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package org.bgbm.biovel.drf.checklist;
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import java.util.ArrayList;
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import java.util.Iterator;
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import java.util.List;
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import javax.xml.bind.JAXBException;
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import org.bgbm.biovel.drf.checklist.DRFChecklistException;
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import org.bgbm.biovel.drf.checklist.GBIFBackboneClient;
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import org.bgbm.biovel.drf.checklist.SearchMode;
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import org.bgbm.biovel.drf.client.ServiceProviderInfo;
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import org.bgbm.biovel.drf.input.DRFCSVInputParser;
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import org.bgbm.biovel.drf.input.DRFInputException;
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import org.bgbm.biovel.drf.tnr.msg.TnrMsg;
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import org.bgbm.biovel.drf.utils.BiovelUtils;
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import org.bgbm.biovel.drf.utils.JSONUtils;
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import org.bgbm.biovel.drf.utils.TnrMsgException;
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import org.bgbm.biovel.drf.utils.TnrMsgUtils;
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import org.junit.BeforeClass;
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import org.junit.Test;
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//@Ignore
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public class GBIFChecklistTest {
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private static DRFCSVInputParser parser;
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private static List<String> nameCompleteList;
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private static ServiceProviderInfo ci;
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@BeforeClass
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public static void setup() {
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parser = new DRFCSVInputParser();
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nameCompleteList = new ArrayList<String>();
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nameCompleteList.add("Ameira divagans");
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nameCompleteList.add("Boccardiella ligerica");
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nameCompleteList.add("Bougainvillia rugosa");
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nameCompleteList.add("Branchiura sowerbyi");
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nameCompleteList.add("Cercopagis pengoi");
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nameCompleteList.add("Chelicorophium curvispinum");
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ci = new ServiceProviderInfo(GBIFBackboneClient.ID,
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GBIFBackboneClient.LABEL,
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GBIFBackboneClient.URL,
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GBIFBackboneClient.DATA_AGR_URL, ServiceProviderInfo.DEFAULT_SEARCH_MODE);
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ci.addSubChecklist(new ServiceProviderInfo("d7dddbf4-2cf0-4f39-9b2a-bb099caae36c", "GBIF NUB Taxonomy", "http://uat.gbif.org/dataset/d7dddbf4-2cf0-4f39-9b2a-bb099caae36c"));
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}
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@Test
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public void convertChecklistInfoToJson() throws DRFChecklistException {
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String checklistInfoJson = JSONUtils.convertObjectToJson(ci);
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System.out.println("Json : " + checklistInfoJson);
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}
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@Test
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public void buildServiceProviderInfo() throws DRFChecklistException {
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GBIFBackboneClient gbc = new GBIFBackboneClient();
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ServiceProviderInfo spiInfo = gbc.buildServiceProviderInfo();
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List<ServiceProviderInfo> spiList = spiInfo.getSubChecklists();
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Iterator<ServiceProviderInfo> spiItr = spiList.iterator();
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while(spiItr.hasNext()) {
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ServiceProviderInfo spi = spiItr.next();
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System.out.println("Dataset : " + spi.getLabel() );
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}
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String checklistInfoJson = JSONUtils.convertObjectToJson(spiInfo);
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System.out.println("Json : " + checklistInfoJson);
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}
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@Test
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public void nameCompleteCsvTest() throws DRFChecklistException, DRFInputException, JAXBException, TnrMsgException {
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parser = new DRFCSVInputParser();
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List<TnrMsg> tnrMsgs = parser.parse(BiovelUtils.getResourceAsString("/org/bgbm/biovel/drf/tnr/nameCompleteOnly.csv","UTF-8"));
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//List<TnrMsg> tnrMsgs = parser.parse(BiovelUtils.getResourceAsString("/org/bgbm/biovel/drf/tnr/singleNameCompleteOnly.csv","UTF-8"));
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List<String> chosenKeyList = new ArrayList<String>();
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chosenKeyList.add("7ddf754f-d193-4cc9-b351-99906754a03b");
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GBIFBackboneClient gbc = new GBIFBackboneClient(JSONUtils.convertObjectToJson(ci));
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Iterator<TnrMsg> tnrMsgItr = tnrMsgs.iterator();
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while(tnrMsgItr.hasNext()) {
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TnrMsg tnrMsg = tnrMsgItr.next();
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TnrMsgUtils.updateWithSearchMode(tnrMsg, SearchMode.scientificNameExact);
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gbc.queryChecklist(tnrMsg);
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String outputXML = TnrMsgUtils.convertTnrMsgToXML(tnrMsg);
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System.out.println(outputXML);
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}
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}
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@Test
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public void nameCompleteStringListTest() throws DRFChecklistException, DRFInputException, JAXBException, TnrMsgException {
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parser = new DRFCSVInputParser();
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List<TnrMsg> tnrMsgs = TnrMsgUtils.convertStringListToTnrMsgList(nameCompleteList, SearchMode.scientificNameExact, false);
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//List<TnrMsg> tnrMsgs = parser.parse(BiovelUtils.getResourceAsString("/org/bgbm/biovel/drf/tnr/singleNameCompleteOnly.csv","UTF-8"));
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List<String> chosenKeyList = new ArrayList<String>();
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chosenKeyList.add("7ddf754f-d193-4cc9-b351-99906754a03b");
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GBIFBackboneClient gbc = new GBIFBackboneClient(JSONUtils.convertObjectToJson(ci));
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Iterator<TnrMsg> tnrMsgItr = tnrMsgs.iterator();
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while(tnrMsgItr.hasNext()) {
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TnrMsg tnrMsg = tnrMsgItr.next();
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TnrMsgUtils.updateWithSearchMode(tnrMsg, SearchMode.scientificNameExact);
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gbc.queryChecklist(tnrMsg);
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String outputXML = TnrMsgUtils.convertTnrMsgToXML(tnrMsg);
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System.out.println(outputXML);
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}
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}
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}
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