78 lines
2.6 KiB
Java
78 lines
2.6 KiB
Java
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package eu.dnetlib.doiboost.orcid;
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import java.io.IOException;
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import java.net.URI;
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import org.apache.commons.io.IOUtils;
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import org.apache.hadoop.conf.Configuration;
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import org.apache.hadoop.fs.FileSystem;
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import org.apache.hadoop.fs.Path;
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import org.mortbay.log.Log;
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import eu.dnetlib.dhp.application.ArgumentApplicationParser;
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public class OrcidDSManager {
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protected String hdfsServerUri;
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protected String workingPath;
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private String summariesFileNameTarGz;
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private String outputAuthorsPath;
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public static void main(String[] args) throws IOException, Exception {
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OrcidDSManager orcidDSManager = new OrcidDSManager();
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orcidDSManager.loadArgs(args);
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orcidDSManager.generateAuthors();
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}
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public void generateAuthors() throws Exception {
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Configuration conf = initConfigurationObject();
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FileSystem fs = initFileSystemObject(conf);
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String tarGzUri = hdfsServerUri.concat(workingPath).concat(summariesFileNameTarGz);
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Path outputPath = new Path(
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hdfsServerUri
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.concat(workingPath)
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.concat(outputAuthorsPath)
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.concat("authors.seq"));
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SummariesDecompressor.parseGzSummaries(conf, tarGzUri, outputPath);
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}
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protected Configuration initConfigurationObject() {
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// ====== Init HDFS File System Object
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Configuration conf = new Configuration();
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// Set FileSystem URI
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conf.set("fs.defaultFS", hdfsServerUri.concat(workingPath));
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// Because of Maven
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conf.set("fs.hdfs.impl", org.apache.hadoop.hdfs.DistributedFileSystem.class.getName());
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conf.set("fs.file.impl", org.apache.hadoop.fs.LocalFileSystem.class.getName());
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return conf;
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}
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protected FileSystem initFileSystemObject(Configuration conf) throws IOException {
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// Get the filesystem - HDFS
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// if there is an exception, it will be propagate
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FileSystem fs = null;
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fs = FileSystem.get(URI.create(hdfsServerUri.concat(workingPath)), conf);
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return fs;
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}
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private void loadArgs(String[] args) throws IOException, Exception {
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final ArgumentApplicationParser parser = new ArgumentApplicationParser(
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IOUtils
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.toString(
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OrcidDSManager.class
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.getResourceAsStream(
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"/eu/dnetlib/dhp/doiboost/gen_orcid_authors_from_summaries.json")));
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parser.parseArgument(args);
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hdfsServerUri = parser.get("hdfsServerUri");
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Log.info("HDFS URI: " + hdfsServerUri);
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workingPath = parser.get("workingPath");
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Log.info("Working Path: " + workingPath);
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summariesFileNameTarGz = parser.get("summariesFileNameTarGz");
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Log.info("Summaries File Name: " + summariesFileNameTarGz);
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outputAuthorsPath = parser.get("outputAuthorsPath");
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Log.info("Output Authors Data: " + outputAuthorsPath);
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}
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}
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