/*
 * 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.portal.ws.ncbi;

import java.rmi.RemoteException;

import org.emonocot.portal.controller.form.NcbiDto;
import org.emonocot.portal.ws.ncbi.EUtilsServiceStub.EGqueryRequest;
import org.emonocot.portal.ws.ncbi.EUtilsServiceStub.Result;
import org.emonocot.portal.ws.ncbi.EUtilsServiceStub.ResultItemType;
import org.slf4j.Logger;
import org.slf4j.LoggerFactory;

public class NcbiService {
	private static Logger logger = LoggerFactory.getLogger(NcbiService.class);

	private EUtilsServiceStub service;

	private String httpProxyHost;

	private Integer httpProxyPort;

	public void setHttpProxyHost(String httpProxyHost) {
		this.httpProxyHost = httpProxyHost;
	}

	public void setHttpProxyPort(Integer httpProxyPort) {
		this.httpProxyPort = httpProxyPort;
	}

	public void afterPropertiesSet() throws Exception {
		this.service = new EUtilsServiceStub(httpProxyHost, httpProxyPort);
	}

	public NcbiDto issueRequest(final String term) throws RemoteException {
		if(term == null || term.equals("")) {
			return new NcbiDto();
		}
		EGqueryRequest eGqueryRequest = new EGqueryRequest();
		eGqueryRequest.setTerm(term + "[orgn]");

		Result result = service.run_eGquery(eGqueryRequest);

		NcbiDto ncbiDto = new NcbiDto();
		for(ResultItemType resultItem : result.getEGQueryResult().getResultItem()) {
			switch(resultItem.getDbName()) {
			case "pubmed":
				ncbiDto.setPubMedEntries(resultItem.getCount());
				break;
			case "nuccore":
				ncbiDto.setNucleotideEntries(resultItem.getCount());
				break;
			case "protein":
				ncbiDto.setProtienEntries(resultItem.getCount());
				break;
			default:
				break;
			}
		}

		return ncbiDto;
	}

}