Accessgrid Accessgrid is a conferencing tool that allows you to see and talk to multiple site across the world. The accessgrid is based on multicasting abaility but ...

Meeting with IBM Life Sciences team Scope of Meeting We will discuss with Virinder Batra and Terry O'Brien, of the IBM Life Sciences team, his team's work on the ...

Minutes of Access Grid meeting, 14 Feb 2003 Attendees Manchester: Carole Goble, Mark Greenwood, Phil Lord, Nick Sharman Newcastle: Peter Li, Savas Parastatidis Nottingham ...

Minutes of Access Grid meeting, 14 Mar 2003 Attendees EBI: Peter Rice, Alan Robinson Manchester: Mark Greenwood, Phil Lord, Nick Sharman Newcastle: Peter Li, Savas ...

Minutes of Access Grid meeting, 21 Feb 2003 Attendees Manchester: Carole Goble, Phil Lord Newcastle: Peter Li, Neil Wipat, Savas Parastatidis, Paul Watson Nottingham ...

Minutes of Access Grid meeting, 25 Apr 2003 Attendees EBI: Peter Rice, Tom Oinn Manchester: Robert Stevens, Mark Greenwood, Phil Lord, Nedim Alpdemir Newcastle: Anil ...

Minutes of Access Grid meeting, 28 Feb 2003 Attendees EBI: Peter Rice, Alan Robinson Manchester: Mark Greenwood, Phil Lord, Nick Sharman, Chris Wroe Newcastle: Peter ...

Minutes of Access Grid meeting, 28 Mar 2003 Attendees EBI: Alan Robinson Manchester: Nedim Alpdemir, Chris Garwood, Carole Goble, Mark Greenwood, Phil Lord, Nick ...

Minutes of myGrid meetings over Access Grid AccessGrid14Feb2003: Scenarios, service interactions the information model NickSharman 14 Feb 2003 ...

Archived Presentations RichCawley 04 Dec 2003

Acknowledgements The myGrid acknowledgements. Please make sure this list is updated before you include it in your productions. Pioneers: Hannah Tipney, May Tassabehji ...

UseCase: AddNewService UseCaseDescription: A Service Provider wishes to make a new service available for use in myGrid by publishing their service in the ServiceDirectory ...

How to add a module to the Taverna build Create a pom for the module Add the module to the parent pom Check for conflicting dependencies Creating the ...

ScientificProblem: AffyMicroarrayExperiment ScientificGoal: The user wishes to identify genes whose expression is significantly altered in a 'sample' compared to ...

Access Grid Presentations AchivedPresentations: Archived Presentations RichCawley 27 Nov 2003

StianSoiland 23 Jun 2006

Gathering Annotation about Genes This demonstrates a walk through of two different approaches that biologists may take to answer the question, "Tell me everything ...

Data , Metadata Provenance in a Bioinformatics Setting As a means of thinking through some issues surrounding data, metadata provenance in a bioinformatics setting ...

A Proposal for a myGrid LabBook Scenario for IF 3 beyond. See also AlansLabBookStoryBoardWP6 for some additional WP6 comments inlined. ChrisGreenhalgh 11 Mar ...

A Proposal for a myGrid LabBook Scenario for IF 3 beyond. WP6 specific reflections on AlansLabBookStoryBoard. Priors: The story board: 1. I log onto the myGrid ...

Interaction matrix for myGrid components I have started a matrix showing possible interactions between myGrid components. Specifically, where one component in myGrid ...

Appproach 1: A ~Random Walk Through Web Pages following Hyperlinks In the first walk through, we're going to do an ~exhaustive crawl through links in bioinformatics ...

Approach 2: Targeted queries against specific resources In the previous demonstration, I was a user who had a handle on a gene from an Affymetrix chip, but didn't ...

UK e Science All Hands Meetings All Hands 2005 See: The AHM2005 Website for registration and submission details Papers allhands SRE.pdf: A Portal Interface ...

All Hands 2002 RichCawley 09 Dec 2002

UK e Science All Hands Meeting 2003 See The NeSC site appears unreliable, so copies of myGrid papers are at AllHands2003Local myGrid papers also at myGrid ...

Local copies of myGrid papers from AllHands2003 as people were often getting a not available response from the NeSC site. NeSC online CDROM http://www.nesc.ac.uk ...

Posters for All Hands 2003 See also AllHands2003. AllHands2003PosterTemplate.ppt: Template for myGrid posters at All Hands 2003 (the .pot file opens as garbage ...

The third UK e Science Programme All Hands Meeting (AHM 2004) See the AHM2004 website for date, location, registration and paper submission details. Please use this ...

Posters for All Hands 2004 See also AllHands2004. NickSharman 06 Jun 2005 Application A1 P.ppt: e Science lifecycle; WBS Graves applications (Powerpoint ...

Posters for All Hands 2005 Architecture A1 P.ppt: Architecture confusagram (Powerpoint) Architecture A1 P.pdf: Architecture confusagram (PDF) NickSharman ...

Test Scufl workflows for Ambit web service Brief outline of Scufl workflows and operations tested. All have default parameters using a Scufl string constant processor ...

UseCase: AnnotateWorkflowDefinitionInMIR UseCaseDescription: After constructing or editing a workflow definition, the user wants to annotate it with free text to ...

Anonymous CVS This is how to setup and run CVS on you machine. CVS is now transfered to a new secure machine. This is on cvs.mygrid.org.uk The machine is accessible ...

Anthill Build Server We use the Anthill/OS to automate our nightly component builds. See http://cvs.mygrid.info:8080/anthill/ for the current status of each component ...

Anthill Dependency We use the anthill build system to automate our nightly builds. The current dependency diagram we build off is RichCawley 07 Nov 2003

Antmerge We construct Ant build files using the Antmerge tool developed by PhilLord. Latest documentation Latest builds NickSharman 10 Nov 2004

Teleconference Meeting. 16th April 2002. Minutes of meeting. NS LM CAG AR RG Minutes KM. Apologies: BW 2. NeSc Planning Poster and flyers. Talk. Web site. Southampton ...

Teleconference Meeting on 23rd April 2002. Minutes of meeting RG LM NS AR BW Apologies CAG Minutes KM News from Sheffield Meeting commenced with Rob Gaizauskas ...

MyGrid Teleconference Meeting 30th April 2002 Minutes of Meeting CG AR LM RG NS Minutes: KM Apologies: CAG BW Previous actions 1.1 ACTION KM Contact Ursula ...

Monday 28th April 2003. Mercury room Minutes RS RC NS RMG CW CP CAG NA Minutes: KM ...

Planning Meeting. 12th April 2005. Minutes Nick Sharman Chris Wroe Minutes: Karon 1. Apologies. ...

myGrid Planning Meeting. Monday 15th April 2002. Minutes of meeting SB (Sean Bechhofer) RC (Richard Cawley) SP (Steve Pettifer) NS (Nick Sharman) RMG ...

AprilMinutes15: 15th April AprilMinutes30: 30th April RichCawley 27 Nov 2002

AprilMinutes07: 07th April AprilMinutes28: 28th April

AprilMinutes26: 26thMarch2004

AprilMinutes5th: 5th April 2005 AprilMinutes12th: 12th April 2005 AprilMinutes20th: 20th April 2005 AprilMinutes26th: 26th April 2005

Planning Meeting. 19th April 2005. Mercury room Minutes CAG NS PA KW Minutes: Karon 1. Apologies ...

Planning Meeting 26th April 2004. 10am, Mercury Minutes NS RS RMG PA(Pinar) RC DH (Duncan) PL CW AG NS CAG Minutes: KM 1. Apologies 2 ...

Planning Meeting. 26th April 2005. IT406 Minutes Carole Goble Nick Sharman Pinar Alper Chris Wroe Katy Wolstencroft Robert Stevens Minutes: Karon ...

Monday 28th April 2003 Mercury room Minutes RS RC NS RMG CW CP CAG NA Minutes: KM ...

myGrid Planning Meeting 30th April 2002 05 24 Minutes of meeting CW AR NS AF RC SP SB RS NA KM minutes Apologies CAG GGF5 in July. Carole wants a demo ...

Planning Meeting. 5th April 2005. Minutes CW CAG RS PL Peter (BIRN) 1. Apologies. Katy, Nedim. 2. Previous actions. 6.1 Action Robert/Nick. ...

MyGrid Investigators Telecon Tuesday 20th April 2004 ND (Neil Davis) MA TO (Tom Oinn) PW PR NS CAG Minutes: KM 1. Apologies RMG CG 2 ...

TeleConference Minutes AprTelMinutes16: 16th April Minutes AprTelMinutes23: 23th April Minutes AprTelMinutes30: 30th April Minutes RichCawley 23 ...

MyGrid Investigators teleconference. Tuesday 1st April 2003. CG (Chris Greenhalgh) PL (Peter Lee) RG (Rob Gaizauskas) AW (Anil Wipat) MA (Matthew Addis) ...

AprilTelMinutes20: 20th April Minutes

AprilTeleconMinutes12th: 12th April 2005 AprilTeleconMinutes26th: 26th April 2005

MyGrid Telecon 12th April 2005. Minutes Nick Sharman Paul Watson Luc Moreau Minutes: Karon ...

MyGrid Telecon 26th April 2005. Minutes Paul Watson Rob Gaizauskas Carole Goble Luc Moreau Nick Sharman Stef Egglestone Tom Oinn Minutes ...

CaroleGoble 27 Jan 2003 Confusagram Service Stack Version 2: ServiceStacks portraitconfusagramv2.ppt: Service Stack 27th January 2003

Assesment Workshops AllHands2003: All Hands 2003 EpsrcWorkshop2004: EPSRC 2004 NeSC meeting RichCawley 01 Mar 2004 myGrid UsersDay, 05 May 2005 ...

Attachment Trash Page TracyCraddock 10 Mar 2004

AugustMinutes5: 5th August RichCawley 27 Nov 2002

AugustMinutes: August2004

mygrid Planning Meeting. 5th August 2002 08 09 Minutes of meeting CW SB CAG NS Minutes KM Apologies: RS PL AR NA RMG Due to lack of participants ...

BASIS biological web services BASIS: Biology of Ageing e Science Integration and Simulation System WSDL Reference Not annotated for Feta

BBSRC Bioinformatics and e Science Grant Holder's Workshop, NeSC 04 Nov 2004 See http://www.nesc.ac.uk/action/esi/contribution.cfm?Title 465 . NeSC 041124 ...

Taverna Baclava Datastore Taverna can store inputs, intermediate data, and result objects of workflow runs in a SQL database via JDBC. They can subsequently retrieved ...

BiGuM Meeting 2001 RichCawley 09 Dec 2002

Page content. To be added

BioinformaticsWebServices provides information on some bioinformatic web services that are not specific to myGrid. MarkGreenwood 04 Feb 2003 AffyMapper service ...

Braunschweig biological web services Procaryotic Database of gene Regulation (PRODORIC) WSDL Descriptions Not annotated for Feta Prediction of signal peptides ...

Biological web services This document lists the appropriate links of all known biological web services. Its purpose is to provide a registry of all bio services that ...

BIND biological web services Biomolecular Interaction Network Database WSDL Reference Database no more public Annotated for Feta

Issues and Problems with Blast workflows BLASTN (Note all these tests were done using the TavernaScuflWorkbench version win32 0.1beta6 ) Test XLRHODOP XScufl file ...

Boca Installation See http://www.mygrid.org.uk/jira/browse/TAV 311

UseCase: BrowseDomainEntitiesInMIR UseCaseDescription: A user wishes to examine the Domain Entities in their MyGridInformationRepository (MIR) using the LabBook ...

UseCase: BrowseWorkflowDefinitionsInMIR UseCaseDescription: A user wishes to examine what workflow definitions they have in their MyGridInformationRepository (MIR ...

Build Resources The following resources are available to help in the setup of the build process for each package ModuleBuild: Design and layout of build scripts ...

Please note that this is not the normative version. This is in CVS #47;mygrid #47;doc #47;developer #47;build #47;build.html A build specification for myGrid ...

Building Taverna from source code The best way to build Taverna from source code is to fetch our latest version from CVS and build it using Maven. Quick summary of ...

Capability Set Sections This is a working document to determine the different sections/scenarios that should be covered by the Capability set for myGrid. this set ...

LucMoreau 17 Jan 2003

on going

on going...

Chris Greenhalgh's Speculations on Provenace and Metadata Following the AG meeting today (29 Nov 2002)... Current state (29 Nov 2002) We currently have two (tending ...

Rebuilding the MIR build build.xml antmerge n persrepository in.xml m default add an MIR.properties file in .ant of your home directory. Mine looks like: tomcat ...

ChrisWroe 06 May 2003 The semantic descriptions can get complicated very quickly. Therefore I'm going to try and list all the type matching scenarios in which this ...

FreeTextCase: ColdCarp Case Description: Cold Carp: DNA Chips in a pre genomic environment See Cold Carp.doc: Notes: type here Discussion: type here ...

myGrid Service Interaction: Collaboration of Biologists Coordinated Using Notifications RA Responsible: Victor Tan Date Created 06/03/03 ...

Community Intelligence ScratchPad This page is deisnged to collect information on our users/related projects. Please add to this list at will. It's a temporary collection ...

Documentation for myGrid Components This page describes the minimal documentation requirements for each myGrid component. Documentation file organization Documentation ...

NickSharman 21 Mar 2003

CVS Setup This is how to setup and run CVS on you machine. CVS is now transfered to a new secure machine. This is on cvs.mygrid.info. This machine is now running ssh ...

These are test workflows, which can be used to check that a workflow enactment engine can communicate with web services at a particular location. For each workflow ...

SimonMiles 27 Feb 2003 The myGrid framework is a component model for flexible, simple and future proof deployment and use of services on the Grid. The framework aims ...

UseCase: CreateNewExperiment UseCaseDescription: A user wishes to perform an in silico experiment using myGrid which is work that is part of a project. A new experiment ...

UseCase: CreateNewProject UseCaseDescription: A user has been given a new project to work on which will involve using myGrid. A project work context needs to be ...

UseCase: CreateNewWorkflow UseCaseDescription: A user wishes to create a new WorkFlow PrimaryActor: Biologist or Bioinformatician OtherActors: type here (see ...

A description of how the problem is currently solved by the scientist of the type PrimaryActor. AnilWipat 05 Jan 2003

DDBJ biological web services DNA Data Bank of Japan (DDBJ) Service list and WSDL files References Annotated for Feta

Page content. To be added

How are we going to identify the formats in which data is represented? XMLSchema URI LSID's (LSID developers want to assign LSID's to formats as well as ...

LogBook DataLineage DataLineage is a visualisation component added to LogBook version 1.2.4. It allows to: display the data derivation graph of a workflow run ...

Sets or subsets of data. May be from external databases or from the myGrid information repository. AnilWipat 05 Jan 2003

DataStorage Overview Many communities have existing databases. They may wish to access these databases from workflows and/or store values computed within workflowas ...

Database Update Notification NedimAlpdemir 23 Jan 2003

MyGrid Planning meeting. Monday 1st December 2003. Minutes RC NS CW NS NWP NA PL 1. Apologies CAG RMG 2. Previous minutes and matters ...

Planning meeting. 7th December 2004. Minutes CW NWP KW NS PA PL CAG Minutes KM 1. Apologies. RS NA 2. Previous meeting minutes (30th November ...

MyGrid Planning meeting. Monday 8th December 2003. Minutes RMG NS PP CAG NA RC PL CW RS Minutes KM. 1. Apologies NWP 2. Previous minutes ...

Planning agenda. 14th December 2004. Minutes NA KW PA NS NWP Minutes: KM 1. Apologies ...

MyGrid Planning meeting. Monday 15th December 2003. Minutes CW RS PL NS RMG DH CAG Minutes: KM 1. Apologies NA 2. Previous minutes and ...

Investigators Meeting, myGrid. Tuesday 17th December 2002. 2pm AG Minutes Southampton: LM MA Sheffield: ND Nottingham CG Manchester NS CAG Cambridge AR 1. Apologies ...

myGrid Planning meeting on Monday 2nd December 2002. Minutes of meeting. RS RC NS RMG PL CP NA SB MC CAG Minutes KM 1. Apologies: CW 2. Previous ...

DecemberMinutes2: 2nd December DecemberMinutes9: 9th December DecemberMinutes17: 17th December

DecemberMinutes01: 1stDecember2003 DecemberMinutes08: 8thDecember2003 DecemberMinutes15: 15thDecember2003

DecemberMinutes07: 7th December2004 DecemberMinutes14: 14th December2004

myGrid Planning meeting on Monday 9th December 2002. Minutes RS NS RMG CW CP CAG RC MC LJM (Laurent JeanMeure) 1. Apologies PL NA SB 2. Previous minutes and matters ...

Management Telecon, 9th December 2003 Minutes RMG NS RG LM MA PW CAG Minutes: KM ...

DecemberTelMinutes09: 09th December Minutes

DecemberTeleconMinutes14: 14th December 2004

MyGrid Telecon. Tuesday 14th December 2004. Paul Watson Neil Davis Nick Sharman Luc Moreau Minutes KM 1. Apologies Chris Greenhalgh, Carole Goble ...

This page is now out of date. MarkGreenwood 30 Apr 2004 Information relates to an early myGrid prototype, last updated MarkGreenwood 04 Dec 2002 How is myGrid ...

Deployment Architecture This section illustrates and discusses the current (myGrid 0.6) deployment architecture, in terms of the principal software components. ...

Desktop Integration Options i.e. how/where can bits of new (myGrid) functionality creep onto the biologists/bioinformaticians desktop (and other parts of their working ...

Current Development Status We are currently developing what will be the second version of myGrid to be made available outside the project. myGrid is an open source ...

myGrid Developers Day 6 May 2005 See Developers Day page on main website. See also UsersDay topic Review of phase 1 Carole Goble DevDayIntroduction CAG.ppt ...

The degree of stability and to which tests have been conducted for the pieces of functionality developed for this use case by July. We use 'thorough' to state that ...

The smaller demands on the development of each component involved, as required for the use case to be achievable. SimonMiles 19 Feb 2003

A service based Distributed Query Processor based on OGSA and OGSA DAI architectures The Grid is an emerging infrastructure that supports the discovery, access and ...

Document Store PresentationStore: Presentations PapersStore: Papers VideoStore: Video Demos MinutesStore: Minutes of meetings PlansStore: ...

Document Templates Templates for Microsoft Word (.dot) and PowerPoint (.pot). These work best if you download them to your own machine. NickSharman 24 Jan 2003 ...

Any important assumptions about the domain that you made when writing this use case. AnilWipat 05 Jan 2003

EMBL EBI biological web services Overview EBI Web Services WSDL list References Not annotated for Feta Soaplab Service list and WSDL files References ...

EMBL EBI biological web services Overview EBI Web Services WSDL list References Not yet annotated for Feta

EMBL EBI biological web services Overview EBI Web Services WSDL list References Not yet annotated for Feta

2nd Meeting of the EPSRC Pilot Projects This page contains presentations, papers, posters, videos, ... to support our presence at this meeting. Where: NeSC e ...

Posters for EPSRC e Science Meeting 2004 DQP posterEDBT 2 A1.ppt: OGSA DQP (Powerpoint) DQP posterEDBT 2 A1.pdf: OGSA DQP (PDF) EPSRC 040325 InfoModel ...

EPSRCeScience2007Posters Based on the WWDC2006Posters template, Franck with some help from Stian prepared a poster for the EPSRC eScience project in Edinburgh at 2007 ...

eScience Images RichCawley 09 Dec 2002

The myGrid e Science Layer has the following objectives: To isolate the end user (and client software) from the detailed operations and interactions of the core ...

The myGrid e Science Mediator The myGrid e Science Mediator is inteneded to fulfil two roles in the myGrid architecture: an Integration Broker to enable seamless ...

A brief overview regarding provenance from the EBI's perspective We take the viewpoint of why a scientist wants to store use provenance with some real use cases ...

Eclipse settings Taverna project properties Right click on the Taverna project, select properties (normally at the bottom of the list). Pick "Java Build Path". Select ...

UseCase: EditWorkflowDefinition UseCaseDescription: A user wants to use a workflow definition from their MyGridInformationRepository (MIR) in an in silico experiment ...

EMBL EBI RichCawley 09 Dec 2002

EMBOSS Provenance Example An e scientist looks at a value within the myGrid information repository (MIR) and wonders: Where did this come from? (Do I really ...

EmbossProvenanceExample describes the provenance record of a particular invocation of the ExampleEmbossWorkflow. This workflow ( emboss if2.wsfl ) was later ammened ...

The following simple examples provide examples of using the Emboss web services. testseqret.wsfl: edit seqret from soaplab ( testseqretsum.wsfl summary view of ...

The result that is provided to an actor by the system. Also see the AstroGrid definition. AnilWipat 05 Jan 2003