150 lines
6.6 KiB
Java
150 lines
6.6 KiB
Java
package org.gcube.dataanalysis.geo.test.infra;
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import java.util.ArrayList;
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import java.util.List;
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import org.gcube.contentmanagement.lexicalmatcher.utils.AnalysisLogger;
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import org.gcube.dataanalysis.ecoengine.configuration.AlgorithmConfiguration;
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import org.gcube.dataanalysis.ecoengine.datatypes.ColumnType;
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import org.gcube.dataanalysis.ecoengine.datatypes.InputTable;
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import org.gcube.dataanalysis.ecoengine.datatypes.PrimitiveTypesList;
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import org.gcube.dataanalysis.ecoengine.datatypes.StatisticalType;
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import org.gcube.dataanalysis.ecoengine.datatypes.enumtypes.PrimitiveTypes;
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import org.gcube.dataanalysis.ecoengine.datatypes.enumtypes.TableTemplates;
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import org.gcube.dataanalysis.ecoengine.interfaces.ComputationalAgent;
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import org.gcube.dataanalysis.ecoengine.processing.factories.TransducerersFactory;
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import org.gcube.dataanalysis.ecoengine.test.regression.Regressor;
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import org.gcube.dataanalysis.ecoengine.utils.IOHelper;
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public class TestOccurrenceEnrichment {
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// static AlgorithmConfiguration[] configs = { testOccEnrichment(), testOccEnrichmentWFS()};
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static AlgorithmConfiguration[] configs = { testOccEnrichmentWFSFAO()};
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public static void main(String[] args) throws Exception {
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System.out.println("TEST 1");
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for (int i = 0; i < configs.length; i++) {
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AnalysisLogger.getLogger().debug("Executing: "+configs[i].getAgent());
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List<ComputationalAgent> trans = null;
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trans = TransducerersFactory.getTransducerers(configs[i]);
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trans.get(0).init();
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Regressor.process(trans.get(0));
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StatisticalType st = trans.get(0).getOutput();
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AnalysisLogger.getLogger().debug("ST:" + st);
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trans = null;
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}
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}
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private static AlgorithmConfiguration testOccEnrichment() {
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AlgorithmConfiguration config = new AlgorithmConfiguration();
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config.setAgent("OCCURRENCE_ENRICHMENT");
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config.setConfigPath("./cfg/");
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config.setPersistencePath("./");
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config.setParam("DatabaseUserName", "utente");
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config.setParam("DatabasePassword", "d4science");
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config.setParam("DatabaseURL", "jdbc:postgresql://statistical-manager.d.d4science.research-infrastructures.eu/testdb");
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config.setParam("DatabaseDriver", "org.postgresql.Driver");
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config.setGcubeScope("/d4science.research-infrastructures.eu/gCubeApps/BiodiversityLab");
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config.setParam("OccurrenceTable","occurrence_species_id0045886b_2a7c_4ede_afc4_3157c694b893");
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config.setParam("LongitudeColumn","decimallongitude");
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config.setParam("LatitudeColumn","decimallatitude");
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config.setParam("ScientificNameColumn","scientificname");
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config.setParam("TimeColumn","eventdate");
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config.setParam("OptionalFilter","");
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config.setParam("Resolution","0.5");
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config.setParam("OutputTableDBName","testenrichment");
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config.setParam("OutputTableName","testenrichment");
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String sep=AlgorithmConfiguration.getListSeparator();
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// config.setParam("Layers","http://thredds.research-infrastructures.eu/thredds/dodsC/public/netcdf/global-reanalysis-phys-001-004-b-ref-fr-mjm95-gridt__ENVIRONMENT_OCEANS_ELEVATION_1366210702774.nc"+sep+"4d597da9-dbfa-4a65-9de6-9bbff69eac19"+sep+"2c2304d1-681a-4f3a-8409-e8cdb5ed447f");
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//ASC file
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config.setParam("Layers","http://goo.gl/s6fOfS");
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config.setParam("Layers","https://dl.dropboxusercontent.com/u/12809149/test1.tiff");
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// config.setParam("Layers","https://dl.dropboxusercontent.com/u/12809149/geoserver-GetCoverage.image.asc");
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//NETCDF http - cannot work
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// config.setParam("Layers","http://goo.gl/qXtqiY");
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// config.setParam("Layers","https://dl.dropboxusercontent.com/u/12809149/geoserver-GetCoverage.image.tiff");
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// config.setParam("Layers","https://dl.dropboxusercontent.com/u/12809149/TrueMarble.tif");
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// config.setParam("Layers","http://goo.gl/l4tEmd");
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// config.setParam("Layers","8f5d883f-95bf-4b7c-8252-aaf0b2e6fd81"+sep+"4d597da9-dbfa-4a65-9de6-9bbff69eac19"+sep+"2c2304d1-681a-4f3a-8409-e8cdb5ed447f");
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config.setParam("FeaturesNames","temperature"+sep+"chlorophyll"+sep+"ph");
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// config.setParam("Layers","4d597da9-dbfa-4a65-9de6-9bbff69eac19"+sep+"2c2304d1-681a-4f3a-8409-e8cdb5ed447f");
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// config.setParam("FeaturesNames","chlorophyll"+sep+"ph");
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return config;
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}
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private static AlgorithmConfiguration testOccEnrichmentWFSFAO() {
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AlgorithmConfiguration config = new AlgorithmConfiguration();
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config.setAgent("OCCURRENCE_ENRICHMENT");
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config.setConfigPath("./cfg/");
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config.setPersistencePath("./");
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config.setParam("DatabaseUserName", "utente");
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config.setParam("DatabasePassword", "d4science");
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config.setParam("DatabaseURL", "jdbc:postgresql://statistical-manager.d.d4science.research-infrastructures.eu/testdb");
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config.setParam("DatabaseDriver", "org.postgresql.Driver");
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config.setGcubeScope("/gcube/devsec/devVRE");
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config.setParam("OccurrenceTable","occurrence_carch");
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config.setParam("LongitudeColumn","decimallongitude");
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config.setParam("LatitudeColumn","decimallatitude");
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config.setParam("ScientificNameColumn","scientificname");
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config.setParam("TimeColumn","eventdate");
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config.setParam("OptionalFilter","");
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config.setParam("Resolution","0.5");
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config.setParam("OutputTableDBName","testenrichmentwpsfao");
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config.setParam("OutputTableName","testenrichmentwpsfao");
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String sep=AlgorithmConfiguration.getListSeparator();
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//WFS: carcharodon
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config.setParam("Layers"," fao-species-map-wsh");
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return config;
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}
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private static AlgorithmConfiguration testOccEnrichmentWFS() {
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AlgorithmConfiguration config = new AlgorithmConfiguration();
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config.setAgent("OCCURRENCE_ENRICHMENT");
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config.setConfigPath("./cfg/");
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config.setPersistencePath("./");
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config.setParam("DatabaseUserName", "utente");
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config.setParam("DatabasePassword", "d4science");
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config.setParam("DatabaseURL", "jdbc:postgresql://statistical-manager.d.d4science.research-infrastructures.eu/testdb");
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config.setParam("DatabaseDriver", "org.postgresql.Driver");
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config.setGcubeScope("/gcube/devsec/devVRE");
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config.setParam("OccurrenceTable","occurrence_carch");
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config.setParam("LongitudeColumn","decimallongitude");
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config.setParam("LatitudeColumn","decimallatitude");
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config.setParam("ScientificNameColumn","scientificname");
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config.setParam("TimeColumn","eventdate");
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config.setParam("OptionalFilter","");
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config.setParam("Resolution","0.5");
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config.setParam("OutputTableDBName","testenrichmentwps");
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config.setParam("OutputTableName","testenrichmentwps");
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String sep=AlgorithmConfiguration.getListSeparator();
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//WFS: carcharodon
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config.setParam("Layers","b8a17d86-c62f-4e73-b5c9-bdb3366015c9");
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return config;
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}
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}
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