/*
* Ivory: A Hadoop toolkit for Web-scale information retrieval
*
* Licensed under the Apache License, Version 2.0 (the "License"); you
* may not use this file except in compliance with the License. You may
* obtain a copy of the License at
*
* http://www.apache.org/licenses/LICENSE-2.0
*
* Unless required by applicable law or agreed to in writing, software
* distributed under the License is distributed on an "AS IS" BASIS,
* WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or
* implied. See the License for the specific language governing
* permissions and limitations under the License.
*/
package ivory.core.driver;
import ivory.core.RetrievalEnvironment;
import ivory.core.preprocess.BuildIntDocVectors;
import ivory.core.preprocess.BuildIntDocVectorsForwardIndex;
import ivory.core.preprocess.BuildTermDocVectors;
import ivory.core.preprocess.BuildTermDocVectorsForwardIndex;
import ivory.core.preprocess.BuildTermIdMap;
import ivory.core.preprocess.GetTermCount;
import org.apache.hadoop.conf.Configuration;
import org.apache.hadoop.conf.Configured;
import org.apache.hadoop.fs.FileSystem;
import org.apache.hadoop.fs.Path;
import org.apache.hadoop.util.Tool;
import org.apache.hadoop.util.ToolRunner;
import org.apache.log4j.Logger;
import edu.umd.cloud9.collection.medline.NumberMedlineCitations;
public class PreprocessMedline extends Configured implements Tool {
private static final Logger sLogger = Logger.getLogger(PreprocessMedline.class);
private static int printUsage() {
System.out.println("usage: [input-path] [index-path] [num-of-mappers] [num-of-reducers]");
ToolRunner.printGenericCommandUsage(System.out);
return -1;
}
/**
* Runs this tool.
*/
public int run(String[] args) throws Exception {
if (args.length != 4) {
printUsage();
return -1;
}
String collection = args[0];
String indexPath = args[1];
int numMappers = Integer.parseInt(args[2]);
int numReducers = Integer.parseInt(args[3]);
sLogger.info("Tool name: ProcessMedline");
sLogger.info(" - Collection path: " + collection);
sLogger.info(" - Index path: " + indexPath);
Configuration conf = new Configuration();
FileSystem fs = FileSystem.get(conf);
// Create the index directory if it doesn't already exist.
Path p = new Path(indexPath);
if (!fs.exists(p)) {
sLogger.info("index path doesn't exist, creating...");
fs.mkdirs(p);
}
RetrievalEnvironment env = new RetrievalEnvironment(indexPath, fs);
// Look for the docno mapping, which maps from docid (String) to docno
// (sequentially-number integer). If it doesn't exist create it.
Path mappingFile = env.getDocnoMappingData();
if (!fs.exists(mappingFile)) {
sLogger.info(mappingFile + " doesn't exist, creating...");
String[] arr = new String[] { collection, indexPath + "/medline-docid-tmp", mappingFile.toString(), new Integer(numMappers).toString() };
NumberMedlineCitations tool = new NumberMedlineCitations();
tool.setConf(conf);
tool.run(arr);
fs.delete(new Path(indexPath + "/medline-docid-tmp"), true);
}
// Now we're ready to start the preprocessing pipeline... set
// appropriate properties.
conf.setInt("Ivory.NumMapTasks", numMappers);
conf.setInt("Ivory.NumReduceTasks", numReducers);
conf.set("Ivory.CollectionName", "Medline");
conf.set("Ivory.CollectionPath", collection);
conf.set("Ivory.IndexPath", indexPath);
conf.set("Ivory.Tokenizer", "ivory.tokenize.GalagoTokenizer");
conf.set("Ivory.InputFormat", "edu.umd.cloud9.collection.medline.MedlineCitationInputFormat");
conf.set("Ivory.DocnoMappingFile", indexPath + "docno.mapping");
conf.set("Ivory.DocnoMappingClass", "edu.umd.cloud9.collection.medline.MedlineDocnoMapping");
conf.setInt("Ivory.DocnoOffset", 0); // docnos start at 1
conf.setInt("Ivory.MinDf", 2); // toss away singleton terms
conf.setInt("Ivory.MaxDf", Integer.MAX_VALUE);
conf.setInt("Ivory.TermIndexWindow", 8);
new BuildTermDocVectors(conf).run();
new GetTermCount(conf).run();
new BuildTermIdMap(conf).run();
new BuildIntDocVectors(conf).run();
new BuildIntDocVectorsForwardIndex(conf).run();
new BuildTermDocVectorsForwardIndex(conf).run();
return 0;
}
/**
* Dispatches command-line arguments to the tool via the
* <code>ToolRunner</code>.
*/
public static void main(String[] args) throws Exception {
int res = ToolRunner.run(new Configuration(), new PreprocessMedline(), args);
System.exit(res);
}
}