a discussion of the updated tooling:

  • caAdapter MMS 4.4
  • caCORE Workbench 0.1.2 and SDK 4.3
  • caGrid Introduce Toolkit 1.3.0.2, with either of the new ISO 21090 Analytical or Data Service extensions

NCI ISO 21090 WIKI: https://wiki.nci.nih.gov/display/ISO21090/NCI+CBIIT+ISO+21090+Support+in+caCORE+SDK%2C+caAdapter%2C+and+caGrid

Presenters:
Satish Patel, caCORE SDK Technical Lead/Architect, NCI
David Ervin, caGrid Data Services Architect, The Ohio State University

Agenda:

  1. Update on caGrid
  2. Target Discussion
    1. Tooling support for ISO 21090 Data Types.
  3. Open Floor: Issues, concerns, and questions on caGrid

The Knowledge Center continues to request recommendations for User Group presenters. Please email knowledge@osu-citih.org to to recommend a Topic.

Meeting info:

When: Thursday, July 15 at 11:00am Eastern
Teleconference: 1-800-619-0279 Passcode: 91671
Centra: http://ncicb.centra.com
Centra Meeting ID: CAGRID_USER
Guest Attend URL: http://mt202.centra.com/GA/main/0000006d6aa0000001211ed7786dccd5

Posted at Jul 12, 2010 by William Stephens 0 Comments
Last edited by
Adaptavist Theme Builder Powered by Atlassian Confluence