111 lines
3.8 KiB
Java
111 lines
3.8 KiB
Java
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package eu.dnetlib.dhp.oa.graph.dump.complete;
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import java.io.BufferedWriter;
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import java.io.IOException;
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import java.io.OutputStreamWriter;
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import java.io.Serializable;
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import java.nio.charset.StandardCharsets;
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import java.util.function.Consumer;
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import java.util.function.Function;
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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.FSDataOutputStream;
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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.apache.hadoop.io.compress.CompressionCodec;
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import org.apache.hadoop.io.compress.CompressionCodecFactory;
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import org.slf4j.Logger;
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import org.slf4j.LoggerFactory;
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import eu.dnetlib.dhp.application.ArgumentApplicationParser;
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import eu.dnetlib.dhp.oa.graph.dump.Utils;
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import eu.dnetlib.dhp.oa.model.graph.ResearchInitiative;
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import eu.dnetlib.enabling.is.lookup.rmi.ISLookUpException;
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/**
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* Writes on HDFS Context entities. It queries the Information System at the lookup url provided as parameter and
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* collects the general information for contexes of type community or ri. The general information is the id of the
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* context, its label, the subjects associated to the context, its zenodo community, description and type. This
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* information is used to create a new Context Entity
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*/
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public class CreateContextEntities implements Serializable {
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private static final Logger log = LoggerFactory.getLogger(CreateContextEntities.class);
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private final transient Configuration conf;
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private final transient BufferedWriter writer;
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public static void main(String[] args) throws Exception {
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String jsonConfiguration = IOUtils
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.toString(
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CreateContextEntities.class
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.getResourceAsStream(
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"/eu/dnetlib/dhp/oa/graph/dump/input_entity_parameter.json"));
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final ArgumentApplicationParser parser = new ArgumentApplicationParser(jsonConfiguration);
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parser.parseArgument(args);
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final String hdfsPath = parser.get("hdfsPath");
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log.info("hdfsPath: {}", hdfsPath);
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final String hdfsNameNode = parser.get("nameNode");
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log.info("nameNode: {}", hdfsNameNode);
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final String isLookUpUrl = parser.get("isLookUpUrl");
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log.info("isLookUpUrl: {}", isLookUpUrl);
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final CreateContextEntities cce = new CreateContextEntities(hdfsPath, hdfsNameNode);
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log.info("Processing contexts...");
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cce.execute(Process::getEntity, isLookUpUrl);
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cce.close();
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}
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private void close() throws IOException {
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writer.close();
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}
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public CreateContextEntities(String hdfsPath, String hdfsNameNode) throws IOException {
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this.conf = new Configuration();
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this.conf.set("fs.defaultFS", hdfsNameNode);
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FileSystem fileSystem = FileSystem.get(this.conf);
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Path hdfsWritePath = new Path(hdfsPath);
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FSDataOutputStream fsDataOutputStream = null;
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if (fileSystem.exists(hdfsWritePath)) {
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fsDataOutputStream = fileSystem.append(hdfsWritePath);
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} else {
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fsDataOutputStream = fileSystem.create(hdfsWritePath);
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}
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CompressionCodecFactory factory = new CompressionCodecFactory(conf);
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CompressionCodec codec = factory.getCodecByClassName("org.apache.hadoop.io.compress.GzipCodec");
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this.writer = new BufferedWriter(new OutputStreamWriter(codec.createOutputStream(fsDataOutputStream),
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StandardCharsets.UTF_8));
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}
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public <R extends ResearchInitiative> void execute(final Function<ContextInfo, R> producer, String isLookUpUrl)
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throws ISLookUpException {
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QueryInformationSystem queryInformationSystem = new QueryInformationSystem();
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queryInformationSystem.setIsLookUp(Utils.getIsLookUpService(isLookUpUrl));
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final Consumer<ContextInfo> consumer = ci -> writeEntity(producer.apply(ci));
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queryInformationSystem.getContextInformation(consumer);
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}
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protected <R extends ResearchInitiative> void writeEntity(final R r) {
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try {
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writer.write(Utils.OBJECT_MAPPER.writeValueAsString(r));
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writer.newLine();
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} catch (final IOException e) {
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throw new IllegalArgumentException(e);
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}
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}
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}
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