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sandro.lab
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package eu.dnetlib.data.mapreduce.util;
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import java.nio.ByteBuffer;
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claudio.at
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import eu.dnetlib.data.mapreduce.Algorithms;
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import eu.dnetlib.data.mapreduce.JobParams;
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import eu.dnetlib.data.proto.DedupProtos.Dedup;
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import eu.dnetlib.data.proto.DedupSimilarityProtos.DedupSimilarity;
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import eu.dnetlib.data.proto.FieldTypeProtos.Qualifier;
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import eu.dnetlib.data.proto.KindProtos.Kind;
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import eu.dnetlib.data.proto.OafProtos.Oaf;
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import eu.dnetlib.data.proto.OafProtos.OafRel;
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import eu.dnetlib.data.proto.OafProtos.OafRel.Builder;
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import eu.dnetlib.data.proto.OrganizationOrganizationProtos.OrganizationOrganization;
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import eu.dnetlib.data.proto.RelMetadataProtos.RelMetadata;
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import eu.dnetlib.data.proto.RelTypeProtos.RelType;
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import eu.dnetlib.data.proto.RelTypeProtos.SubRelType;
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import eu.dnetlib.data.proto.ResultResultProtos.ResultResult;
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import eu.dnetlib.data.proto.TypeProtos.Type;
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import eu.dnetlib.data.transform.xml.AbstractDNetXsltFunctions;
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import eu.dnetlib.pace.config.DedupConfig;
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michele.de
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import org.apache.commons.lang3.StringUtils;
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import org.apache.hadoop.hbase.io.ImmutableBytesWritable;
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import org.apache.hadoop.hbase.util.Bytes;
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public class DedupUtils {
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public static final String CF_SEPARATOR = "_";
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public static final String ROOT = "dedup_wf";
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public static final String BODY_S = "body";
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public static final byte[] BODY_B = Bytes.toBytes(BODY_S);
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public static String dedupPrefix(final String dedupRun) {
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return "|" + ROOT + "_" + dedupRun + "::";
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}
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public static String newId(final String id, final String dedupRun) {
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if ((dedupRun == null) || (dedupRun.length() != 3)) throw new IllegalArgumentException("wrong dedupRun param");
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return StringUtils.substringBefore(id,"|") + dedupPrefix(dedupRun) + "::" + AbstractDNetXsltFunctions.md5(id);
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}
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public static byte[] newIdBytes(final String s, final String dedupRun) {
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return newId(s, dedupRun).getBytes();
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}
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public static byte[] newIdBytes(final ByteBuffer b, final String dedupRun) {
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return newId(new String(b.array()), dedupRun).getBytes();
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}
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public static boolean isRoot(final String s) {
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return s.contains(ROOT);
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}
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public static boolean isRoot(final ImmutableBytesWritable s) {
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return isRoot(s.copyBytes());
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}
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public static boolean isRoot(final byte[] s) {
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return isRoot(new String(s));
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}
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public static String getDedupCF_merges(final Type type) {
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return getRelType(type) + CF_SEPARATOR + SubRelType.dedup + CF_SEPARATOR + Dedup.RelName.merges;
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}
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public static String getDedupCF_merges(final String type) {
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return getDedupCF_merges(Type.valueOf(type));
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}
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public static byte[] getDedupCF_mergesBytes(final Type type) {
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return Bytes.toBytes(getDedupCF_merges(type));
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}
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public static byte[] getDedupCF_mergesBytes(final String type) {
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return getDedupCF_mergesBytes(Type.valueOf(type));
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}
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public static String getDedupCF_mergedIn(final Type type) {
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return getRelType(type) + CF_SEPARATOR + SubRelType.dedup + CF_SEPARATOR + Dedup.RelName.isMergedIn;
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}
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public static String getDedupCF_mergedIn(final String type) {
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return getDedupCF_mergedIn(Type.valueOf(type));
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}
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public static byte[] getDedupCF_mergedInBytes(final Type type) {
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return Bytes.toBytes(getDedupCF_mergedIn(type));
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}
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public static byte[] getDedupCF_mergedInBytes(final String type) {
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return getDedupCF_mergedInBytes(Type.valueOf(type));
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}
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public static String getSimilarityCF(final Type type) {
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return getRelType(type) + CF_SEPARATOR + SubRelType.dedupSimilarity + CF_SEPARATOR + DedupSimilarity.RelName.isSimilarTo;
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}
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public static String getSimilarityCF(final String type) {
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return getSimilarityCF(Type.valueOf(type));
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}
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public static byte[] getSimilarityCFBytes(final Type type) {
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return Bytes.toBytes(getSimilarityCF(type));
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}
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public static byte[] getSimilarityCFBytes(final String type) {
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return getSimilarityCFBytes(Type.valueOf(type));
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}
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public static String getRelTypeString(final Type type) {
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return getRelType(type).toString();
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}
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public static RelType getRelType(final Type type) {
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switch (type) {
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case organization:
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return RelType.organizationOrganization;
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case result:
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return RelType.resultResult;
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default:
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throw new IllegalArgumentException("Deduplication not supported for entity type: " + type);
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}
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}
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public static ColumnFamily decodeCF(final byte[] b) {
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final String[] s = new String(b).split(CF_SEPARATOR);
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return new DedupUtils().getCF(RelType.valueOf(s[0]), SubRelType.valueOf(s[1]));
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}
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private ColumnFamily getCF(final RelType relType, final SubRelType subRelType) {
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return new ColumnFamily(relType, subRelType);
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}
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public static OafRel.Builder getDedup(final DedupConfig dedupConf, final String from, final String to, final Dedup.RelName relClass) {
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final Type type = Type.valueOf(dedupConf.getWf().getEntityType());
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final Builder oafRel = getRelBuilder(from, to, relClass.name(), DedupUtils.getRelType(type));
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switch (type) {
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case organization:
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oafRel.setOrganizationOrganization(OrganizationOrganization.newBuilder().setDedup(
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dedup(relClass.name(), "dnet:organization_organization_relations")));
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break;
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case result:
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oafRel.setResultResult(ResultResult.newBuilder().setDedup(DedupUtils.dedup(relClass.name(), "dnet:result_result_relations")));
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break;
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default:
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throw new IllegalArgumentException("Deduplication not supported for entity type: " + dedupConf.getWf().getEntityType());
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}
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return oafRel;
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}
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public static OafRel.Builder getDedupSimilarity(final DedupConfig dedupConf, final String from, final String to) {
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final Type type = Type.valueOf(dedupConf.getWf().getEntityType());
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final String isSimilarTo = DedupSimilarity.RelName.isSimilarTo.name();
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final Builder oafRel = getRelBuilder(from, to, isSimilarTo, DedupUtils.getRelType(type));
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switch (type) {
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case organization:
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oafRel.setOrganizationOrganization(OrganizationOrganization.newBuilder().setDedupSimilarity(
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dedupSimilarity(isSimilarTo, "dnet:organization_organization_relations")));
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break;
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case result:
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oafRel.setResultResult(ResultResult.newBuilder().setDedupSimilarity(dedupSimilarity(isSimilarTo, "dnet:result_result_relations")));
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break;
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default:
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throw new IllegalArgumentException("Deduplication not supported for entity type: " + dedupConf.getWf().getEntityType());
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}
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return oafRel;
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}
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private static Builder getRelBuilder(final String from, final String to, final String relClass, final RelType relType) {
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return OafRel.newBuilder().setRelType(relType).setSubRelType(SubRelType.dedup).setRelClass(relClass).setChild(false)
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.setSource(new String(from)).setTarget(new String(to));
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}
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private static Dedup.Builder dedup(final String relClass, final String scheme) {
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return Dedup.newBuilder().setRelMetadata(getRelMetadata(relClass, scheme));
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}
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private static DedupSimilarity.Builder dedupSimilarity(final String relClass, final String scheme) {
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return DedupSimilarity.newBuilder().setRelMetadata(getRelMetadata(relClass, scheme));
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}
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private static RelMetadata.Builder getRelMetadata(final String relClass, final String scheme) {
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return RelMetadata.newBuilder().setSemantics(
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Qualifier.newBuilder().setClassid(relClass).setClassname(relClass).setSchemeid(scheme).setSchemename(scheme));
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}
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public static Oaf.Builder buildRel(final DedupConfig dedupConf, final OafRel.Builder oafRel, final double trust) {
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final double sTrust = Algorithms.scale(trust, JobParams.MAX_DEDUP_TRUST);
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final Oaf.Builder oaf =
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Oaf.newBuilder()
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.setKind(Kind.relation)
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.setLastupdatetimestamp(System.currentTimeMillis())
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.setDataInfo(
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AbstractDNetXsltFunctions.getDataInfo(null, "", String.valueOf(sTrust), false, true).setInferenceprovenance(
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dedupConf.getWf().getConfigurationId())).setRel(oafRel);
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return oaf;
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}
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class ColumnFamily {
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private final RelType relType;
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private final SubRelType subRelType;
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public ColumnFamily(final RelType relType, final SubRelType subRelType) {
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this.relType = relType;
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this.subRelType = subRelType;
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}
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@Override
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public String toString() {
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return getRelType() + CF_SEPARATOR + getSubRelType();
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}
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public RelType getRelType() {
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return relType;
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}
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public SubRelType getSubRelType() {
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return subRelType;
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}
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}
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}
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