67 lines
3.2 KiB
Java
Executable File
67 lines
3.2 KiB
Java
Executable File
package org.gcube.dataanalysis.executor.nodes.transducers.bionym.test;
|
|
|
|
import java.io.BufferedWriter;
|
|
import java.io.File;
|
|
import java.io.FileWriter;
|
|
|
|
import org.gcube.contentmanagement.lexicalmatcher.utils.AnalysisLogger;
|
|
import org.gcube.dataanalysis.ecoengine.configuration.AlgorithmConfiguration;
|
|
import org.gcube.dataanalysis.executor.nodes.transducers.bionym.BionymBiodiv;
|
|
import org.gcube.dataanalysis.executor.nodes.transducers.bionym.BionymFlexibleWorkflowTransducer;
|
|
import org.gcube.dataanalysis.executor.nodes.transducers.bionym.utils.YasmeenGlobalParameters;
|
|
|
|
import com.thoughtworks.xstream.XStream;
|
|
|
|
public class TestBiOnymBiodiv {
|
|
|
|
|
|
public static void main(String[] args) throws Exception {
|
|
AlgorithmConfiguration config = new AlgorithmConfiguration();
|
|
|
|
config.setConfigPath("./cfg/");
|
|
String sandbox = "./PARALLEL_PROCESSING";
|
|
String configfile = "testconfig.cfg";
|
|
config.setPersistencePath(sandbox);
|
|
/*
|
|
config.setParam("DatabaseUserName", "gcube");
|
|
config.setParam("DatabasePassword", "d4science2");
|
|
config.setParam("DatabaseURL", "jdbc:postgresql://146.48.87.169/testdb");
|
|
config.setParam("DatabaseDriver", "org.postgresql.Driver");
|
|
*/
|
|
config.setParam("DatabaseUserName","utente");
|
|
config.setParam("DatabasePassword","d4science");
|
|
config.setParam("DatabaseURL","jdbc:postgresql://statistical-manager.d.d4science.research-infrastructures.eu/testdb");
|
|
|
|
config.setParam(BionymFlexibleWorkflowTransducer.destinationTableParam, "taxamatchoutputlocal");
|
|
config.setParam(BionymFlexibleWorkflowTransducer.destinationTableLableParam, "taxamatchoutputlabel");
|
|
// config.setParam(BionymTransducer.originTableParam, "taxamatchinput1000");
|
|
// config.setParam(BionymTransducer.rawnamesColumnParam, "rawstrings");
|
|
//4
|
|
// config.setParam(BionymFlexibleWorkflowTransducer.originTableParam, "generic_id1ecb405c_980f_47a4_926a_3043d065fc7d");
|
|
// config.setParam(BionymFlexibleWorkflowTransducer.rawnamesColumnParam, "field0");
|
|
//2
|
|
config.setParam(BionymFlexibleWorkflowTransducer.originTableParam, "generic_id471e6d50_d243_4112_bc07_e22152438e5c");
|
|
config.setParam(BionymFlexibleWorkflowTransducer.rawnamesColumnParam, "field0");
|
|
//FABIO DS:
|
|
// config.setParam(BionymTransducer.originTableParam, "generic_ide43477df_d9e6_4191_8a81_e94a0a2d16f8");
|
|
// config.setParam(BionymTransducer.rawnamesColumnParam, "field0");
|
|
|
|
config.setParam(YasmeenGlobalParameters.parserNameParam,YasmeenGlobalParameters.BuiltinParsers.SIMPLE.name());
|
|
config.setParam(YasmeenGlobalParameters.taxaAuthorityFileParam,YasmeenGlobalParameters.BuiltinDataSources.OBIS.name());
|
|
config.setParam(YasmeenGlobalParameters.activatePreParsingProcessing,"true");
|
|
config.setParam(YasmeenGlobalParameters.useStemmedGenusAndSpecies,"false");
|
|
config.setParam(YasmeenGlobalParameters.overallMaxResults,"10");
|
|
|
|
AnalysisLogger.setLogger(config.getConfigPath() + AlgorithmConfiguration.defaultLoggerFile);
|
|
|
|
BufferedWriter oos = new BufferedWriter(new FileWriter(new File(sandbox, configfile)));
|
|
oos.write(new XStream().toXML(config));
|
|
oos.close();
|
|
|
|
new BionymBiodiv().setup(config);
|
|
|
|
new BionymBiodiv().executeNode(0, 1, 0, 2, false, sandbox, configfile, "test.log");
|
|
}
|
|
|
|
}
|