/*
* Concept profile generation tool suite
* Copyright (C) 2015 Biosemantics Group, Erasmus University Medical Center,
* Rotterdam, The Netherlands
*
* This program 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.
*
* 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 Affero General Public License for more details.
*
* You should have received a copy of the GNU Affero General Public License
* along with this program. If not, see <http://www.gnu.org/licenses/>
*/
package Anni;
import java.io.File;
import org.erasmusmc.collections.SortedIntListSet;
import org.erasmusmc.databases.integersetstore.IntegerSetStore;
import org.erasmusmc.groundhog.Groundhog;
import org.erasmusmc.groundhog.GroundhogManager;
import org.erasmusmc.utilities.ReadTextFile;
public class CreateIntegerSetStoreFromGroundhog {
public static void create(String source, String target, String cuisFile){
GroundhogManager Gmanager = new GroundhogManager("");
Groundhog groundhog = Gmanager.getGroundhog(source);
File folder = new File(target);
if (!folder.exists())
folder.mkdir();
IntegerSetStore integerSetStore = new IntegerSetStore(folder);
ReadTextFile in = new ReadTextFile(cuisFile);
for (String cui : in){
Integer i = Integer.parseInt(cui);
SortedIntListSet pmids = groundhog.getRecordIDsForConcept(i);
if (pmids.size() > 0) {
integerSetStore.set(i, pmids);
}
}
//integerSetStore.close();
}
}