TDWG EDIT Platform for Cybertaxonomy – An Overview Andreas Müller, Andreas Kohlbecker, Pepe...

TDWG

EDIT Platform for Cybertaxonomy – An Overview

Andreas Müller, Andreas Kohlbecker, Pepe Ciardelli, Julius Welby, Pere Roca, Niels Hoffmann, Patricia Kelbert, Lutz Suhrbier and Edit co-workers

Conference 2008

Andreas Müller, Botanical Garden Botanic Museum Berlin, TDWG 2008

What’s that ??

Platform

for

Cybertaxonomy

Taxonomy, Computer, Web

… taxonomist


Platform

Train platform

(station)

Travel faster

Trains (tools)

Trac system

Adapter

Cache machine

Bookshop

McDonalds

Photoshop

Show it

Feedback Police

don’t loose anything

Timetable

reusable


Platform Architecture

YES• Independent components (desktop or web applications or

services for machines) • Old (existing) & new developments • Service oriented (SOA)• Adaptable to individual institutional IT preconditions• Gradual migration • Adaptable to new challenges

NO• Monolithic, single user interface application• Everything new


Platform Components


Data Domain

ABCD, DC, wmf, wfs TCS SDD

?

ABCD, DC

• No common standard/model exists


Common Data Model (CDM)

• New development• Covering all relevant

areas• Leans on existing

standards/ models (TCS, SDD, TDWG Ontology, Berlin Model, …)

• Exchange format• Expandabel

http://wp5.e-taxonomy.eu/cdm/v1/


CDM Library

• To access, persist & query CDM data

• Database independent

• Includes taxonomic business logic (Parsing, Validation,…)

• JAVA / Hibernate / Spring / Eclipse

• Local and remote API (Web Services)

• Bulk import/export

• Collaboration with other projects (e.g. CATE)

IO

(Bulk) Import/ Export


New Platform Components


http://search.biocase.org/edit

Patricia Kelbert, BGBM

Uses GBIF dataAdvanced search by using taxonomic thesauriLarger resultHigh quality result

Specimen and Observation Explorer for Taxonomists


Geo Services

Online GIS Client & Map services

Taxonomically relevant layers

Multi species symbolization

Occurrence points

Distribution per region presence/absence

Publication ready quality

…

http://edit.csic.es/edit_geo/prototype/edit_project.htmlPere Roca, CSIC, Madrid; Frank Theeten, RMCA, Tervuren


ViTaL - Virtual Taxonomic Library

Meta Data Search (MetaLib)

OpenURL (SFX)

Harvester for known data sources (Falx)

Web UI & Web Service


Single Sign-On (Shibboleth)

EDIT Federation

Shibboleth Proxy


Drupal basedconfiguration

themeing

Data from CDM via web-service

Taxonomic treemultiple trees

filter

flattening

On-the-fly maps from GeoServer

…

Dataportals


Taxonomic Editor

Freetext ~ Word

↔ forms

Nameparser

Copy & Paste

Drag & Drop

Eclipse RCP

Warning & Errors

…

http://dev.e-taxonomy.eu/trac/wiki/TaxonomicEditorPepe Ciardelli, BGBM, Berlin


Descriptive Data

Use existing Tools

SDD import/export functionalities for the Common Data Model

Problem with different dialects

Elise Kunzelmann, Hélène Fradin; MNHN; Paris


Other Tools

http://www.bdtracker.net/


EDIT Platform Cybergate


Integrated Workflow (Example)

CDMCDM

CDM ServerCDM Server

Geo-server

Geo-server

Data-portal- Drupal

VitalVital

BCIBCI

DeltaLucidExpert²

Tax Editor

uBiouBioSpObET


Where are we ?

DONE– CDM v1.0 (v1.3)– CDM Library (v1.3)– Pilot implementations

• ViTaL, MapViewer, GeoService,Editor, Dataportals, Shibboleth, Taxonomic Editor

– Specimen & Observation Explorer is ready

TODOs: – Import-/Export– Cybergate– Tools: Full functionality– CDM / Library: Roles, Versioning, (Synchronisation)– Feedback from users


Thank you !

TDWG EDIT Platform for Cybertaxonomy – An Overview Andreas Müller, Andreas Kohlbecker, Pepe...

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