HBASE-13825 Use ProtobufUtil#mergeFrom and ProtobufUtil#mergeDelimitedFrom in place of builder methods of same name

Incorporates HBASE-14076

hbase-client/src/main/java/org/apache/hadoop/hbase/ClusterId.java

@@ -18,13 +18,13 @@
 
 package org.apache.hadoop.hbase;
 
-import com.google.protobuf.InvalidProtocolBufferException;
 import org.apache.hadoop.hbase.classification.InterfaceAudience;
 import org.apache.hadoop.hbase.exceptions.DeserializationException;
 import org.apache.hadoop.hbase.protobuf.ProtobufUtil;
 import org.apache.hadoop.hbase.protobuf.generated.ClusterIdProtos;
 import org.apache.hadoop.hbase.util.Bytes;
 
+import java.io.IOException;
 import java.util.UUID;
 
 /**
@@ -66,8 +66,9 @@ public class ClusterId {
       ClusterIdProtos.ClusterId.Builder builder = ClusterIdProtos.ClusterId.newBuilder();
       ClusterIdProtos.ClusterId cid = null;
       try {
-        cid = builder.mergeFrom(bytes, pblen, bytes.length - pblen).build();
+        ProtobufUtil.mergeFrom(builder, bytes, pblen, bytes.length - pblen);
-      } catch (InvalidProtocolBufferException e) {
+        cid = builder.build();
+      } catch (IOException e) {
         throw new DeserializationException(e);
       }
       return convert(cid);

hbase-client/src/main/java/org/apache/hadoop/hbase/HColumnDescriptor.java

@@ -46,7 +46,6 @@ import org.apache.hadoop.io.WritableComparable;
 
 import com.google.common.base.Preconditions;
 import org.apache.hadoop.hbase.util.ByteStringer;
-import com.google.protobuf.InvalidProtocolBufferException;
 
 /**
  * An HColumnDescriptor contains information about a column family such as the
@@ -1420,8 +1419,9 @@ public class HColumnDescriptor implements WritableComparable<HColumnDescriptor>
     ColumnFamilySchema.Builder builder = ColumnFamilySchema.newBuilder();
     ColumnFamilySchema cfs = null;
     try {
-      cfs = builder.mergeFrom(bytes, pblen, bytes.length - pblen).build();
+      ProtobufUtil.mergeFrom(builder, bytes, pblen, bytes.length - pblen);
-    } catch (InvalidProtocolBufferException e) {
+      cfs = builder.build();
+    } catch (IOException e) {
       throw new DeserializationException(e);
     }
     return convert(cfs);

hbase-client/src/main/java/org/apache/hadoop/hbase/HRegionInfo.java

@@ -48,8 +48,6 @@ import org.apache.hadoop.hbase.util.Pair;
 import org.apache.hadoop.hbase.util.PairOfSameType;
 import org.apache.hadoop.io.DataInputBuffer;
 
-import com.google.protobuf.InvalidProtocolBufferException;
-
 /**
  * Information about a region. A region is a range of keys in the whole keyspace of a table, an
  * identifier (a timestamp) for differentiating between subset ranges (after region split)
@@ -1118,11 +1116,11 @@ public class HRegionInfo implements Comparable<HRegionInfo> {
     if (ProtobufUtil.isPBMagicPrefix(bytes, offset, len)) {
       int pblen = ProtobufUtil.lengthOfPBMagic();
       try {
-        HBaseProtos.RegionInfo ri =
+        HBaseProtos.RegionInfo.Builder builder = HBaseProtos.RegionInfo.newBuilder();
-            HBaseProtos.RegionInfo.newBuilder().
+        ProtobufUtil.mergeFrom(builder, bytes, pblen + offset, len - pblen);
-                mergeFrom(bytes, pblen + offset, len - pblen).build();
+        HBaseProtos.RegionInfo ri = builder.build();
         return convert(ri);
-      } catch (InvalidProtocolBufferException e) {
+      } catch (IOException e) {
         throw new DeserializationException(e);
       }
     } else {

hbase-client/src/main/java/org/apache/hadoop/hbase/HTableDescriptor.java

@@ -56,8 +56,6 @@ import org.apache.hadoop.hbase.util.Bytes;
 import org.apache.hadoop.hbase.util.Writables;
 import org.apache.hadoop.io.WritableComparable;
 
-import com.google.protobuf.InvalidProtocolBufferException;
-
 /**
  * HTableDescriptor contains the details about an HBase table  such as the descriptors of
  * all the column families, is the table a catalog table, <code> -ROOT- </code> or
@@ -1585,8 +1583,9 @@ public class HTableDescriptor implements WritableComparable<HTableDescriptor> {
     TableSchema.Builder builder = TableSchema.newBuilder();
     TableSchema ts;
     try {
-      ts = builder.mergeFrom(bytes, pblen, bytes.length - pblen).build();
+      ProtobufUtil.mergeFrom(builder, bytes, pblen, bytes.length - pblen);
-    } catch (InvalidProtocolBufferException e) {
+      ts = builder.build();
+    } catch (IOException e) {
       throw new DeserializationException(e);
     }
     return convert(ts);

hbase-client/src/main/java/org/apache/hadoop/hbase/RegionTransition.java

@@ -17,8 +17,9 @@
  */
 package org.apache.hadoop.hbase;
 
+import java.io.IOException;
+
 import org.apache.hadoop.hbase.util.ByteStringer;
-import com.google.protobuf.InvalidProtocolBufferException;
 
 import org.apache.hadoop.hbase.classification.InterfaceAudience;
 import org.apache.hadoop.hbase.exceptions.DeserializationException;
@@ -121,10 +122,11 @@ public class RegionTransition {
     ProtobufUtil.expectPBMagicPrefix(data);
     try {
       int prefixLen = ProtobufUtil.lengthOfPBMagic();
-      ZooKeeperProtos.RegionTransition rt = ZooKeeperProtos.RegionTransition.newBuilder().
+      ZooKeeperProtos.RegionTransition.Builder builder =
-        mergeFrom(data, prefixLen, data.length - prefixLen).build();
+          ZooKeeperProtos.RegionTransition.newBuilder();
-      return new RegionTransition(rt);
+      ProtobufUtil.mergeFrom(builder, data, prefixLen, data.length - prefixLen);
-    } catch (InvalidProtocolBufferException e) {
+      return new RegionTransition(builder.build());
+    } catch (IOException e) {
       throw new DeserializationException(e);
     }
   }

hbase-client/src/main/java/org/apache/hadoop/hbase/client/HTable.java

@@ -75,7 +75,6 @@ import org.apache.hadoop.hbase.util.Threads;
 
 import com.google.common.annotations.VisibleForTesting;
 import com.google.protobuf.Descriptors;
-import com.google.protobuf.InvalidProtocolBufferException;
 import com.google.protobuf.Message;
 import com.google.protobuf.Service;
 import com.google.protobuf.ServiceException;
@@ -1884,10 +1883,10 @@ public class HTable implements HTableInterface, RegionLocator {
                   ", value=" + serviceResult.getValue().getValue());
             }
             try {
-              callback.update(region, row,
+              Message.Builder builder = responsePrototype.newBuilderForType();
-                  (R) responsePrototype.newBuilderForType().mergeFrom(
+              ProtobufUtil.mergeFrom(builder, serviceResult.getValue().getValue());
-                      serviceResult.getValue().getValue()).build());
+              callback.update(region, row, (R) builder.build());
-            } catch (InvalidProtocolBufferException e) {
+            } catch (IOException e) {
               LOG.error("Unexpected response type from endpoint " + methodDescriptor.getFullName(),
                   e);
               callbackErrorExceptions.add(e);

hbase-client/src/main/java/org/apache/hadoop/hbase/ipc/AsyncServerResponseHandler.java

@@ -28,6 +28,7 @@ import org.apache.commons.logging.Log;
 import org.apache.commons.logging.LogFactory;
 import org.apache.hadoop.hbase.CellScanner;
 import org.apache.hadoop.hbase.classification.InterfaceAudience;
+import org.apache.hadoop.hbase.protobuf.ProtobufUtil;
 import org.apache.hadoop.hbase.protobuf.generated.RPCProtos;
 import org.apache.hadoop.ipc.RemoteException;
 
@@ -90,7 +91,7 @@ public class AsyncServerResponseHandler extends ChannelInboundHandlerAdapter {
         // Call may be null because it may have timedout and been cleaned up on this side already
         if (call.responseDefaultType != null) {
           Message.Builder builder = call.responseDefaultType.newBuilderForType();
-          builder.mergeDelimitedFrom(in);
+          ProtobufUtil.mergeDelimitedFrom(builder, in);
           value = builder.build();
         }
         CellScanner cellBlockScanner = null;

hbase-client/src/main/java/org/apache/hadoop/hbase/ipc/MasterCoprocessorRpcChannel.java

@@ -68,8 +68,9 @@ public class MasterCoprocessorRpcChannel extends CoprocessorRpcChannel{
     CoprocessorServiceResponse result = ProtobufUtil.execService(connection.getMaster(), call);
     Message response = null;
     if (result.getValue().hasValue()) {
-      response = responsePrototype.newBuilderForType()
+      Message.Builder builder = responsePrototype.newBuilderForType();
-          .mergeFrom(result.getValue().getValue()).build();
+      ProtobufUtil.mergeFrom(builder, result.getValue().getValue());
+      response = builder.build();
     } else {
       response = responsePrototype.getDefaultInstanceForType();
     }

hbase-client/src/main/java/org/apache/hadoop/hbase/ipc/RegionCoprocessorRpcChannel.java

@@ -96,8 +96,9 @@ public class RegionCoprocessorRpcChannel extends CoprocessorRpcChannel{
         .callWithRetries(callable, operationTimeout);
     Message response = null;
     if (result.getValue().hasValue()) {
-      response = responsePrototype.newBuilderForType()
+      Message.Builder builder = responsePrototype.newBuilderForType();
-          .mergeFrom(result.getValue().getValue()).build();
+      ProtobufUtil.mergeFrom(builder, result.getValue().getValue());
+      response = builder.build();
     } else {
       response = responsePrototype.getDefaultInstanceForType();
     }

hbase-client/src/main/java/org/apache/hadoop/hbase/ipc/RegionServerCoprocessorRpcChannel.java

@@ -62,8 +62,9 @@ public class RegionServerCoprocessorRpcChannel extends CoprocessorRpcChannel {
         ProtobufUtil.execRegionServerService(connection.getClient(serverName), call);
     Message response = null;
     if (result.getValue().hasValue()) {
-      response =
+      Message.Builder builder = responsePrototype.newBuilderForType();
-          responsePrototype.newBuilderForType().mergeFrom(result.getValue().getValue()).build();
+      ProtobufUtil.mergeFrom(builder, result.getValue().getValue());
+      response = builder.build();
     } else {
       response = responsePrototype.getDefaultInstanceForType();
     }

hbase-client/src/main/java/org/apache/hadoop/hbase/ipc/RpcClientImpl.java

@@ -959,7 +959,7 @@ public class RpcClientImpl extends AbstractRpcClient {
           Message value = null;
           if (call.responseDefaultType != null) {
             Builder builder = call.responseDefaultType.newBuilderForType();
-            builder.mergeDelimitedFrom(in);
+            ProtobufUtil.mergeDelimitedFrom(builder, in);
             value = builder.build();
           }
           CellScanner cellBlockScanner = null;

hbase-client/src/main/java/org/apache/hadoop/hbase/protobuf/ProtobufUtil.java

@@ -22,6 +22,7 @@ import static org.apache.hadoop.hbase.protobuf.generated.HBaseProtos.RegionSpeci
 
 import java.io.ByteArrayOutputStream;
 import java.io.IOException;
+import java.io.InputStream;
 import java.lang.reflect.Constructor;
 import java.lang.reflect.InvocationTargetException;
 import java.lang.reflect.Method;
@@ -67,6 +68,7 @@ import org.apache.hadoop.hbase.client.metrics.ScanMetrics;
 import org.apache.hadoop.hbase.exceptions.DeserializationException;
 import org.apache.hadoop.hbase.filter.ByteArrayComparable;
 import org.apache.hadoop.hbase.filter.Filter;
+import org.apache.hadoop.hbase.io.LimitInputStream;
 import org.apache.hadoop.hbase.io.TimeRange;
 import org.apache.hadoop.hbase.protobuf.generated.RPCProtos;
 import org.apache.hadoop.hbase.protobuf.generated.AccessControlProtos;
@@ -155,6 +157,7 @@ import com.google.common.collect.ArrayListMultimap;
 import com.google.common.collect.ListMultimap;
 import com.google.common.collect.Lists;
 import com.google.protobuf.ByteString;
+import com.google.protobuf.CodedInputStream;
 import com.google.protobuf.InvalidProtocolBufferException;
 import com.google.protobuf.Message;
 import com.google.protobuf.Parser;
@@ -2765,8 +2768,9 @@ public final class ProtobufUtil {
     ClientProtos.CellVisibility.Builder builder = ClientProtos.CellVisibility.newBuilder();
     ClientProtos.CellVisibility proto = null;
     try {
-      proto = builder.mergeFrom(protoBytes).build();
+      ProtobufUtil.mergeFrom(builder, protoBytes);
-    } catch (InvalidProtocolBufferException e) {
+      proto = builder.build();
+    } catch (IOException e) {
       throw new DeserializationException(e);
     }
     return toCellVisibility(proto);
@@ -2807,8 +2811,9 @@ public final class ProtobufUtil {
     ClientProtos.Authorizations.Builder builder = ClientProtos.Authorizations.newBuilder();
     ClientProtos.Authorizations proto = null;
     try {
-      proto = builder.mergeFrom(protoBytes).build();
+      ProtobufUtil.mergeFrom(builder, protoBytes);
-    } catch (InvalidProtocolBufferException e) {
+      proto = builder.build();
+    } catch (IOException e) {
       throw new DeserializationException(e);
     }
     return toAuthorizations(proto);
@@ -3070,6 +3075,104 @@ public final class ProtobufUtil {
     return desc.build();
   }
 
+  /**
+   * This version of protobuf's mergeDelimitedFrom avoids the hard-coded 64MB limit for decoding
+   * buffers
+   * @param builder current message builder
+   * @param in Inputsream with delimited protobuf data
+   * @throws IOException
+   */
+  public static void mergeDelimitedFrom(Message.Builder builder, InputStream in)
+    throws IOException {
+    // This used to be builder.mergeDelimitedFrom(in);
+    // but is replaced to allow us to bump the protobuf size limit.
+    final int firstByte = in.read();
+    if (firstByte != -1) {
+      final int size = CodedInputStream.readRawVarint32(firstByte, in);
+      final InputStream limitedInput = new LimitInputStream(in, size);
+      final CodedInputStream codedInput = CodedInputStream.newInstance(limitedInput);
+      codedInput.setSizeLimit(size);
+      builder.mergeFrom(codedInput);
+      codedInput.checkLastTagWas(0);
+    }
+  }
+
+  /**
+   * This version of protobuf's mergeFrom avoids the hard-coded 64MB limit for decoding
+   * buffers where the message size is known
+   * @param builder current message builder
+   * @param in InputStream containing protobuf data
+   * @param size known size of protobuf data
+   * @throws IOException 
+   */
+  public static void mergeFrom(Message.Builder builder, InputStream in, int size)
+      throws IOException {
+    final CodedInputStream codedInput = CodedInputStream.newInstance(in);
+    codedInput.setSizeLimit(size);
+    builder.mergeFrom(codedInput);
+    codedInput.checkLastTagWas(0);
+  }
+
+  /**
+   * This version of protobuf's mergeFrom avoids the hard-coded 64MB limit for decoding
+   * buffers where the message size is not known
+   * @param builder current message builder
+   * @param in InputStream containing protobuf data
+   * @throws IOException 
+   */
+  public static void mergeFrom(Message.Builder builder, InputStream in)
+      throws IOException {
+    final CodedInputStream codedInput = CodedInputStream.newInstance(in);
+    codedInput.setSizeLimit(Integer.MAX_VALUE);
+    builder.mergeFrom(codedInput);
+    codedInput.checkLastTagWas(0);
+  }
+
+  /**
+   * This version of protobuf's mergeFrom avoids the hard-coded 64MB limit for decoding
+   * buffers when working with ByteStrings
+   * @param builder current message builder
+   * @param bs ByteString containing the 
+   * @throws IOException 
+   */
+  public static void mergeFrom(Message.Builder builder, ByteString bs) throws IOException {
+    final CodedInputStream codedInput = bs.newCodedInput();
+    codedInput.setSizeLimit(bs.size());
+    builder.mergeFrom(codedInput);
+    codedInput.checkLastTagWas(0);
+  }
+
+  /**
+   * This version of protobuf's mergeFrom avoids the hard-coded 64MB limit for decoding
+   * buffers when working with byte arrays
+   * @param builder current message builder
+   * @param b byte array
+   * @throws IOException 
+   */
+  public static void mergeFrom(Message.Builder builder, byte[] b) throws IOException {
+    final CodedInputStream codedInput = CodedInputStream.newInstance(b);
+    codedInput.setSizeLimit(b.length);
+    builder.mergeFrom(codedInput);
+    codedInput.checkLastTagWas(0);
+  }
+
+  /**
+   * This version of protobuf's mergeFrom avoids the hard-coded 64MB limit for decoding
+   * buffers when working with byte arrays
+   * @param builder current message builder
+   * @param b byte array
+   * @param offset
+   * @param length
+   * @throws IOException
+   */
+  public static void mergeFrom(Message.Builder builder, byte[] b, int offset, int length)
+      throws IOException {
+    final CodedInputStream codedInput = CodedInputStream.newInstance(b, offset, length);
+    codedInput.setSizeLimit(length);
+    builder.mergeFrom(codedInput);
+    codedInput.checkLastTagWas(0);
+  }
+
   public static ReplicationLoadSink toReplicationLoadSink(
       ClusterStatusProtos.ReplicationLoadSink cls) {
     return new ReplicationLoadSink(cls.getAgeOfLastAppliedOp(), cls.getTimeStampsOfLastAppliedOp());

hbase-client/src/main/java/org/apache/hadoop/hbase/replication/ReplicationPeerZKImpl.java

@@ -41,8 +41,6 @@ import org.apache.hadoop.hbase.zookeeper.ZooKeeperWatcher;
 import org.apache.zookeeper.KeeperException;
 import org.apache.zookeeper.KeeperException.NodeExistsException;
 
-import com.google.protobuf.InvalidProtocolBufferException;
-
 @InterfaceAudience.Private
 public class ReplicationPeerZKImpl implements ReplicationPeer, Abortable, Closeable {
   private static final Log LOG = LogFactory.getLog(ReplicationPeerZKImpl.class);
@@ -199,9 +197,10 @@ public class ReplicationPeerZKImpl implements ReplicationPeer, Abortable, Closea
         ZooKeeperProtos.ReplicationState.newBuilder();
     ZooKeeperProtos.ReplicationState state;
     try {
-      state = builder.mergeFrom(bytes, pblen, bytes.length - pblen).build();
+      ProtobufUtil.mergeFrom(builder, bytes, pblen, bytes.length - pblen);
+      state = builder.build();
       return state.getState();
-    } catch (InvalidProtocolBufferException e) {
+    } catch (IOException e) {
       throw new DeserializationException(e);
     }
   }

hbase-client/src/main/java/org/apache/hadoop/hbase/replication/ReplicationPeersZKImpl.java

@@ -48,7 +48,6 @@ import org.apache.hadoop.hbase.zookeeper.ZKUtil.ZKUtilOp;
 import org.apache.zookeeper.KeeperException;
 
 import com.google.protobuf.ByteString;
-import com.google.protobuf.InvalidProtocolBufferException;
 
 /**
  * This class provides an implementation of the ReplicationPeers interface using Zookeeper. The
@@ -492,8 +491,9 @@ public class ReplicationPeersZKImpl extends ReplicationStateZKBase implements Re
           ZooKeeperProtos.ReplicationPeer.newBuilder();
       ZooKeeperProtos.ReplicationPeer peer;
       try {
-        peer = builder.mergeFrom(bytes, pblen, bytes.length - pblen).build();
+        ProtobufUtil.mergeFrom(builder, bytes, pblen, bytes.length - pblen);
-      } catch (InvalidProtocolBufferException e) {
+        peer = builder.build();
+      } catch (IOException e) {
         throw new DeserializationException(e);
       }
       return convert(peer);

hbase-client/src/main/java/org/apache/hadoop/hbase/security/token/AuthenticationTokenIdentifier.java

@@ -20,6 +20,7 @@ package org.apache.hadoop.hbase.security.token;
 
 import com.google.protobuf.ByteString;
 import org.apache.hadoop.hbase.classification.InterfaceAudience;
+import org.apache.hadoop.hbase.protobuf.ProtobufUtil;
 import org.apache.hadoop.hbase.protobuf.generated.AuthenticationProtos;
 import org.apache.hadoop.io.Text;
 import org.apache.hadoop.security.UserGroupInformation;
@@ -136,8 +137,10 @@ public class AuthenticationTokenIdentifier extends TokenIdentifier {
     int len = in.readInt();
     byte[] inBytes = new byte[len];
     in.readFully(inBytes);
-    AuthenticationProtos.TokenIdentifier identifier =
+    AuthenticationProtos.TokenIdentifier.Builder builder =
-        AuthenticationProtos.TokenIdentifier.newBuilder().mergeFrom(inBytes).build();
+      AuthenticationProtos.TokenIdentifier.newBuilder();
+    ProtobufUtil.mergeFrom(builder, inBytes);
+    AuthenticationProtos.TokenIdentifier identifier = builder.build();
     // sanity check on type
     if (!identifier.hasKind() ||
         identifier.getKind() != AuthenticationProtos.TokenIdentifier.Kind.HBASE_AUTH_TOKEN) {

hbase-client/src/main/java/org/apache/hadoop/hbase/zookeeper/ZKTableStateClientSideReader.java

@@ -19,8 +19,6 @@
  */
 package org.apache.hadoop.hbase.zookeeper;
 
-import com.google.protobuf.InvalidProtocolBufferException;
-
 import org.apache.hadoop.hbase.classification.InterfaceAudience;
 import org.apache.hadoop.hbase.TableName;
 import org.apache.hadoop.hbase.exceptions.DeserializationException;
@@ -28,6 +26,7 @@ import org.apache.hadoop.hbase.protobuf.ProtobufUtil;
 import org.apache.hadoop.hbase.protobuf.generated.ZooKeeperProtos;
 import org.apache.zookeeper.KeeperException;
 
+import java.io.IOException;
 import java.util.HashSet;
 import java.util.List;
 import java.util.Set;
@@ -189,9 +188,9 @@ public class ZKTableStateClientSideReader {
       ProtobufUtil.expectPBMagicPrefix(data);
       ZooKeeperProtos.Table.Builder builder = ZooKeeperProtos.Table.newBuilder();
       int magicLen = ProtobufUtil.lengthOfPBMagic();
-      ZooKeeperProtos.Table t = builder.mergeFrom(data, magicLen, data.length - magicLen).build();
+      ProtobufUtil.mergeFrom(builder, data, magicLen, data.length - magicLen);
-      return t.getState();
+      return builder.getState();
-    } catch (InvalidProtocolBufferException e) {
+    } catch (IOException e) {
       KeeperException ke = new KeeperException.DataInconsistencyException();
       ke.initCause(e);
       throw ke;

hbase-client/src/main/java/org/apache/hadoop/hbase/zookeeper/ZKUtil.java

@@ -1956,12 +1956,14 @@ public class ZKUtil {
       }
       // parse the data of the above peer znode.
       try {
-      String clusterKey = ZooKeeperProtos.ReplicationPeer.newBuilder().
+        ZooKeeperProtos.ReplicationPeer.Builder builder =
-        mergeFrom(data, pblen, data.length - pblen).getClusterkey();
+          ZooKeeperProtos.ReplicationPeer.newBuilder();
-      sb.append("\n").append(znodeToProcess).append(": ").append(clusterKey);
+        ProtobufUtil.mergeFrom(builder, data, pblen, data.length - pblen);
-      // add the peer-state.
+        String clusterKey = builder.getClusterkey();
-      appendPeerState(zkw, znodeToProcess, sb);
+        sb.append("\n").append(znodeToProcess).append(": ").append(clusterKey);
-      } catch (InvalidProtocolBufferException ipbe) {
+        // add the peer-state.
+        appendPeerState(zkw, znodeToProcess, sb);
+      } catch (IOException ipbe) {
         LOG.warn("Got Exception while parsing peer: " + znodeToProcess, ipbe);
       }
     }
@@ -1979,8 +1981,12 @@ public class ZKUtil {
       byte[] peerStateData;
       try {
         peerStateData = ZKUtil.getData(zkw, peerStateZnode);
-        sb.append(ZooKeeperProtos.ReplicationState.newBuilder()
+        ZooKeeperProtos.ReplicationState.Builder builder =
-            .mergeFrom(peerStateData, pblen, peerStateData.length - pblen).getState().name());
+            ZooKeeperProtos.ReplicationState.newBuilder();
+        ProtobufUtil.mergeFrom(builder, peerStateData, pblen, peerStateData.length - pblen);
+        sb.append(builder.getState().name());
+      } catch (IOException ipbe) {
+        LOG.warn("Got Exception while parsing peer: " + znodeToProcess, ipbe);
       } catch (InterruptedException e) {
         zkw.interruptedException(e);
         return;
@@ -2201,8 +2207,9 @@ public class ZKUtil {
           ZooKeeperProtos.ReplicationHLogPosition.newBuilder();
       ZooKeeperProtos.ReplicationHLogPosition position;
       try {
-        position = builder.mergeFrom(bytes, pblen, bytes.length - pblen).build();
+        ProtobufUtil.mergeFrom(builder, bytes, pblen, bytes.length - pblen);
-      } catch (InvalidProtocolBufferException e) {
+        position = builder.build();
+      } catch (IOException e) {
         throw new DeserializationException(e);
       }
       return position.getPosition();
@@ -2257,8 +2264,9 @@ public class ZKUtil {
     int pblen = ProtobufUtil.lengthOfPBMagic();
     RegionStoreSequenceIds storeIds = null;
     try {
-      storeIds = regionSequenceIdsBuilder.mergeFrom(bytes, pblen, bytes.length - pblen).build();
+      ProtobufUtil.mergeFrom(regionSequenceIdsBuilder, bytes, pblen, bytes.length - pblen);
-    } catch (InvalidProtocolBufferException e) {
+      storeIds = regionSequenceIdsBuilder.build();
+    } catch (IOException e) {
       throw new DeserializationException(e);
     }
     return storeIds;

hbase-examples/src/main/java/org/apache/hadoop/hbase/types/PBCell.java

@@ -37,6 +37,7 @@ public class PBCell extends PBType<CellProtos.Cell> {
   public int skip(PositionedByteRange src) {
     CellProtos.Cell.Builder builder = CellProtos.Cell.newBuilder();
     CodedInputStream is = inputStreamFromByteRange(src);
+    is.setSizeLimit(src.getLength());
     try {
       builder.mergeFrom(is);
       int consumed = is.getTotalBytesRead();
@@ -51,6 +52,7 @@ public class PBCell extends PBType<CellProtos.Cell> {
   public CellProtos.Cell decode(PositionedByteRange src) {
     CellProtos.Cell.Builder builder = CellProtos.Cell.newBuilder();
     CodedInputStream is = inputStreamFromByteRange(src);
+    is.setSizeLimit(src.getLength());
     try {
       CellProtos.Cell ret = builder.mergeFrom(is).build();
       src.setPosition(src.getPosition() + is.getTotalBytesRead());

hbase-rest/src/main/java/org/apache/hadoop/hbase/rest/model/CellModel.java

@@ -33,6 +33,7 @@ import org.apache.hadoop.hbase.classification.InterfaceAudience;
 import org.apache.hadoop.hbase.CellUtil;
 import org.apache.hadoop.hbase.HConstants;
 import org.apache.hadoop.hbase.KeyValue;
+import org.apache.hadoop.hbase.protobuf.ProtobufUtil;
 import org.apache.hadoop.hbase.rest.ProtobufMessageHandler;
 import org.apache.hadoop.hbase.rest.protobuf.generated.CellMessage.Cell;
 import org.codehaus.jackson.annotate.JsonProperty;
@@ -198,7 +199,7 @@ public class CellModel implements ProtobufMessageHandler, Serializable {
   public ProtobufMessageHandler getObjectFromMessage(byte[] message)
       throws IOException {
     Cell.Builder builder = Cell.newBuilder();
-    builder.mergeFrom(message);
+    ProtobufUtil.mergeFrom(builder, message);
     setColumn(builder.getColumn().toByteArray());
     setValue(builder.getData().toByteArray());
     if (builder.hasTimestamp()) {

hbase-rest/src/main/java/org/apache/hadoop/hbase/rest/model/CellSetModel.java

@@ -32,6 +32,7 @@ import javax.xml.bind.annotation.XmlRootElement;
 import org.apache.hadoop.hbase.util.ByteStringer;
 import org.apache.hadoop.hbase.classification.InterfaceAudience;
 import org.apache.hadoop.hbase.HConstants;
+import org.apache.hadoop.hbase.protobuf.ProtobufUtil;
 import org.apache.hadoop.hbase.rest.ProtobufMessageHandler;
 import org.apache.hadoop.hbase.rest.protobuf.generated.CellMessage.Cell;
 import org.apache.hadoop.hbase.rest.protobuf.generated.CellSetMessage.CellSet;
@@ -133,7 +134,7 @@ public class CellSetModel implements Serializable, ProtobufMessageHandler {
   public ProtobufMessageHandler getObjectFromMessage(byte[] message)
       throws IOException {
     CellSet.Builder builder = CellSet.newBuilder();
-    builder.mergeFrom(message);
+    ProtobufUtil.mergeFrom(builder, message);
     for (CellSet.Row row: builder.getRowsList()) {
       RowModel rowModel = new RowModel(row.getKey().toByteArray());
       for (Cell cell: row.getValuesList()) {

hbase-rest/src/main/java/org/apache/hadoop/hbase/rest/model/ScannerModel.java

@@ -69,6 +69,7 @@ import org.apache.hadoop.hbase.filter.SubstringComparator;
 import org.apache.hadoop.hbase.filter.TimestampsFilter;
 import org.apache.hadoop.hbase.filter.ValueFilter;
 import org.apache.hadoop.hbase.filter.WhileMatchFilter;
+import org.apache.hadoop.hbase.protobuf.ProtobufUtil;
 import org.apache.hadoop.hbase.rest.ProtobufMessageHandler;
 import org.apache.hadoop.hbase.rest.protobuf.generated.ScannerMessage.Scanner;
 import org.apache.hadoop.hbase.security.visibility.Authorizations;
@@ -827,7 +828,7 @@ public class ScannerModel implements ProtobufMessageHandler, Serializable {
   public ProtobufMessageHandler getObjectFromMessage(byte[] message)
       throws IOException {
     Scanner.Builder builder = Scanner.newBuilder();
-    builder.mergeFrom(message);
+    ProtobufUtil.mergeFrom(builder, message);
     if (builder.hasStartRow()) {
       startRow = builder.getStartRow().toByteArray();
     }

hbase-rest/src/main/java/org/apache/hadoop/hbase/rest/model/StorageClusterStatusModel.java

@@ -31,6 +31,7 @@ import javax.xml.bind.annotation.XmlRootElement;
 
 import org.apache.hadoop.hbase.util.ByteStringer;
 import org.apache.hadoop.hbase.classification.InterfaceAudience;
+import org.apache.hadoop.hbase.protobuf.ProtobufUtil;
 import org.apache.hadoop.hbase.rest.ProtobufMessageHandler;
 import org.apache.hadoop.hbase.rest.protobuf.generated.StorageClusterStatusMessage.StorageClusterStatus;
 import org.apache.hadoop.hbase.util.Bytes;
@@ -748,7 +749,7 @@ public class StorageClusterStatusModel
   public ProtobufMessageHandler getObjectFromMessage(byte[] message)
       throws IOException {
     StorageClusterStatus.Builder builder = StorageClusterStatus.newBuilder();
-    builder.mergeFrom(message);
+    ProtobufUtil.mergeFrom(builder, message);
     if (builder.hasRegions()) {
       regions = builder.getRegions();
     }

hbase-rest/src/main/java/org/apache/hadoop/hbase/rest/model/TableInfoModel.java

@@ -30,6 +30,7 @@ import javax.xml.bind.annotation.XmlRootElement;
 
 import org.apache.hadoop.hbase.util.ByteStringer;
 import org.apache.hadoop.hbase.classification.InterfaceAudience;
+import org.apache.hadoop.hbase.protobuf.ProtobufUtil;
 import org.apache.hadoop.hbase.rest.ProtobufMessageHandler;
 import org.apache.hadoop.hbase.rest.protobuf.generated.TableInfoMessage.TableInfo;
 
@@ -146,7 +147,7 @@ public class TableInfoModel implements Serializable, ProtobufMessageHandler {
   public ProtobufMessageHandler getObjectFromMessage(byte[] message) 
       throws IOException {
     TableInfo.Builder builder = TableInfo.newBuilder();
-    builder.mergeFrom(message);
+    ProtobufUtil.mergeFrom(builder, message);
     setName(builder.getName());
     for (TableInfo.Region region: builder.getRegionsList()) {
       add(new TableRegionModel(builder.getName(), region.getId(), 

hbase-rest/src/main/java/org/apache/hadoop/hbase/rest/model/TableListModel.java

@@ -28,6 +28,7 @@ import javax.xml.bind.annotation.XmlElementRef;
 import javax.xml.bind.annotation.XmlRootElement;
 
 import org.apache.hadoop.hbase.classification.InterfaceAudience;
+import org.apache.hadoop.hbase.protobuf.ProtobufUtil;
 import org.apache.hadoop.hbase.rest.ProtobufMessageHandler;
 import org.apache.hadoop.hbase.rest.protobuf.generated.TableListMessage.TableList;
 
@@ -104,7 +105,7 @@ public class TableListModel implements Serializable, ProtobufMessageHandler {
   public ProtobufMessageHandler getObjectFromMessage(byte[] message)
       throws IOException {
     TableList.Builder builder = TableList.newBuilder();
-    builder.mergeFrom(message);
+    ProtobufUtil.mergeFrom(builder, message);
     for (String table: builder.getNameList()) {
       this.add(new TableModel(table));
     }

hbase-rest/src/main/java/org/apache/hadoop/hbase/rest/model/TableSchemaModel.java

@@ -39,6 +39,7 @@ import org.apache.hadoop.hbase.HConstants;
 import org.apache.hadoop.hbase.HTableDescriptor;
 import org.apache.hadoop.hbase.TableName;
 import org.apache.hadoop.hbase.io.ImmutableBytesWritable;
+import org.apache.hadoop.hbase.protobuf.ProtobufUtil;
 import org.apache.hadoop.hbase.rest.ProtobufMessageHandler;
 import org.apache.hadoop.hbase.rest.protobuf.generated.ColumnSchemaMessage.ColumnSchema;
 import org.apache.hadoop.hbase.rest.protobuf.generated.TableSchemaMessage.TableSchema;
@@ -309,7 +310,7 @@ public class TableSchemaModel implements Serializable, ProtobufMessageHandler {
   public ProtobufMessageHandler getObjectFromMessage(byte[] message) 
       throws IOException {
     TableSchema.Builder builder = TableSchema.newBuilder();
-    builder.mergeFrom(message);
+    ProtobufUtil.mergeFrom(builder, message);
     this.setName(builder.getName());
     for (TableSchema.Attribute attr: builder.getAttrsList()) {
       this.addAttribute(attr.getName(), attr.getValue());

hbase-rest/src/main/java/org/apache/hadoop/hbase/rest/model/VersionModel.java

@@ -27,6 +27,7 @@ import javax.xml.bind.annotation.XmlAttribute;
 import javax.xml.bind.annotation.XmlRootElement;
 
 import org.apache.hadoop.hbase.classification.InterfaceAudience;
+import org.apache.hadoop.hbase.protobuf.ProtobufUtil;
 import org.apache.hadoop.hbase.rest.ProtobufMessageHandler;
 import org.apache.hadoop.hbase.rest.RESTServlet;
 import org.apache.hadoop.hbase.rest.protobuf.generated.VersionMessage.Version;
@@ -188,7 +189,7 @@ public class VersionModel implements Serializable, ProtobufMessageHandler {
   public ProtobufMessageHandler getObjectFromMessage(byte[] message)
       throws IOException {
     Version.Builder builder = Version.newBuilder();
-    builder.mergeFrom(message);
+    ProtobufUtil.mergeFrom(builder, message);
     if (builder.hasRestVersion()) {
       restVersion = builder.getRestVersion();
     }

hbase-server/src/main/java/org/apache/hadoop/hbase/SplitLogTask.java

@@ -17,6 +17,8 @@
  */
 package org.apache.hadoop.hbase;
 
+import java.io.IOException;
+
 import org.apache.hadoop.hbase.classification.InterfaceAudience;
 import org.apache.hadoop.hbase.exceptions.DeserializationException;
 import org.apache.hadoop.hbase.protobuf.ProtobufUtil;
@@ -25,8 +27,6 @@ import org.apache.hadoop.hbase.protobuf.generated.ZooKeeperProtos;
 import org.apache.hadoop.hbase.protobuf.generated.ZooKeeperProtos.SplitLogTask.RecoveryMode;
 import org.apache.hadoop.hbase.util.Bytes;
 
-import com.google.protobuf.InvalidProtocolBufferException;
-
 /**
  * State of a WAL log split during distributed splitting.  State is kept up in zookeeper.
  * Encapsulates protobuf serialization/deserialization so we don't leak generated pb outside of
@@ -160,10 +160,10 @@ public class SplitLogTask {
     ProtobufUtil.expectPBMagicPrefix(data);
     try {
       int prefixLen = ProtobufUtil.lengthOfPBMagic();
-      ZooKeeperProtos.SplitLogTask slt = ZooKeeperProtos.SplitLogTask.newBuilder().
+      ZooKeeperProtos.SplitLogTask.Builder builder = ZooKeeperProtos.SplitLogTask.newBuilder();
-        mergeFrom(data, prefixLen, data.length - prefixLen).build();
+      ProtobufUtil.mergeFrom(builder, data, prefixLen, data.length - prefixLen);
-      return new SplitLogTask(slt);
+      return new SplitLogTask(builder.build());
-    } catch (InvalidProtocolBufferException e) {
+    } catch (IOException e) {
       throw new DeserializationException(Bytes.toStringBinary(data, 0, 64), e);
     }
   }

hbase-server/src/main/java/org/apache/hadoop/hbase/ipc/RpcServer.java

@@ -131,7 +131,6 @@ import com.google.protobuf.BlockingService;
 import com.google.protobuf.CodedInputStream;
 import com.google.protobuf.Descriptors.MethodDescriptor;
 import com.google.protobuf.Message;
-import com.google.protobuf.Message.Builder;
 import com.google.protobuf.ServiceException;
 import com.google.protobuf.TextFormat;
 
@@ -1778,7 +1777,9 @@ public class RpcServer implements RpcServerInterface {
       CodedInputStream cis = CodedInputStream.newInstance(buf, offset, buf.length);
       int headerSize = cis.readRawVarint32();
       offset = cis.getTotalBytesRead();
-      RequestHeader header = RequestHeader.newBuilder().mergeFrom(buf, offset, headerSize).build();
+      Message.Builder builder = RequestHeader.newBuilder();
+      ProtobufUtil.mergeFrom(builder, buf, offset, headerSize);
+      RequestHeader header = (RequestHeader) builder.build();
       offset += headerSize;
       int id = header.getCallId();
       if (LOG.isTraceEnabled()) {
@@ -1806,13 +1807,14 @@ public class RpcServer implements RpcServerInterface {
         if (header.hasRequestParam() && header.getRequestParam()) {
           md = this.service.getDescriptorForType().findMethodByName(header.getMethodName());
           if (md == null) throw new UnsupportedOperationException(header.getMethodName());
-          Builder builder = this.service.getRequestPrototype(md).newBuilderForType();
+          builder = this.service.getRequestPrototype(md).newBuilderForType();
           // To read the varint, I need an inputstream; might as well be a CIS.
           cis = CodedInputStream.newInstance(buf, offset, buf.length);
           int paramSize = cis.readRawVarint32();
           offset += cis.getTotalBytesRead();
           if (builder != null) {
-            param = builder.mergeFrom(buf, offset, paramSize).build();
+            ProtobufUtil.mergeFrom(builder, buf, offset, paramSize);
+            param = builder.build();
           }
           offset += paramSize;
         }

hbase-server/src/main/java/org/apache/hadoop/hbase/mapreduce/MutationSerialization.java

@@ -25,7 +25,7 @@ import org.apache.hadoop.hbase.client.Delete;
 import org.apache.hadoop.hbase.client.Mutation;
 import org.apache.hadoop.hbase.client.Put;
 import org.apache.hadoop.hbase.protobuf.ProtobufUtil;
-import org.apache.hadoop.hbase.protobuf.generated.ClientProtos.MutationProto;
+import org.apache.hadoop.hbase.protobuf.generated.ClientProtos;
 import org.apache.hadoop.hbase.protobuf.generated.ClientProtos.MutationProto.MutationType;
 import org.apache.hadoop.io.serializer.Deserializer;
 import org.apache.hadoop.io.serializer.Serialization;
@@ -57,7 +57,9 @@ public class MutationSerialization implements Serialization<Mutation> {
 
     @Override
     public Mutation deserialize(Mutation mutation) throws IOException {
-      MutationProto proto = MutationProto.parseDelimitedFrom(in);
+      ClientProtos.MutationProto.Builder builder = ClientProtos.MutationProto.newBuilder();
+      ProtobufUtil.mergeDelimitedFrom(builder, in);
+      ClientProtos.MutationProto proto = builder.build();
       return ProtobufUtil.toMutation(proto);
     }
 

hbase-server/src/main/java/org/apache/hadoop/hbase/mapreduce/ResultSerialization.java

@@ -125,7 +125,9 @@ public class ResultSerialization extends Configured implements Serialization<Res
 
     @Override
     public Result deserialize(Result mutation) throws IOException {
-      ClientProtos.Result proto = ClientProtos.Result.parseDelimitedFrom(in);
+      ClientProtos.Result.Builder builder = ClientProtos.Result.newBuilder();
+      ProtobufUtil.mergeDelimitedFrom(builder, in);
+      ClientProtos.Result proto = builder.build();
       return ProtobufUtil.toResult(proto);
     }
 

hbase-server/src/main/java/org/apache/hadoop/hbase/master/MasterRpcServices.java

@@ -628,8 +628,9 @@ public class MasterRpcServices extends RSRpcServices
       }
 
       //invoke the method
-      Message execRequest = service.getRequestPrototype(methodDesc).newBuilderForType()
+      Message.Builder builderForType = service.getRequestPrototype(methodDesc).newBuilderForType();
-          .mergeFrom(call.getRequest()).build();
+      ProtobufUtil.mergeFrom(builderForType, call.getRequest());
+      Message execRequest = builderForType.build();
       final Message.Builder responseBuilder =
           service.getResponsePrototype(methodDesc).newBuilderForType();
       service.callMethod(methodDesc, execController, execRequest, new RpcCallback<Message>() {

hbase-server/src/main/java/org/apache/hadoop/hbase/master/TableLockManager.java

@@ -41,8 +41,6 @@ import org.apache.hadoop.hbase.zookeeper.ZooKeeperWatcher;
 import org.apache.hadoop.hbase.zookeeper.lock.ZKInterProcessReadWriteLock;
 import org.apache.zookeeper.KeeperException;
 
-import com.google.protobuf.InvalidProtocolBufferException;
-
 /**
  * A manager for distributed table level locks.
  */
@@ -213,10 +211,10 @@ public abstract class TableLockManager {
       return null;
     }
     try {
-      ZooKeeperProtos.TableLock data = ZooKeeperProtos.TableLock.newBuilder().mergeFrom(
+      ZooKeeperProtos.TableLock.Builder builder = ZooKeeperProtos.TableLock.newBuilder();
-          bytes, pblen, bytes.length - pblen).build();
+      ProtobufUtil.mergeFrom(builder, bytes, pblen, bytes.length - pblen);
-      return data;
+      return builder.build();
-    } catch (InvalidProtocolBufferException ex) {
+    } catch (IOException ex) {
       LOG.warn("Exception in deserialization", ex);
     }
     return null;

hbase-server/src/main/java/org/apache/hadoop/hbase/regionserver/HRegion.java

@@ -7453,8 +7453,9 @@ public class HRegion implements HeapSize, PropagatingConfigurationObserver, Regi
               " in region "+Bytes.toStringBinary(getRegionInfo().getRegionName()));
     }
 
-    Message request = service.getRequestPrototype(methodDesc).newBuilderForType()
+    Message.Builder builder = service.getRequestPrototype(methodDesc).newBuilderForType();
-        .mergeFrom(call.getRequest()).build();
+    ProtobufUtil.mergeFrom(builder, call.getRequest());
+    Message request = builder.build();
 
     if (coprocessorHost != null) {
       request = coprocessorHost.preEndpointInvocation(service, methodName, request);

hbase-server/src/main/java/org/apache/hadoop/hbase/regionserver/HRegionServer.java

@@ -3235,9 +3235,9 @@ public class HRegionServer extends HasThread implements
         throw new UnknownProtocolException(service.getClass(), "Unknown method " + methodName
             + " called on service " + serviceName);
       }
-      Message request =
+      Message.Builder builderForType = service.getRequestPrototype(methodDesc).newBuilderForType();
-          service.getRequestPrototype(methodDesc).newBuilderForType().mergeFrom(call.getRequest())
+      ProtobufUtil.mergeFrom(builderForType, call.getRequest());
-              .build();
+      Message request = builderForType.build();
       final Message.Builder responseBuilder =
           service.getResponsePrototype(methodDesc).newBuilderForType();
       service.callMethod(methodDesc, serviceController, request, new RpcCallback<Message>() {

hbase-server/src/main/java/org/apache/hadoop/hbase/regionserver/wal/ProtobufLogReader.java

@@ -21,7 +21,6 @@ package org.apache.hadoop.hbase.regionserver.wal;
 
 import java.io.EOFException;
 import java.io.IOException;
-import java.io.InputStream;
 import java.nio.ByteBuffer;
 import java.util.ArrayList;
 import java.util.Arrays;
@@ -35,8 +34,9 @@ import org.apache.hadoop.fs.Path;
 import org.apache.hadoop.fs.FileSystem;
 import org.apache.hadoop.fs.FSDataInputStream;
 import org.apache.hadoop.hbase.codec.Codec;
-import org.apache.hadoop.hbase.HBaseInterfaceAudience;
 import org.apache.hadoop.hbase.io.LimitInputStream;
+import org.apache.hadoop.hbase.HBaseInterfaceAudience;
+import org.apache.hadoop.hbase.protobuf.ProtobufUtil;
 import org.apache.hadoop.hbase.protobuf.generated.WALProtos;
 import org.apache.hadoop.hbase.protobuf.generated.WALProtos.WALHeader.Builder;
 import org.apache.hadoop.hbase.protobuf.generated.WALProtos.WALKey;
@@ -45,7 +45,6 @@ import org.apache.hadoop.hbase.util.Bytes;
 import org.apache.hadoop.hbase.wal.WAL.Entry;
 
 import com.google.protobuf.CodedInputStream;
-import com.google.protobuf.InvalidProtocolBufferException;
 
 /**
  * A Protobuf based WAL has the following structure:
@@ -330,9 +329,9 @@ public class ProtobufLogReader extends ReaderBase {
                 "inputStream.available()= " + this.inputStream.available() + ", " +
                 "entry size= " + size);
           }
-          final InputStream limitedInput = new LimitInputStream(this.inputStream, size);
+          ProtobufUtil.mergeFrom(builder, new LimitInputStream(this.inputStream, size),
-          builder.mergeFrom(limitedInput);
+            (int)size);
-        } catch (InvalidProtocolBufferException ipbe) {
+        } catch (IOException ipbe) {
           throw (EOFException) new EOFException("Invalid PB, EOF? Ignoring; originalPosition=" +
             originalPosition + ", currentPosition=" + this.inputStream.getPos() +
             ", messageSize=" + size + ", currentAvailable=" + available).initCause(ipbe);

hbase-server/src/main/java/org/apache/hadoop/hbase/security/access/AccessControlLists.java

@@ -72,7 +72,6 @@ import org.apache.hadoop.io.Text;
 import com.google.common.collect.ArrayListMultimap;
 import com.google.common.collect.ListMultimap;
 import com.google.common.collect.Lists;
-import com.google.protobuf.InvalidProtocolBufferException;
 
 /**
  * Maintains lists of permission grants to users and groups to allow for
@@ -594,11 +593,11 @@ public class AccessControlLists {
     if (ProtobufUtil.isPBMagicPrefix(data)) {
       int pblen = ProtobufUtil.lengthOfPBMagic();
       try {
-        AccessControlProtos.UsersAndPermissions perms =
+        AccessControlProtos.UsersAndPermissions.Builder builder =
-          AccessControlProtos.UsersAndPermissions.newBuilder().mergeFrom(
+          AccessControlProtos.UsersAndPermissions.newBuilder();
-            data, pblen, data.length - pblen).build();
+        ProtobufUtil.mergeFrom(builder, data, pblen, data.length - pblen);
-        return ProtobufUtil.toUserTablePermissions(perms);
+        return ProtobufUtil.toUserTablePermissions(builder.build());
-      } catch (InvalidProtocolBufferException e) {
+      } catch (IOException e) {
         throw new DeserializationException(e);
       }
     } else {
@@ -665,9 +664,13 @@ public class AccessControlLists {
        Tag tag = tagsIterator.next();
        if (tag.getType() == ACL_TAG_TYPE) {
          // Deserialize the table permissions from the KV
-         ListMultimap<String,Permission> kvPerms = ProtobufUtil.toUsersAndPermissions(
+         // TODO: This can be improved. Don't build UsersAndPermissions just to unpack it again,
-           AccessControlProtos.UsersAndPermissions.newBuilder().mergeFrom(
+         // use the builder
-             tag.getBuffer(), tag.getTagOffset(), tag.getTagLength()).build());
+         AccessControlProtos.UsersAndPermissions.Builder builder = 
+           AccessControlProtos.UsersAndPermissions.newBuilder();
+         ProtobufUtil.mergeFrom(builder, tag.getBuffer(), tag.getTagOffset(), tag.getTagLength());
+         ListMultimap<String,Permission> kvPerms =
+           ProtobufUtil.toUsersAndPermissions(builder.build());
          // Are there permissions for this user?
          List<Permission> userPerms = kvPerms.get(user.getShortName());
          if (userPerms != null) {

hbase-server/src/main/java/org/apache/hadoop/hbase/security/access/AccessController.java

@@ -1969,9 +1969,13 @@ public class AccessController extends BaseMasterAndRegionObserver
             tags.add(tag);
           } else {
             // Merge the perms from the older ACL into the current permission set
-            ListMultimap<String,Permission> kvPerms = ProtobufUtil.toUsersAndPermissions(
+            // TODO: The efficiency of this can be improved. Don't build just to unpack
-              AccessControlProtos.UsersAndPermissions.newBuilder().mergeFrom(
+            // again, use the builder
-                tag.getBuffer(), tag.getTagOffset(), tag.getTagLength()).build());
+            AccessControlProtos.UsersAndPermissions.Builder builder =
+              AccessControlProtos.UsersAndPermissions.newBuilder();
+            ProtobufUtil.mergeFrom(builder, tag.getBuffer(), tag.getTagOffset(), tag.getTagLength());
+            ListMultimap<String,Permission> kvPerms =
+              ProtobufUtil.toUsersAndPermissions(builder.build());
             perms.putAll(kvPerms);
           }
         }

hbase-server/src/main/java/org/apache/hadoop/hbase/security/access/HbaseObjectWritableFor96Migration.java

@@ -689,7 +689,8 @@ class HbaseObjectWritableFor96Migration implements Writable, WritableWithSize, C
       byte [] scanBytes = new byte[length];
       in.readFully(scanBytes);
       ClientProtos.Scan.Builder scanProto = ClientProtos.Scan.newBuilder();
-      instance = ProtobufUtil.toScan(scanProto.mergeFrom(scanBytes).build());
+      ProtobufUtil.mergeFrom(scanProto, scanBytes);
+      instance = ProtobufUtil.toScan(scanProto.build());
     } else {                                      // Writable or Serializable
       Class instanceClass = null;
       int b = (byte)WritableUtils.readVInt(in);

hbase-server/src/main/java/org/apache/hadoop/hbase/security/visibility/VisibilityUtils.java

@@ -63,8 +63,6 @@ import org.apache.hadoop.hbase.util.Bytes;
 import org.apache.hadoop.hbase.util.SimpleMutableByteRange;
 import org.apache.hadoop.util.ReflectionUtils;
 
-import com.google.protobuf.InvalidProtocolBufferException;
-
 /**
  * Utility method to support visibility
  */
@@ -131,10 +129,10 @@ public class VisibilityUtils {
     if (ProtobufUtil.isPBMagicPrefix(data)) {
       int pblen = ProtobufUtil.lengthOfPBMagic();
       try {
-        VisibilityLabelsRequest request = VisibilityLabelsRequest.newBuilder()
+        VisibilityLabelsRequest.Builder builder = VisibilityLabelsRequest.newBuilder();
-            .mergeFrom(data, pblen, data.length - pblen).build();
+        ProtobufUtil.mergeFrom(builder, data, pblen, data.length - pblen);
-        return request.getVisLabelList();
+        return builder.getVisLabelList();
-      } catch (InvalidProtocolBufferException e) {
+      } catch (IOException e) {
         throw new DeserializationException(e);
       }
     }
@@ -152,10 +150,10 @@ public class VisibilityUtils {
     if (ProtobufUtil.isPBMagicPrefix(data)) {
       int pblen = ProtobufUtil.lengthOfPBMagic();
       try {
-        MultiUserAuthorizations multiUserAuths = MultiUserAuthorizations.newBuilder()
+        MultiUserAuthorizations.Builder builder = MultiUserAuthorizations.newBuilder();
-            .mergeFrom(data, pblen, data.length - pblen).build();
+        ProtobufUtil.mergeFrom(builder, data, pblen, data.length - pblen);
-        return multiUserAuths;
+        return builder.build();
-      } catch (InvalidProtocolBufferException e) {
+      } catch (IOException e) {
         throw new DeserializationException(e);
       }
     }

hbase-server/src/main/java/org/apache/hadoop/hbase/util/FSUtils.java

@@ -82,7 +82,6 @@ import org.apache.hadoop.util.ReflectionUtils;
 import org.apache.hadoop.util.StringUtils;
 
 import com.google.common.primitives.Ints;
-import com.google.protobuf.InvalidProtocolBufferException;
 
 /**
  * Utility methods for interacting with the underlying file system.
@@ -605,11 +604,10 @@ public abstract class FSUtils {
     int pblen = ProtobufUtil.lengthOfPBMagic();
     FSProtos.HBaseVersionFileContent.Builder builder =
       FSProtos.HBaseVersionFileContent.newBuilder();
-    FSProtos.HBaseVersionFileContent fileContent;
     try {
-      fileContent = builder.mergeFrom(bytes, pblen, bytes.length - pblen).build();
+      ProtobufUtil.mergeFrom(builder, bytes, pblen, bytes.length - pblen);
-      return fileContent.getVersion();
+      return builder.getVersion();
-    } catch (InvalidProtocolBufferException e) {
+    } catch (IOException e) {
       // Convert
       throw new DeserializationException(e);
     }

hbase-server/src/main/java/org/apache/hadoop/hbase/zookeeper/LoadBalancerTracker.java

@@ -17,6 +17,8 @@
  */
 package org.apache.hadoop.hbase.zookeeper;
 
+import java.io.IOException;
+
 import org.apache.commons.logging.Log;
 import org.apache.commons.logging.LogFactory;
 import org.apache.hadoop.hbase.classification.InterfaceAudience;
@@ -27,8 +29,6 @@ import org.apache.hadoop.hbase.protobuf.generated.LoadBalancerProtos;
 import org.apache.hadoop.hbase.util.Bytes;
 import org.apache.zookeeper.KeeperException;
 
-import com.google.protobuf.InvalidProtocolBufferException;
-
 /**
  * Tracks the load balancer state up in ZK
  */
@@ -85,8 +85,8 @@ public class LoadBalancerTracker extends ZooKeeperNodeTracker {
       LoadBalancerProtos.LoadBalancerState.newBuilder();
     try {
       int magicLen = ProtobufUtil.lengthOfPBMagic();
-      builder.mergeFrom(pbBytes, magicLen, pbBytes.length - magicLen);
+      ProtobufUtil.mergeFrom(builder, pbBytes, magicLen, pbBytes.length - magicLen);
-    } catch (InvalidProtocolBufferException e) {
+    } catch (IOException e) {
       throw new DeserializationException(e);
     }
     return builder.build();

hbase-server/src/main/java/org/apache/hadoop/hbase/zookeeper/RegionServerTracker.java

@@ -87,7 +87,7 @@ public class RegionServerTracker extends ZooKeeperListener {
             byte[] data = ZKUtil.getData(watcher, nodePath);
             if (data != null && data.length > 0 && ProtobufUtil.isPBMagicPrefix(data)) {
               int magicLen = ProtobufUtil.lengthOfPBMagic();
-              rsInfoBuilder.mergeFrom(data, magicLen, data.length - magicLen);
+              ProtobufUtil.mergeFrom(rsInfoBuilder, data, magicLen, data.length - magicLen);
             }
             if (LOG.isDebugEnabled()) {
               LOG.debug("Added tracking of RS " + nodePath);

hbase-server/src/main/java/org/apache/hadoop/hbase/zookeeper/ZKTableStateManager.java

@@ -18,6 +18,7 @@
  */
 package org.apache.hadoop.hbase.zookeeper;
 
+import java.io.IOException;
 import java.io.InterruptedIOException;
 import java.util.Arrays;
 import java.util.HashMap;
@@ -37,8 +38,6 @@ import org.apache.hadoop.hbase.protobuf.ProtobufUtil;
 import org.apache.hadoop.hbase.protobuf.generated.ZooKeeperProtos;
 import org.apache.zookeeper.KeeperException;
 
-import com.google.protobuf.InvalidProtocolBufferException;
-
 /**
  * Implementation of TableStateManager which reads, caches and sets state
  * up in ZooKeeper.  If multiple read/write clients, will make for confusion.
@@ -348,9 +347,9 @@ public class ZKTableStateManager implements TableStateManager {
       ProtobufUtil.expectPBMagicPrefix(data);
       ZooKeeperProtos.Table.Builder builder = ZooKeeperProtos.Table.newBuilder();
       int magicLen = ProtobufUtil.lengthOfPBMagic();
-      ZooKeeperProtos.Table t = builder.mergeFrom(data, magicLen, data.length - magicLen).build();
+      ProtobufUtil.mergeFrom(builder, data, magicLen, data.length - magicLen);
-      return t.getState();
+      return builder.getState();
-    } catch (InvalidProtocolBufferException e) {
+    } catch (IOException e) {
       KeeperException ke = new KeeperException.DataInconsistencyException();
       ke.initCause(e);
       throw ke;

hbase-server/src/test/java/org/apache/hadoop/hbase/mapreduce/TestSerialization.java

@@ -0,0 +1,115 @@
+/**
+ *
+ * Licensed to the Apache Software Foundation (ASF) under one
+ * or more contributor license agreements.  See the NOTICE file
+ * distributed with this work for additional information
+ * regarding copyright ownership.  The ASF licenses this file
+ * to you under the Apache License, Version 2.0 (the
+ * "License"); you may not use this file except in compliance
+ * with the License.  You may obtain a copy of the License at
+ *
+ *     http://www.apache.org/licenses/LICENSE-2.0
+ *
+ * Unless required by applicable law or agreed to in writing, software
+ * distributed under the License is distributed on an "AS IS" BASIS,
+ * WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
+ * See the License for the specific language governing permissions and
+ * limitations under the License.
+ */
+package org.apache.hadoop.hbase.mapreduce;
+
+
+import com.google.protobuf.InvalidProtocolBufferException;
+import org.apache.hadoop.hbase.testclassification.SmallTests;
+import org.junit.experimental.categories.Category;
+
+import java.io.ByteArrayInputStream;
+import java.io.ByteArrayOutputStream;
+
+import org.apache.hadoop.conf.Configuration;
+import org.apache.hadoop.hbase.HBaseTestingUtility;
+import org.apache.hadoop.hbase.KeyValue;
+import org.apache.hadoop.hbase.client.Put;
+import org.apache.hadoop.hbase.client.Mutation;
+import org.apache.hadoop.hbase.client.Result;
+
+import org.apache.hadoop.hbase.mapreduce.MutationSerialization;
+import org.apache.hadoop.hbase.mapreduce.ResultSerialization;
+import org.apache.hadoop.hbase.util.Bytes;
+import org.apache.hadoop.io.serializer.Deserializer;
+import org.apache.hadoop.io.serializer.Serializer;
+import org.junit.BeforeClass;
+import org.junit.Rule;
+import org.junit.Test;
+import org.junit.rules.TestName;
+
+import static org.junit.Assert.assertTrue;
+import static org.junit.Assert.fail;
+
+@Category(SmallTests.class)
+public class TestSerialization {
+  @Rule public TestName name = new TestName();
+  private final static HBaseTestingUtility TEST_UTIL = new HBaseTestingUtility();
+  private static Configuration conf;
+  private static final byte [] row = Bytes.toBytes("row1");
+  private static final byte [] qualifier = Bytes.toBytes("qualifier1");
+  private static final byte [] family = Bytes.toBytes("family1");
+  private static final byte [] value = new byte[100 * 1024 * 1024];
+
+  @BeforeClass
+  public static void setUpBeforeClass() throws Exception {
+    conf = TEST_UTIL.getConfiguration();
+    conf.setInt("hbase.client.keyvalue.maxsize", Integer.MAX_VALUE);
+  }
+
+  @Test
+  public void testLargeMutation()
+  throws Exception {
+    Put put = new Put(row);
+    put.addColumn(family, qualifier, value);
+
+    MutationSerialization serialization = new MutationSerialization();
+    Serializer<Mutation> serializer = serialization.getSerializer(Mutation.class);
+    Deserializer<Mutation> deserializer = serialization.getDeserializer(Mutation.class);
+    ByteArrayOutputStream os = new ByteArrayOutputStream();
+    ByteArrayInputStream is = null;
+    try {
+      serializer.open(os);
+      serializer.serialize(put);
+      os.flush();
+      is = new ByteArrayInputStream(os.toByteArray());
+      deserializer.open(is);
+      deserializer.deserialize(null);
+    } catch (InvalidProtocolBufferException e) {
+      assertTrue("Got InvalidProtocolBufferException in " + name.getMethodName(),
+        e.getCause() instanceof InvalidProtocolBufferException);
+    } catch (Exception e) {
+      fail("Got an invalid exception: " + e);
+    }
+  }
+
+  @Test
+  public void testLargeResult()
+  throws Exception {
+    Result res = Result.create(new KeyValue[] {new KeyValue(row, family, qualifier, 0L, value)});
+
+    ResultSerialization serialization = new ResultSerialization();
+    Serializer<Result> serializer = serialization.getSerializer(Result.class);
+    Deserializer<Result> deserializer = serialization.getDeserializer(Result.class);
+    ByteArrayOutputStream os = new ByteArrayOutputStream();
+    ByteArrayInputStream is = null;
+    try {
+      serializer.open(os);
+      serializer.serialize(res);
+      os.flush();
+      is = new ByteArrayInputStream(os.toByteArray());
+      deserializer.open(is);
+      deserializer.deserialize(null);
+    } catch (InvalidProtocolBufferException e) {
+      assertTrue("Got InvalidProtocolBufferException in " + name.getMethodName(),
+        e.getCause() instanceof InvalidProtocolBufferException);
+    } catch (Exception e) {
+      fail("Got an invalid exception: " + e);
+    }
+  }
+}