moved maketar in common under the dmp
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8f960cc5d9
commit
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package eu.dnetlib.dhp.common;
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import java.io.BufferedInputStream;
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import java.io.IOException;
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import java.io.InputStream;
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import java.io.Serializable;
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import java.util.Optional;
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import org.apache.commons.compress.archivers.tar.TarArchiveEntry;
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import org.apache.commons.compress.archivers.tar.TarArchiveOutputStream;
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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.*;
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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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public class MakeTarArchive implements Serializable {
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private static final Logger log = LoggerFactory.getLogger(MakeTarArchive.class);
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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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MakeTarArchive.class
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.getResourceAsStream(
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"/eu/dnetlib/dhp/common/input_maketar_parameters.json"));
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final ArgumentApplicationParser parser = new ArgumentApplicationParser(jsonConfiguration);
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parser.parseArgument(args);
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final String outputPath = parser.get("hdfsPath");
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log.info("hdfsPath: {}", outputPath);
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final String hdfsNameNode = parser.get("nameNode");
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log.info("nameNode: {}", hdfsNameNode);
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final String inputPath = parser.get("sourcePath");
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log.info("input path : {}", inputPath);
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final int gBperSplit = Optional
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.ofNullable(parser.get("splitSize"))
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.map(Integer::valueOf)
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.orElse(10);
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final boolean rename = Optional
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.ofNullable(parser.get("rename"))
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.map(Boolean::valueOf)
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.orElse(Boolean.FALSE);
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Configuration conf = new Configuration();
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conf.set("fs.defaultFS", hdfsNameNode);
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FileSystem fileSystem = FileSystem.get(conf);
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makeTArArchive(fileSystem, inputPath, outputPath, gBperSplit, rename);
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}
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public static void makeTArArchive(FileSystem fileSystem, String inputPath, String outputPath, int gBperSplit)
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throws IOException {
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makeTArArchive(fileSystem, inputPath, outputPath, gBperSplit, false);
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}
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public static void makeTArArchive(FileSystem fileSystem, String inputPath, String outputPath, int gBperSplit,
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boolean rename)
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throws IOException {
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RemoteIterator<LocatedFileStatus> dirIterator = fileSystem.listLocatedStatus(new Path(inputPath));
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while (dirIterator.hasNext()) {
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LocatedFileStatus fileStatus = dirIterator.next();
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Path p = fileStatus.getPath();
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String pathString = p.toString();
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String entity = pathString.substring(pathString.lastIndexOf("/") + 1);
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MakeTarArchive.tarMaxSize(fileSystem, pathString, outputPath + "/" + entity, entity, gBperSplit, rename);
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}
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}
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private static TarArchiveOutputStream getTar(FileSystem fileSystem, String outputPath) throws IOException {
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Path hdfsWritePath = new Path(outputPath);
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if (fileSystem.exists(hdfsWritePath)) {
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fileSystem.delete(hdfsWritePath, true);
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}
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return new TarArchiveOutputStream(fileSystem.create(hdfsWritePath).getWrappedStream());
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}
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private static void write(FileSystem fileSystem, String inputPath, String outputPath, String dirName,
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boolean rename)
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throws IOException {
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Path hdfsWritePath = new Path(outputPath);
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if (fileSystem.exists(hdfsWritePath)) {
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fileSystem.delete(hdfsWritePath, true);
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}
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try (TarArchiveOutputStream ar = new TarArchiveOutputStream(
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fileSystem.create(hdfsWritePath).getWrappedStream())) {
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RemoteIterator<LocatedFileStatus> iterator = fileSystem
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.listFiles(
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new Path(inputPath), true);
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while (iterator.hasNext()) {
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writeCurrentFile(fileSystem, dirName, iterator, ar, 0, rename);
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}
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}
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}
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public static void tarMaxSize(FileSystem fileSystem, String inputPath, String outputPath, String dir_name,
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int gBperSplit, boolean rename) throws IOException {
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final long bytesPerSplit = 1024L * 1024L * 1024L * gBperSplit;
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long sourceSize = fileSystem.getContentSummary(new Path(inputPath)).getSpaceConsumed();
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if (sourceSize < bytesPerSplit) {
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write(fileSystem, inputPath, outputPath + ".tar", dir_name, rename);
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} else {
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int partNum = 0;
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RemoteIterator<LocatedFileStatus> fileStatusListIterator = fileSystem
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.listFiles(
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new Path(inputPath), true);
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boolean next = fileStatusListIterator.hasNext();
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while (next) {
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try (TarArchiveOutputStream ar = getTar(fileSystem, outputPath + "_" + (partNum + 1) + ".tar")) {
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long currentSize = 0;
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while (next && currentSize < bytesPerSplit) {
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currentSize = writeCurrentFile(
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fileSystem, dir_name, fileStatusListIterator, ar, currentSize, rename);
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next = fileStatusListIterator.hasNext();
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}
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partNum += 1;
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}
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}
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}
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}
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private static long writeCurrentFile(FileSystem fileSystem, String dirName,
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RemoteIterator<LocatedFileStatus> fileStatusListIterator,
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TarArchiveOutputStream ar, long currentSize, boolean rename) throws IOException {
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LocatedFileStatus fileStatus = fileStatusListIterator.next();
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Path p = fileStatus.getPath();
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String pString = p.toString();
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if (!pString.endsWith("_SUCCESS")) {
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String name = pString.substring(pString.lastIndexOf("/") + 1);
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if (name.startsWith("part-") & name.length() > 10) {
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String tmp = name.substring(0, 10);
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if (name.contains(".")) {
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tmp += name.substring(name.indexOf("."));
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}
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name = tmp;
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}
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if (rename) {
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if (name.endsWith(".txt.gz"))
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name = name.replace(".txt.gz", ".json.gz");
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}
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TarArchiveEntry entry = new TarArchiveEntry(dirName + "/" + name);
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entry.setSize(fileStatus.getLen());
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currentSize += fileStatus.getLen();
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ar.putArchiveEntry(entry);
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InputStream is = fileSystem.open(fileStatus.getPath());
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BufferedInputStream bis = new BufferedInputStream(is);
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int count;
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byte[] data = new byte[1024];
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while ((count = bis.read(data, 0, data.length)) != -1) {
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ar.write(data, 0, count);
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}
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bis.close();
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ar.closeArchiveEntry();
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}
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return currentSize;
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}
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}
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