Open e-Infrastructure capabilities to enhance Biodiversity community research

Rosa M. Badia Barcelona Supercomputing Center

Further EU-Brazil collaboration in support of

the biodiversity area & infrastructures

Computing resources & SW platforms

EU-Brazil OpenBio

EU & Brazilian biodiversity scientific communities Data and resource managers & Open Access community European & Brazilian policy and funding bodies

Who will benefit from EUBrazilOpenBio?

Combining Biodiversity Science and the Open Access Movement to deploy a joint European and Brazilian e-Infrastructure of open

access resources supporting the needs of the

biodiversity scientific community.

Two biodiversity use cases

EU-Brazil Open Data and Cloud Computing e-Infrastructure for Biodiversity

The Partnership

BSC, Spain

CRIA, SP

CNR-ISTI, Italy UFF, RJ

Trust-IT, UK

UPVLC, Spain

SP2000, UK

CESAR, PE

RNP, RJ

A well-balanced effort of

European and Brazilian organisations

Communication and Policies

EuBrazil Consortium and roles

e-Infrastructure Services

e-Infrastructure Resources

Biodiversity Applications

UPVLC BSC CNR UFF

CRIA SP200

Trust-IT

CESAR

RNP

Use Cases & e-infrastructure

• Use case I – Integration between Regional & Global Taxonomies

– Cross-map the regional List of Species of Brazilian Flora with the Global Catalogue of Life

• Use Case II – Data usability and the use of ecological niche modelling

– Use of openModeller in a distributed environment to run the models

• Open Access project e-Infrastructure – Research resources (HW, SW, Data) can be shared and exploited on-

demand

– Integration of resources from Brazil and Europe

e-Infrastructure timeline

Release 1.0 Release 2.0 Release 3.0 Release 4.0

Test

bed

Connection of the partners resources and deployment of gCube hosting nodes

Initial OpenBio services in D4Science Infrastructure

Deployment of species mediator service to access to data from multiple possible sources

Deployment of the Gateway

Test

bed

Integration with VENUS-C

Integration with Condor

Implementation of Species Lab VREs for the scenarios

Installation of use cases tools for profiling and analysis

Pro

du

ctio

n

Use cases fully operational

GUI in the VRE for use cases designed and deployed P

rod

uct

ion

Improved infrastructure and services through users feedback

Wider accessibility and interoperability

Development and deployment of services for accessing Environmental data

Enlarge the array of facilities hosted

The EuBrazil OpenBio infrastructure

• A portal to enter to a Virtual Research Environment for Biodiversity.

• User local data, shared biodiversity services, transparent access to the resources.

Become part of our Community • Learn about how Biodiversity scientists

can benefit from cloud applications

• Watch exclusive videos & interviews from Biodiversity & computing experts

• Create your own personal space & receive content that will interest you

• Find out more about the cutting edge technologies in OpenBio

• Meet & interact with other community members online by commenting on articles and videos

• Receive Regular news and updates including eNewsletters

• Access the EUBrazilOpenBio Gateway and access our tools and services

twitter.com/EUBrazilOpenBio

linkedin.com/in/eubrazilopenbio

www.eubrazilopenbio.eu

Follow us on….

Sewing the seeds…

On the Road

• 8th International Conference on Ecological Informatics 2012 – Brasilea, 3-7 December 2012

• Cloudscape V – Cloud Computing workshop – Brussels, Belgium, 27-28 February 2013

• International Conference on Computational Science, Barcelona, Spain, 5-7 June 2013

Mirabilis jalapa (The 4 o'clock flower or marvel of Peru)

Coming soon – Online Training

Web based training, Virtual classrooms and Video lessons for…

• Biodiversity scientists to discover how to use EUBrazilOpenBio tools and services to get the best results from your data

• Biodiversity application developers to find out how to adapt their sources and tools to the EUBrazilOpenBio eInfrastructure

The training programme

General Public Biologists Application developers

Infrastructure providers

OpenBio e-

Infrastructure

essentials

Biodiversity

maps with

the Ecological

Niche

Modelling in

OpenBio

Biodiversity

maps with

openModeller

in OpenBio

Accessing

data from

taxonomic

checklists in

OpenBio

Adapting

applications

to the

OpenBio –

data

Adapting

applications

to the

OpenBio -

processes

Deploying an

OpenBio

node

Objective of

EuBrazil

OpenBio; Use

Cases;

Information

Resources;

Software

Architecture;

Expected /

actual results;

Contact points

Use Case presentations; Brief architecture

description; accessing the infrastructure; accessing

the use case tools (ENM / OpenModeller Xmapping

tool); Taxonomica data available in EuBrazil OpenBio;

interface to taxonomic data sources; real working

example.

Insight of the Software

architecture; data access; local

data management, execution

enactment. Example case;

procedure to adapt and deploy

your own application.

Requisites

(hardware /

software);

overview of the

architecture;

software

packages and

documentation;

setting-up

infrastructure;

testing examples.

Early Training material

• OpenBio e-Infrastructure essentials

– Three power-point presentations covering the basic concepts, technical details and use cases.

– Targeting application developers – technical content; and biodiversity scientist – use cases and benefits.

• Four “test” students (two technical and two from biodiversity) will check the material.

Socio-economic study

• Analyse the current state-of-the-art in EU, Brazil and USA – Define the current baseline of using open data access and Cloud Computing in

Biodiversity area in Brazil and EU

– Compare the extent of use of Cloud technologies in Biodiversity area with other application areas

• Analyse the impact of the project towards the project end and compare with the baseline

• Assess use case methodology impact on Biodiversity research community in Brazil & EU

• Feed the results to the Joint Action Plan

• First analysis based on state-of-the-art documents

• Survey to be designed and distributed soon

Session organization

• EUBrazilOpenBio – Open e-Infrastructure capabilities to enhance Biodiversity community research, Rosa M. Badia (BSC)

• Efficient Ecological Niche Modelling, Renato De Giovanni (CRIA)

• Integrated Global & Regional Taxonomies, Alex Gray (Species2000)

• The technologies behind EUBrazilOpenBio services & tools, Leonardo Candela (CNR)

The EUBrazilOpenBio e-Infrastructure will result from the federation and integration of existing EU and Brazilian infrastructures and resources