ecogrid: from field observation to spatial knowledge 5 april 2005 floris sluiter computational bio-...
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Ecogrid: from Field Observation to Spatial Knowledge
5 April 2005Floris Sluiter Computational Bio- and Physical Geography, UvA
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Sub Program 1.4 of the VL-e program
Two projects on biodiversity:• Bambas
– Parameter Optimization and Data Assimilation in Bird Avoidance Models
• Ecogrid– The topic of today
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Co-workers:
• Willem Bouten, chair CBPG• Guido van Reenen, CBPG (Analysis Data Model)• Floris Sluiter, CBPG (Design & Implementation)
VOFF (10 nature organizations)• Victor Mensing, Vlinderstichting• Dirk Zoetebier, Sovon
Special Thanks to:• Aart Jan van der Linden, Talmon Communications
(portal prototype implementation)
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Overview
• Ecogrid Aims • Example: Red-backed Shrikes• Data Acquisition• Spatial databases• Ecogrid System Overview• Working Prototype:
– Data Acquisition Portal– Science/Analysis Portal
• Remarks & Questions
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Ecogrid: the Aims SP1.4
• Construct a virtual database that is connected to geographically distributed databases which contain information on the distributions of species, on landscape characteristics and on weather.
• Develop generic methodologies and toolsfor scale conversions, to be able to integrate and interpret data that are observed at different spatial scales.
• Use this infrastructure across the boundaries of organizations to identify:– Spatial food web structures– Biodiversity hotspots– Effects of changed land use.
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Example: Insect diversity and Red-backed Shrikes
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Data Acquisition
The Netherlands has one of the worlds most extensive and densest networks for collecting data on the spatial and temporal distributions of flora and fauna
Spreadsheets/’databases’Notebook
Biologist
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Data Acquisition (continued)
• Combine biological data with data on– Weather & Climate data– Landscape characteristics
• Land use• Soil• Vector maps of roads/cities and other infrastucture• Vegetation• …
Some of these datasets we will host ourselves, others we will connect to through web services
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Spatial databases:Geographic Information Systems (GIS)
• Spatial functions to query (SQL) within and across layers:– Equals()– Disjoint()– Intersects()– Touches()– Crosses()– Within()– Contains()– Overlaps()
• Special indexing techniques (GisT)‘Layers’ build with
these data types, stored as tables inPostgreSQL/PostGIS.
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Ecogrid system: overview
Sovon
Vlinder-stichting
Data Acquisition
PortalLandscape
Weather
EcogridVirtual Meta
Database
Scale conversionModules
Geostatistics
. . . . . . . .
Data miningmodules
Processed data
Model Experiments
Spotfire
VL-eScience Research Environment
BAMBASDatabase
SciencePortal
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Ecogrid system: Prototype
Sovon
Vlinder-stichting
Data Acquisition
PortalLandscape
Weather
EcogridVirtual Meta
Database
Scale conversionModules
Geostatistics
. . . . . . . .
Data miningmodules
Processed data
Model Experiments
Spotfire
VL-eScience Research Environment
BAMBASDatabase
SciencePortal
TaxonomyFenology
Codes
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Ecogrid: Portal Prototype
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Ecogrid: Portal Prototype
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Ecogrid: Portal Prototype
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Ecogrid: Portal Prototype
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Ecogrid: Portal Prototype
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Concluding Remarks
• PostgreSQL (and Postgis) are especially suited for large scientific databases
• 12 April we will present the prototype to all the partners in this project
• By the end of the year all the databases will be filled and we will have online data aqcuisition.
• Then we will shift our focus on using the data and concentrate on Analysis and Datamining
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http://www.vl-e.nl/
Questions?