/*
* This is eMonocot, a global online biodiversity information resource.
*
* Copyright © 2011–2015 The Board of Trustees of the Royal Botanic Gardens, Kew and The University of Oxford
*
* eMonocot is free software: you can redistribute it and/or modify it under the terms of the
* GNU Affero General Public License as published by the Free Software Foundation, either version 3
* of the License, or (at your option) any later version.
*
* eMonocot is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even
* the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
* GNU Affero General Public License for more details.
*
* The complete text of the GNU Affero General Public License is in the source repository as the file
* ‘COPYING’. It is also available from <http://www.gnu.org/licenses/>.
*/
package org.emonocot.job.dwc.read;
import java.util.HashMap;
import java.util.Map;
import org.slf4j.Logger;
import org.slf4j.LoggerFactory;
import org.springframework.batch.core.StepContribution;
import org.springframework.batch.core.scope.context.ChunkContext;
import org.springframework.batch.core.step.tasklet.Tasklet;
import org.springframework.batch.repeat.RepeatStatus;
public class NonOwnedSubsetRecordAnnotator extends AbstractRecordAnnotator implements Tasklet {
private Logger logger = LoggerFactory.getLogger(NonOwnedSubsetRecordAnnotator.class);
private String subtribe;
private String tribe;
private String subfamily;
private String family;
private String queryString;
private String annotatedObjType;
public void setSubtribe(String subtribe) {
this.subtribe = subtribe;
}
public void setTribe(String tribe) {
this.tribe = tribe;
}
public void setSubfamily(String subfamily) {
this.subfamily = subfamily;
}
public void setFamily(String family) {
this.family = family;
}
public void setQueryString(String queryString) {
this.queryString = queryString;
}
public void setAnnotatedObjType(String annotatedObjType) {
this.annotatedObjType = annotatedObjType;
}
@Override
public RepeatStatus execute(StepContribution contribution, ChunkContext chunkContext) throws Exception {
String subsetRank = null;
String subsetValue = null;
if(subtribe != null) {
subsetRank = "subtribe";
subsetValue = subtribe;
} else if(tribe != null) {
subsetRank = "tribe";
subsetValue = tribe;
} else if(subfamily != null) {
subsetRank = "subfamily";
subsetValue = subfamily;
} else if(family != null) {
subsetRank = "family";
subsetValue = family;
} else {
throw new IllegalStateException("No known subset was specified but one is needed for this processing mode.");
}
Map<String,Object> annotationParameters = new HashMap<String,Object>();
queryString = queryString.replaceAll("#subsetRank", subsetRank);
annotationParameters.put("subsetValue", subsetValue);
annotationParameters.put("annotatedObjType", annotatedObjType);
super.annotate(queryString, annotationParameters);
return RepeatStatus.FINISHED;
}
}