centro de referência em informação ambiental, cria dora ann lange canhos march, 2007

Centro de Referência em Informação Ambiental, CRIA

Dora Ann Lange Canhos

March, 2007

mapcria web service

openModeller

Incofish & CRIA

it is a web service developed by CRIA to facilitate the implementation of web applications that require the dynamic production of maps

It uses the University of Minnesota MapServer C library, MapScript wrap for Perl, v4.2.0 [ http://mapserver.gis.umn.edu ]; developed in Perl v5.8.0; Available as a SOAP server

Allows multiple simultaneous jobs

Accepts local files as well as available via WMS (Web Map Service)

Provides several functions to maintain interaction

mapcria web service

mapcriamapcria

files

mapfile

wms

CGIapplication

CGIapplication

drawpolygons

drawpoints

drawlines

dbqueries

draw()

User clicks on a web page link that calls a CGI application

The CGI creates an XML file that describes the map to be

produced.

The XML file is sent to the mapcria web service using a SOAP connection

layers are loaded according to the definitions on a specific mapfile.

Returns a ticket to the caller application

get_image(ticket)

The application requests the newly created map image.

The server delivers the requested image

The requested elements are drawn on the map.

mapcria web service basic use

mapcriamapcria

CGIapplication

CGIapplication

The service performs the required zoom on the map

zoom_rectangle(ticket)

get_image(ticket)

The application requests a zoom and the resulting image.

The server delivers the requested zoomed image

The user selects an area to zoom in

mapcria web service basic use

is a set of general purpose CGI Perl scripts that implement the basic functionalities required for the visualization of (and interaction with) maps produced by the mapcria web service.

Once a map is initialized on the server, the mapcria viewer takes control of the job of providing the user with tools to continue the interaction with the server.

The basic tools provided by the viewer are:

Zoom In and Out

Panning

Reference map window

Layers on / off panel

Active layers window

Plug-in to search a database based on selected coordinates *

Plug-in to search a database to find points to be plotted on the map *

User help information window

Standard page generation for printing

Multi-language interface

* requires special applications according to the system

mapcria viewer

mapcriamapcria

CGIapplication

CGIapplication

The application starts the mapcria viewer passing the ticket as a parameter.

The CGI creates an XML file that describes the map to be

produced.

The XML file is sent to the mapcria web service

Returns a ticket

mapcriaviewer

mapcriaviewer

The mapcria viewer takes control of the job and provides an interface with the commonly used functions.

Map viewer window

Layers control window

Reference map window

Active layers window

Database search window *Symbols select window *

User help window

Printable page

mapcria web service used with the mapcria viewer

Some applicationsSome applications

• geoLoc

• spOutlier

• speciesMapper

• data cleaning

About geoLoc

to assist biological collections in geo-referencing their data

the database includes approximately 110 thousand names of Brazilian localities, obtained from:

Brazilian Institute of National Statistics and Geography (IBGE) GEOnet Names Server (GNS) speciesLink/Fapesp

algorithm based on concepts in the Egaz program (Shattuck 1997) capable of calculating a coordinate for a distance and direction

ToolsTools

26 Noroeste-NW

Campinas São Paulo

ToolsTools

About spOutlier

to assist biological collections in identifying possible suspect points in existing records

uses techniques modified from Chapman 1999 to detect outliers in latitude, longitude and altitude

allows users to indicate their data set as either terrestrial or marine

useful to biologists around the world who wish to identify possible errors in their data

1, -63.25, -4.916666667, 7952, -67.05, -10.96666667, 8053, -68.0125, -12.66666667, 8094, -68.75, -13.60111111, 8155, -68.9102, -13.83333, 8106, -72.3666, -14.36611111, 7907, -78.3166, -14.38916667, 8018, -72.137, -11.8647, 700

marine

Plot georeferenced points on a map.

Available layers:

-World-South and Central America-Brazil-São Paulo State

-95.6 -39.5166-70.2833 -4.2 -70.033333 -4.35 -69.914889 0.274694 -69.7333 -4.2333 -69.6661 -3.908333 ...

For Incofish:Sea - Depth MeanSea - Land DistanceSea - Primary ProductivitySea - Surface TemperatureSea - SalinitySea - IceLarge Marine Ecosystems (2006)

Trachurus trachurus

Pteroscion pele

Gaidropsarus biscayensis

Aditional layers for Incofish

Synagrops bellus, Synagrops spinosus depth

Salinity

Using

DataPostgreSQL

DataPostgreSQL

spOutliergeoLoc

SOAP

Web service

job1 job2

MapsPostGIS

MapsPostGIS

openopenModellerModellerA framework for biological/environmental modellingA framework for biological/environmental modelling

Tem

pera

ture

Precipitation

Building a modelBuilding a model

For each occurrence point one finds values for environment variables. Doing this, geographic occurrence points are transformed into niche occurrence points.

Tem

pera

ture

Precipitation

Building a modelBuilding a model

Based on the niche occurrence points we build a niche model through the application of some algorithm (ex: GARP, Bioclim, Artificial Neural Networks, Aquamaps, etc).

Tem

pera

ture

Precipitation

Tem

pera

ture

Precipitation

Species distribution mapSpecies distribution map

The species distribution map is the result of the niche model application over some geographical region with known values for environment variables. Thus, the species distribution map is a georeferenced map with species occurrence probabilities in its cells.

• The distribution map shows the environmental similarities between distinct geographical regions according to the modelling algorithm metric.

• Factors such as natural barriers and historical influences are not considered.

• The quality of the distribution map generated depends directly on the quality of species occurrence data and environmental data

Warning!Warning!

Selection of parameters and interpretation

requires expert knowledge.

Motivation for openModeller developmentMotivation for openModeller development

• Facilitate the process of reading georeferenced environmental maps stored in different formats (GeoTiff, Arc/Info Grid, GXF, etc).

• Dealing with different coordinate systems and projections to combine the different maps and species occurrence points.

• Letting algorithm researchers concentrate in the algorithm development.

• Allow running different algorithms with exactly the same input, so they can be compared.

Salinity

depth

Temperature

Environmental data

openModeller

BioclimGarp

AquaMapsModellingalgorithms

Specimens

openopenModellerModeller

Salinity

DepthTemperature

Environmental data

openModeller

BioclimGarp

AquaMapsModellingalgorithms

Specimens

Select the environment variables

Select the algorithm

Send the species occurrence data

Select the species’ name and the internet portals to be searched

DiGIRportal

DiGIRportal

openopenModellerModeller

DiGIRportal

DiGIRportal Salinity

Depth

Temperature

Environmental data

openModeller

Bioclim Garp AquaMaps

Specimendata

Modelling algorithms

ABCDportal

ABCDportal

openopenModellerModeller

openopenModeller Modeller client interfacesclient interfaces

openModeller

Desktop

Web

Soap

OR

OR

Library

OR ...

ArchitectureArchitecture

openModelle

r

GARP

Bioclim

AquaMaps

pluggablealgorithms

API

others...

APIConsole

Interfaces

SOAP server

SWIG wrapper

others... drivers

pointspoints mapsmaps

(GDAL, proj4, etc)

(diff. formats)(diff. coord systems)

Demonstration ...

The projectThe project

• The core is being developed in C++• Uses GDAL and proj4 open source libraries• Collaborative development• Distributed under GPL license

Institutions Involved :• CRIA – Centro de Referencia em Informação Ambiental• Poli USP - Escola Politécnica, São Paulo State University• INPE - Instituto Nacional de Pesquisas Espaciais• KU – Kansas University• Soon … feedback from Incofish partners

Documentation available at

mapcria: http://www.cria.org.br/mapcria/doc/

openModeller: http://openmodeller.sourceforge.net/

Thank you!

Obrigada!

dora@cria.org.br