/*
* EuroCarbDB, a framework for carbohydrate bioinformatics
*
* Copyright (c) 2006-2009, Eurocarb project, or third-party contributors as
* indicated by the @author tags or express copyright attribution
* statements applied by the authors.
*
* This copyrighted material is made available to anyone wishing to use, modify,
* copy, or redistribute it subject to the terms and conditions of the GNU
* Lesser General Public License, as published by the Free Software Foundation.
* A copy of this license accompanies this distribution in the file LICENSE.txt.
*
* This program 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 Lesser General Public License
* for more details.
*
* Last commit: $Rev: 1932 $ by $Author: glycoslave $ on $Date:: 2010-08-05 #$
*/
/*-------------------------------------------------------------------
* $Id: SearchDisease.java 1932 2010-08-05 07:12:33Z glycoslave $
* Last changed $Author: glycoslave $
* EUROCarbDB Project
*------------------------------------------------------------------*/
package org.eurocarbdb.action.core;
// stdlib imports
import java.util.Set;
import java.util.HashSet;
import java.util.List;
import java.util.ArrayList;
import java.util.Map;
// 3rd party imports
//import com.opensymphony.webwork.interceptor.ParameterAware;
import org.apache.log4j.Logger;
// eurocarb imports
import org.eurocarbdb.dataaccess.core.Disease;
import org.eurocarbdb.action.EurocarbAction;
import org.eurocarbdb.dataaccess.EntityManager;
import org.eurocarbdb.action.exception.InsufficientParams;
// static imports
import static org.eurocarbdb.util.StringUtils.join;
//import static org.eurocarbdb.dataaccess.Eurocarb.getEntityManager;
import static org.eurocarbdb.dataaccess.Eurocarb.getEntityManager;
/* class SearchDisease *//*****************************************
*
* Shows a detail page for a tissue taxonomy entry given a tissue taxonomy id.
*
* @author mjh <glycoslave@gmail.com>
* @version $Rev: 1932 $
*/
public class SearchDisease extends EurocarbAction
{
//~~~~~~~~~~~~~~~~~~~~~~ STATIC FIELDS ~~~~~~~~~~~~~~~~~~~~~~~~//
/***/
//public static final String ERROR__NO_PARAMS = "error__no_params";
/** Logging handle. */
protected static final Logger log
= Logger.getLogger( SearchDisease.class.getName() );
//~~~~~~~~~~~~~~~~~~~~~~~~~~ FIELDS ~~~~~~~~~~~~~~~~~~~~~~~~~~~//
/** The list of taxonomies that match the provided search criteria. */
private List<Disease> matchingDiseases = null;
/** A taxonomy name search string. */
private String searchDiseaseName = null;
/** Human readable string representation of the query performed in execute(). */
private StringBuffer searchCriteria = new StringBuffer();
/** Returns all the result as a plain HTML list, to be used with AJAX **/
private int showResultsAsList = 0;
//~~~~~~~~~~~~~~~~~~~~~~~~~ METHODS ~~~~~~~~~~~~~~~~~~~~~~~~~~~//
/* getSearchCriteria *//***************************************
*
* Returns a humanised string representation of the current search
* criteria for human consuption.
*/
public String getSearchCriteria() { return searchCriteria.toString(); }
/* getMatchingDiseases *//*****************************
*
* Returns the list of Disease(s) that match the provided search
* parameters (via the setParameters() method). This list will most
* likely be null if the execute() method has not yet been called.
*/
public List<Disease> getMatchingDiseases() { return matchingDiseases; }
/** Returns all the result as a plain HTML list, to be used with AJAX **/
public void setShowList(int i) {
showResultsAsList = i;
}
public int getShowList() {
return showResultsAsList;
}
/** Returns a tissue taxonomy name search string, or null if not set. */
public String getDiseaseName() { return this.searchDiseaseName; }
/** Sets a string to be used in a tissue taxonomy name search. */
public void setDiseaseName( String search_name ) { this.searchDiseaseName = search_name; }
/* execute *///************************************************
public String execute() throws InsufficientParams
{
EntityManager em = getEntityManager();
// tissue taxonomy name or synonym search
if ( searchDiseaseName != null )
{
searchCriteria.append( "tissue taxonomy name or synonym matches '"
+ searchDiseaseName
+ "'"
);
this.matchingDiseases
= Disease.lookupNameOrSynonym( searchDiseaseName );
if( showResultsAsList!=0 )
return "list";
return SUCCESS;
}
// other searches would go here...
if( showResultsAsList!=0 )
return "list";
return INPUT;
}
} // end class