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package eu.dnetlib.data.mapreduce.hbase.openorgs;
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import java.io.IOException;
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import java.nio.charset.Charset;
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import java.util.Set;
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import org.apache.commons.lang3.StringUtils;
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import org.apache.hadoop.hbase.client.Result;
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import org.apache.hadoop.hbase.io.ImmutableBytesWritable;
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import org.apache.hadoop.hbase.mapreduce.TableMapper;
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import org.apache.hadoop.hbase.util.Bytes;
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import com.google.common.collect.Iterables;
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import eu.dnetlib.data.mapreduce.util.DedupUtils;
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import eu.dnetlib.data.proto.OafProtos.Oaf;
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public abstract class AbstractOpenOrgsMapper extends TableMapper<ImmutableBytesWritable, ImmutableBytesWritable> {
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private ImmutableBytesWritable keyOut;
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private ImmutableBytesWritable valueOut;
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@Override
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protected void setup(final Context context) throws IOException, InterruptedException {
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super.setup(context);
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keyOut = new ImmutableBytesWritable();
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valueOut = new ImmutableBytesWritable();
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}
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@Override
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protected void map(final ImmutableBytesWritable keyIn, final Result value, final Context context) throws IOException, InterruptedException {
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try {
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if (DedupUtils.isRoot(keyIn)) {
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context.getCounter("organization", "dedupwf_____ row skipped").increment(1);
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return;
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}
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if (OpenOrgsCommon.isOpenOrgsMesh(keyIn)) {
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context.getCounter("organization", "openorgsmesh row skipped").increment(1);
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return;
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}
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final byte[] bytes = value.getFamilyMap(Bytes.toBytes("organization")).get(Bytes.toBytes("body"));
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if (bytes == null) {
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context.getCounter("organization", "empty body").increment(1);
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return;
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}
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final Set<byte[]> roots = value.getFamilyMap(Bytes.toBytes("organizationOrganization_dedup_isMergedIn")).keySet();
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if (roots.isEmpty()) {
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context.getCounter("organization", "missing mergedIn relationship").increment(1);
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}
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if (roots.size() > 1) {
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context.getCounter("organization", "too many mergedIn relationship").increment(1);
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}
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final String root = roots.isEmpty() ? null : new String(Iterables.getOnlyElement(roots), Charset.forName("UTF-8"));
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final String keyOutString = calculateKeyOut(Oaf.parseFrom(bytes), root, context);
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if (StringUtils.isNotBlank(keyOutString)) {
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emit(keyOutString, bytes, context);
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}
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} catch (final Exception e) {
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throw new RuntimeException(e);
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}
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}
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protected abstract String calculateKeyOut(Oaf oaf, String rootId, Context context);
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private void emit(final String key, final byte[] value, final Context context) {
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keyOut.set(key.getBytes());
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valueOut.set(value);
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try {
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context.write(keyOut, valueOut);
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} catch (IOException | InterruptedException e) {
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throw new RuntimeException(e);
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}
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}
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}
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