Otago vre-overview
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RESEARCHER PRODUCTIVITYOpen source code base platform built on top of SharePoint 2010 features.
OTAGO VREVIRTUAL RESEARCH ENVIRONMENT
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Otago VRE
Authoring
Data DepositData Management
Data Visualization
Data Analysis Data Sharing
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DATA MANAGEMENT
Otago-VRE
Project Trident
Integrated Workflow Experience
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Share workflows via
Project Trident - a Scientific Workflow Workbench
Author, Execute and Monitor Workflows
Version 1.2 (Open Source under Apache 2.0 License):http://tridentworkflow.codeplex.com/
Compose and modify workflows via drag & drop canvas
View data products, performance metrics, and provenance data
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Integrated Workflow Experience
researchers can…• View/execute/monitor workflows within the
context of project collaboration site• Receive alerts (email, SMS) when workflows
complete• Browse workflow execution history and
provenance information• Review/store/manage data files that are written
back into SharePoint by Trident
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AUTHORINGInclude Data and Data artifacts in compound documents
Otago-VRE
Project Trident
Word 2010
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Article Authoring Add-in for Word
v.2 beta 3:http://research.microsoft.com/authoring/
ORE Resource Map creation
Read, convert, and author NLM XML documents
Repository deposit via SWORD
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DATA DEPOSITSWORD client
Otago-VRE
Project Trident Zentity
Word 2010
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Zentity - a Research Output Repository Platform
v.1 (v.2 Tech Preview available soon!) :http://research.microsoft.com/zentity/
A semantic computing platform to store and expose relationships between digital assets
Flexible data model enables many scenarios and can be easily extended over time
Native support for RSS, OAI-PMH, OAI-ORE, AtomPub and SWORD
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SWORD client
researchers can…• Select any file:
• Document• Presentation• Image• Data files
• and publish it to any repository (via SWORD)
• SWORD endpoints are managed as a custom list, so new locations are easily added
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Archive this file in Repository X
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DATA ANALYSISthrough Excel 2010
Otago-VRE
Project Trident Zentity
Word 2010
Excel 2010
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Metagenomicsselects DBs andinput sequence
Web Role Input Splitter
Worker Role
BLASTExecutionWorker Role #n…
.
CombinerWorker Role
GenomeDB 1
Genome
DB K
BLAST DBConfiguration
Azure Blob Storage
BLASTExecutionWorker
Role #1
Using Azure cloud to host standard sequence dataRun BLAST in parallel “map reduce” style for a large collection inputUse Excel-based tool to search databases.
• Performance: speedup
• 45x with 50 roles; 94x with 100 roles;
• with 300 roles computation time is reduced to 4 hours !
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DATA SHARING OData Protocol
Otago-VRE
Project Trident Zentity
Word 2010
Excel 2010 OData
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A RESTful Interface for Data
Just HTTP• Items as resources, HTTP methods (GET, PUT, …) to act• Leverage proxies, authentication, ETags, …
Uniform URL convention• Every piece of information is addressable• Predictable and flexible URL syntax
Multiple representations• Use regular HTTP content-type negotiation• JSON and Atom (full AtomPub support)
http://www.odata.org
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OData Producers• SharePoint 2010• IBM Websphere• Windows Azure Table Storage &
SQL Azure• Zentity 2.0
• Services:– Facebook Insights– Netflix– Open Government Data Initiative– Open Science Data Initiative– DBPedia
OData Consumers• Web Browsers• Excel 2010• LinQPad
• Client libraries for– Javascript– PHP– Java– Windows 7 Phone– iPhone (Objective C)– .NET
http://www.odata.org
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Otago VRE
Project Trident Zentity
Word 2010 Pivot
Excel 2010 OData
VISUALIZING DATA
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http://www.getpivot.com
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Federated Search Experience
• HTML to XML convertor• Open Search• OAI-PMH• OCLC• OData source• Extensibility for custom adapters