ViBRANT: linking communities and services

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V irtual Biodiversity V iBRANT SEVENTH FRAMEWORK PROGRAMME -infrastructure ViBRANT: linking communities and services Dave Roberts, Simon Rycroft & Vince Smith

description

Roberts, D and Smith, VS. 2011. ViBRANT: linking communities and services. TDWG 2011 Annual Conference, at the Astor Crown Plaza Hotel, New Orleans, Louisiana, USA. 16 - 21st October 2011.

Transcript of ViBRANT: linking communities and services

Page 1: ViBRANT: linking communities and services

Virtual BiodiversityViBRANT

SEVENTH FRAMEWORK PROGRAMME -infrastructure

ViBRANT: linking communities and servicesDave Roberts, Simon Rycroft & Vince Smith

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Virtual BiodiversityViBRANT

-infrastructureSEVENTH FRAMEWORK PROGRAMME

ESFRI

Life

Wat

chE

LIX

IRE

MB

RC

E Journal

Occurrence &vocabulary tools

Community Data Platform

AggregationPortal

Standards

EU projects

Pre-ViBRANT landscapeComplexFragmented

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Virtual BiodiversityViBRANT

-infrastructureSEVENTH FRAMEWORK PROGRAMME

ESFRI

biowikifarm

Life

Wat

ch(P

roto

type

ser

vice

cen

tre)

ELI

XIR

(EB

I met

adat

a se

rvic

es)

EM

BR

C (

Sup

port

for m

arin

e re

sear

ch c

omm

uniti

es)

Post-ViBRANT landscapeINTEGRATED

SUPPORT

Sup

port

Ser

vice

s (h

elp

desk

s, c

ours

es, n

etw

orki

ng)

Soc

iolo

gica

l res

earc

h &

feed

back

Code compliant e-publishingfrom Scratchpads

Mirroring & load balancing, phylogenetic& ID services, literature servicesOccurrence & vocab.

data publishingIntegration & networking

Aggregation portal, gap analysis,quality control, API data services

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Virtual BiodiversityViBRANT

-infrastructureSEVENTH FRAMEWORK PROGRAMME

More reliable & sustainable (e.g., distribute the servers, simple administration, distribute developers, development sandbox)

More functional (e.g., phylogenetic & publication services) Easier to use (better workflows)Prettier (better graphical design - more intuitive)More integrated (for data stored inside & outside the Scratchpad framework)

“making the Scratchpads better”

“making natural history better”Easier to compile, manage and reuse your dataEasier to find and reuse other peoples data Promoting your data inside & outside the taxonomic communityGetting people to work for you (crowdsourcing)

“overall objective” to increase the mobility of data and to make use of shared web resources wherever possible using the Scratchpads as a hub to link a community's data with a range of services.

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Virtual BiodiversityViBRANT

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SitesUsers

2007 2008 2009 2010 2011

350

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50

0

5000

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3000

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0

Active Users

Virtual machine hosted on VMWare vSphere 48GB RamIntel Xeon E5630 (4 x Cores)260GB of StorageTivoli Backup every 24 hoursDebian 6.0.3PHP - 5.3.3MySQL - 5.1.49Apache - 2.2.16

Nodes: 390,092 on 14 Oct 2011

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Virtual BiodiversityViBRANT

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Magic

Your data Your web site

A website for you & your community

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Virtual BiodiversityViBRANT

-infrastructureSEVENTH FRAMEWORK PROGRAMME

irtual Biodiversity

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Virtual BiodiversityViBRANT

-infrastructureSEVENTH FRAMEWORK PROGRAMME

Can we use web data to identify the range of audiences for the Scratchpads?**

** Data presented at Altmetrics workshop of the ACM WebSci ‘11

* Average time on site >4 sec.

Myspecies.info (1 Oct 10 - 31 Mar 11) Number %All ISPs* 9212 100ISPs* excluding commercial providers 2316 25

Categories of ISPs Number %Research/Education/R&D 1933 83Government 204 9Company 50 2Non-profit 41 2Health 39 2Art/culture/media/publishing 25 1Travel 23 1Other 1 0.04

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Virtual BiodiversityViBRANT

-infrastructureSEVENTH FRAMEWORK PROGRAMME

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Virtual BiodiversityViBRANT

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EDITEuropean

Distributed Institute ofTaxonomy

Mark up, publication, dissemination and use of taxonomic information

NEW PUBLICATIONS | LEGACY LITERATURE (FLORAS, FAUNAS)

TaXMLit XML schema TaxonX XML schemaPLAZI’ GOLDEN GATE

TaxPub XML schemaPENSOFT MARK UP tool

Automated submission; peer-review

Marked up publicationsPDF, HTML and XML

Unified marked up final outputTaxon treatments, keys, images, localities

EndUser

Electronic archives; Data centers

Indexing(IPNI, ZooBank,

MycoBank, GNA)

Aggregators (EOL, GBIF,

PLAZI)

WIKIsSpecies-ID, biowikifarm,Wikispecies,Wikipedia

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Virtual BiodiversityViBRANT

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irtual Biodiversity

http://www.gopetition.com/petitions/support-the-hellenic-centre-for-marine-research-hcmr.html

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Virtual BiodiversityViBRANT

-infrastructureSEVENTH FRAMEWORK PROGRAMME

Oxford Batch Operations Enginehttps://oboe.oerc.ox.ac.uk/

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Virtual BiodiversityViBRANT

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Nexus

DwCA

CSV/tab

Newick

EoL Transfer schema (SPM) XML

SDD, Lucid, Nexus

RDF

Taxonomic Concept Schema XML

Excel file

CSV, XLS, Microsoft Word .DOC, TXT

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Virtual BiodiversityViBRANT

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Citation and credit

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Virtual BiodiversityViBRANT

-infrastructureSEVENTH FRAMEWORK PROGRAMME

Thank you for your attention.

Any questions

http://vbrant.eu http://scratchpads.eu

e-mail: [email protected]