Defrag 2014 - Blend Web IDEs, Open Source and PaaS to Create and Deploy APIs
Open e-Infrastructure capabilities to enhance Biodiversity ... · EUBrazilOpenBio? Combining...
Transcript of Open e-Infrastructure capabilities to enhance Biodiversity ... · EUBrazilOpenBio? Combining...
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