Merge remote-tracking branch 'apache-commit/trunk' into HDFS-6581

Conflicts:
	hadoop-common-project/hadoop-common/CHANGES.txt

hadoop-common-project/hadoop-common/CHANGES.txt

@@ -125,6 +125,8 @@ Trunk (Unreleased)
 
     HADOOP-10485. Remove dead classes in hadoop-streaming. (wheat9)
 
+    HADOOP-11013. CLASSPATH handling should be consolidated, debuggable (aw)
+
   BUG FIXES
 
     HADOOP-9451. Fault single-layer config if node group topology is enabled.
@@ -468,6 +470,9 @@ Release 2.6.0 - UNRELEASED
     HADOOP-10880. Move HTTP delegation tokens out of URL querystring to 
     a header. (tucu)
 
+    HADOOP-11005. Fix HTTP content type for ReconfigurationServlet.
+    (Lei Xu via wang)
+
   OPTIMIZATIONS
 
     HADOOP-10838. Byte array native checksumming. (James Thomas via todd)

hadoop-common-project/hadoop-common/src/main/bin/hadoop

@@ -114,6 +114,7 @@ case ${COMMAND} in
   ;;
   archive)
     CLASS=org.apache.hadoop.tools.HadoopArchives
+    hadoop_debug "Injecting TOOL_PATH into CLASSPATH"
     hadoop_add_classpath "${TOOL_PATH}"
   ;;
   checknative)
@@ -136,10 +137,12 @@ case ${COMMAND} in
   ;;
   distch)
     CLASS=org.apache.hadoop.tools.DistCh
+    hadoop_debug "Injecting TOOL_PATH into CLASSPATH"
     hadoop_add_classpath "${TOOL_PATH}"
   ;;
   distcp)
     CLASS=org.apache.hadoop.tools.DistCp
+    hadoop_debug "Injecting TOOL_PATH into CLASSPATH"
     hadoop_add_classpath "${TOOL_PATH}"
   ;;
   fs)
@@ -168,11 +171,11 @@ case ${COMMAND} in
 esac
 
 # Always respect HADOOP_OPTS and HADOOP_CLIENT_OPTS
+hadoop_debug "Appending HADOOP_CLIENT_OPTS onto HADOOP_OPTS"
 HADOOP_OPTS="${HADOOP_OPTS} ${HADOOP_CLIENT_OPTS}"
 
 hadoop_add_param HADOOP_OPTS Xmx "${JAVA_HEAP_MAX}"
 
 hadoop_finalize
-export CLASSPATH
 hadoop_java_exec "${COMMAND}" "${CLASS}" "$@"
 

hadoop-common-project/hadoop-common/src/main/bin/hadoop-config.sh

@@ -129,6 +129,11 @@ while [[ -z "${_hadoop_common_done}" ]]; do
         hadoop_exit_with_usage 1
       fi
     ;;
+    --debug)
+      shift
+      # shellcheck disable=SC2034
+      HADOOP_SHELL_SCRIPT_DEBUG=true
+    ;; 
     --help|-help|-h|help|--h|--\?|-\?|\?)
       hadoop_exit_with_usage 0
     ;;

hadoop-common-project/hadoop-common/src/main/bin/hadoop-functions.sh

@@ -21,6 +21,13 @@ function hadoop_error
   echo "$*" 1>&2
 }
 
+function hadoop_debug
+{
+  if [[ -n "${HADOOP_SHELL_SCRIPT_DEBUG}" ]]; then
+    echo "DEBUG: $*" 1>&2
+  fi
+}
+
 function hadoop_bootstrap_init
 {
   # NOTE: This function is not user replaceable.
@@ -62,6 +69,7 @@ function hadoop_bootstrap_init
  
   # defaults
   export HADOOP_OPTS=${HADOOP_OPTS:-"-Djava.net.preferIPv4Stack=true"}
+  hadoop_debug "Initial HADOOP_OPTS=${HADOOP_OPTS}"
 }
 
 function hadoop_find_confdir
@@ -80,6 +88,8 @@ function hadoop_find_confdir
     conf_dir="etc/hadoop"
   fi
   export HADOOP_CONF_DIR="${HADOOP_CONF_DIR:-${HADOOP_PREFIX}/${conf_dir}}"
+
+  hadoop_debug "HADOOP_CONF_DIR=${HADOOP_CONF_DIR}"
 }
 
 function hadoop_exec_hadoopenv
@@ -105,6 +115,7 @@ function hadoop_basic_init
   
   # CLASSPATH initially contains $HADOOP_CONF_DIR
   CLASSPATH="${HADOOP_CONF_DIR}"
+  hadoop_debug "Initial CLASSPATH=${HADOOP_CONF_DIR}"
   
   if [[ -z "${HADOOP_COMMON_HOME}" ]] &&
   [[ -d "${HADOOP_PREFIX}/${HADOOP_COMMON_DIR}" ]]; then
@@ -274,6 +285,9 @@ function hadoop_add_param
   if [[ ! ${!1} =~ $2 ]] ; then
     # shellcheck disable=SC2086
     eval $1="'${!1} $3'"
+    hadoop_debug "$1 accepted $3"
+  else
+    hadoop_debug "$1 declined $3"
   fi
 }
 
@@ -283,8 +297,8 @@ function hadoop_add_classpath
   # $1 = directory, file, wildcard, whatever to add
   # $2 = before or after, which determines where in the
   #      classpath this object should go. default is after
-  # return 0 = success
+  # return 0 = success (added or duplicate)
-  # return 1 = failure (duplicate, doesn't exist, whatever)
+  # return 1 = failure (doesn't exist, whatever)
   
   # However, with classpath (& JLP), we can do dedupe
   # along with some sanity checking (e.g., missing directories)
@@ -295,23 +309,29 @@ function hadoop_add_classpath
   if [[ $1 =~ ^.*\*$ ]]; then
     local mp=$(dirname "$1")
     if [[ ! -d "${mp}" ]]; then
+      hadoop_debug "Rejected CLASSPATH: $1 (not a dir)"
       return 1
     fi
     
     # no wildcard in the middle, so check existence
     # (doesn't matter *what* it is)
   elif [[ ! $1 =~ ^.*\*.*$ ]] && [[ ! -e "$1" ]]; then
+    hadoop_debug "Rejected CLASSPATH: $1 (does not exist)"
     return 1
   fi
-  
   if [[ -z "${CLASSPATH}" ]]; then
     CLASSPATH=$1
+    hadoop_debug "Initial CLASSPATH=$1"
   elif [[ ":${CLASSPATH}:" != *":$1:"* ]]; then
     if [[ "$2" = "before" ]]; then
       CLASSPATH="$1:${CLASSPATH}"
+      hadoop_debug "Prepend CLASSPATH: $1"
     else
       CLASSPATH+=:$1
+      hadoop_debug "Append CLASSPATH: $1"
     fi
+  else
+    hadoop_debug "Dupe CLASSPATH: $1"
   fi
   return 0
 }
@@ -331,14 +351,20 @@ function hadoop_add_colonpath
     if [[ -z "${!1}" ]]; then
       # shellcheck disable=SC2086
       eval $1="'$2'"
+      hadoop_debug "Initial colonpath($1): $2"
     elif [[ "$3" = "before" ]]; then
       # shellcheck disable=SC2086
       eval $1="'$2:${!1}'"
+      hadoop_debug "Prepend colonpath($1): $2"
     else
       # shellcheck disable=SC2086
       eval $1+="'$2'"
+      hadoop_debug "Append colonpath($1): $2"
     fi
+    return 0
   fi
+  hadoop_debug "Rejected colonpath($1): $2"
+  return 1
 }
 
 function hadoop_add_javalibpath
@@ -397,6 +423,7 @@ function hadoop_add_to_classpath_hdfs
 
 function hadoop_add_to_classpath_yarn
 {
+  local i
   #
   # get all of the yarn jars+config in the path
   #
@@ -715,6 +742,11 @@ function hadoop_java_exec
   local command=$1
   local class=$2
   shift 2
+  
+  hadoop_debug "Final CLASSPATH: ${CLASSPATH}"
+  hadoop_debug "Final HADOOP_OPTS: ${HADOOP_OPTS}"
+
+  export CLASSPATH
   #shellcheck disable=SC2086
   exec "${JAVA}" "-Dproc_${command}" ${HADOOP_OPTS} "${class}" "$@"
 }
@@ -727,6 +759,11 @@ function hadoop_start_daemon
   local command=$1
   local class=$2
   shift 2
+
+  hadoop_debug "Final CLASSPATH: ${CLASSPATH}"
+  hadoop_debug "Final HADOOP_OPTS: ${HADOOP_OPTS}"
+
+  export CLASSPATH
   #shellcheck disable=SC2086
   exec "${JAVA}" "-Dproc_${command}" ${HADOOP_OPTS} "${class}" "$@"
 }
@@ -808,6 +845,9 @@ function hadoop_start_secure_daemon
   # bogus for-our-use-case 2086 here.
   # it doesn't properly support multi-line situations
 
+  hadoop_debug "Final CLASSPATH: ${CLASSPATH}"
+  hadoop_debug "Final HADOOP_OPTS: ${HADOOP_OPTS}"
+  
   exec "${jsvc}" \
   "-Dproc_${daemonname}" \
   -outfile "${daemonoutfile}" \

hadoop-common-project/hadoop-common/src/main/bin/rcc

@@ -23,6 +23,7 @@ this="$bin/$script"
 
 DEFAULT_LIBEXEC_DIR="$bin"/../libexec
 HADOOP_LIBEXEC_DIR=${HADOOP_LIBEXEC_DIR:-$DEFAULT_LIBEXEC_DIR}
+# shellcheck disable=SC2034
 HADOOP_NEW_CONFIG=true
 . "$HADOOP_LIBEXEC_DIR/hadoop-config.sh"
 
@@ -33,10 +34,10 @@ fi
 CLASS='org.apache.hadoop.record.compiler.generated.Rcc'
 
 # Always respect HADOOP_OPTS and HADOOP_CLIENT_OPTS
-HADOOP_OPTS="$HADOOP_OPTS $HADOOP_CLIENT_OPTS"
+hadoop_debug "Appending HADOOP_CLIENT_OPTS onto HADOOP_OPTS"
+HADOOP_OPTS="${HADOOP_OPTS} ${HADOOP_CLIENT_OPTS}"
 
-hadoop_add_param HADOOP_OPTS Xmx "$JAVA_HEAP_MAX"
+hadoop_add_param HADOOP_OPTS Xmx "${JAVA_HEAP_MAX}"
 
 hadoop_finalize
-export CLASSPATH
 hadoop_java_exec rcc "${CLASS}" "$@"

hadoop-common-project/hadoop-common/src/main/java/org/apache/hadoop/conf/ReconfigurationServlet.java

@@ -200,6 +200,7 @@ public class ReconfigurationServlet extends HttpServlet {
   protected void doGet(HttpServletRequest req, HttpServletResponse resp)
     throws ServletException, IOException {
     LOG.info("GET");
+    resp.setContentType("text/html");
     PrintWriter out = resp.getWriter();
     
     Reconfigurable reconf = getReconfigurable(req);
@@ -214,6 +215,7 @@ public class ReconfigurationServlet extends HttpServlet {
   protected void doPost(HttpServletRequest req, HttpServletResponse resp)
     throws ServletException, IOException {
     LOG.info("POST");
+    resp.setContentType("text/html");
     PrintWriter out = resp.getWriter();
 
     Reconfigurable reconf = getReconfigurable(req);

hadoop-common-project/hadoop-common/src/main/java/org/apache/hadoop/fs/ChecksumFileSystem.java

@@ -381,7 +381,8 @@ public abstract class ChecksumFileSystem extends FilterFileSystem {
                           long blockSize,
                           Progressable progress)
       throws IOException {
-      super(DataChecksum.newCrc32(), fs.getBytesPerSum(), 4);
+      super(DataChecksum.newDataChecksum(DataChecksum.Type.CRC32,
+          fs.getBytesPerSum()));
       int bytesPerSum = fs.getBytesPerSum();
       this.datas = fs.getRawFileSystem().create(file, overwrite, bufferSize, 
                                          replication, blockSize, progress);
@@ -405,10 +406,11 @@ public abstract class ChecksumFileSystem extends FilterFileSystem {
     }
     
     @Override
-    protected void writeChunk(byte[] b, int offset, int len, byte[] checksum)
+    protected void writeChunk(byte[] b, int offset, int len, byte[] checksum,
+        int ckoff, int cklen)
     throws IOException {
       datas.write(b, offset, len);
-      sums.write(checksum);
+      sums.write(checksum, ckoff, cklen);
     }
 
     @Override

hadoop-common-project/hadoop-common/src/main/java/org/apache/hadoop/fs/ChecksumFs.java

@@ -337,7 +337,8 @@ public abstract class ChecksumFs extends FilterFs {
       final short replication, final long blockSize, 
       final Progressable progress, final ChecksumOpt checksumOpt,
       final boolean createParent) throws IOException {
-      super(DataChecksum.newCrc32(), fs.getBytesPerSum(), 4);
+      super(DataChecksum.newDataChecksum(DataChecksum.Type.CRC32,
+          fs.getBytesPerSum()));
 
       // checksumOpt is passed down to the raw fs. Unless it implements
       // checksum impelemts internally, checksumOpt will be ignored.
@@ -370,10 +371,11 @@ public abstract class ChecksumFs extends FilterFs {
     }
     
     @Override
-    protected void writeChunk(byte[] b, int offset, int len, byte[] checksum)
+    protected void writeChunk(byte[] b, int offset, int len, byte[] checksum,
+        int ckoff, int cklen)
       throws IOException {
       datas.write(b, offset, len);
-      sums.write(checksum);
+      sums.write(checksum, ckoff, cklen);
     }
 
     @Override

hadoop-common-project/hadoop-common/src/main/java/org/apache/hadoop/fs/FSOutputSummer.java

@@ -18,13 +18,14 @@
 
 package org.apache.hadoop.fs;
 
+import org.apache.hadoop.classification.InterfaceAudience;
+import org.apache.hadoop.classification.InterfaceStability;
+import org.apache.hadoop.util.DataChecksum;
+
 import java.io.IOException;
 import java.io.OutputStream;
 import java.util.zip.Checksum;
 
-import org.apache.hadoop.classification.InterfaceAudience;
-import org.apache.hadoop.classification.InterfaceStability;
-
 /**
  * This is a generic output stream for generating checksums for
  * data before it is written to the underlying stream
@@ -33,7 +34,7 @@ import org.apache.hadoop.classification.InterfaceStability;
 @InterfaceStability.Unstable
 abstract public class FSOutputSummer extends OutputStream {
   // data checksum
-  private Checksum sum;
+  private final DataChecksum sum;
   // internal buffer for storing data before it is checksumed
   private byte buf[];
   // internal buffer for storing checksum
@@ -41,18 +42,24 @@ abstract public class FSOutputSummer extends OutputStream {
   // The number of valid bytes in the buffer.
   private int count;
   
-  protected FSOutputSummer(Checksum sum, int maxChunkSize, int checksumSize) {
+  // We want this value to be a multiple of 3 because the native code checksums
+  // 3 chunks simultaneously. The chosen value of 9 strikes a balance between
+  // limiting the number of JNI calls and flushing to the underlying stream
+  // relatively frequently.
+  private static final int BUFFER_NUM_CHUNKS = 9;
+  
+  protected FSOutputSummer(DataChecksum sum) {
     this.sum = sum;
-    this.buf = new byte[maxChunkSize];
+    this.buf = new byte[sum.getBytesPerChecksum() * BUFFER_NUM_CHUNKS];
-    this.checksum = new byte[checksumSize];
+    this.checksum = new byte[sum.getChecksumSize() * BUFFER_NUM_CHUNKS];
     this.count = 0;
   }
   
   /* write the data chunk in <code>b</code> staring at <code>offset</code> with
-   * a length of <code>len</code>, and its checksum
+   * a length of <code>len > 0</code>, and its checksum
    */
-  protected abstract void writeChunk(byte[] b, int offset, int len, byte[] checksum)
+  protected abstract void writeChunk(byte[] b, int bOffset, int bLen,
-  throws IOException;
+      byte[] checksum, int checksumOffset, int checksumLen) throws IOException;
   
   /**
    * Check if the implementing OutputStream is closed and should no longer
@@ -66,7 +73,6 @@ abstract public class FSOutputSummer extends OutputStream {
   /** Write one byte */
   @Override
   public synchronized void write(int b) throws IOException {
-    sum.update(b);
     buf[count++] = (byte)b;
     if(count == buf.length) {
       flushBuffer();
@@ -111,18 +117,17 @@ abstract public class FSOutputSummer extends OutputStream {
    */
   private int write1(byte b[], int off, int len) throws IOException {
     if(count==0 && len>=buf.length) {
-      // local buffer is empty and user data has one chunk
+      // local buffer is empty and user buffer size >= local buffer size, so
-      // checksum and output data
+      // simply checksum the user buffer and send it directly to the underlying
+      // stream
       final int length = buf.length;
-      sum.update(b, off, length);
+      writeChecksumChunks(b, off, length);
-      writeChecksumChunk(b, off, length, false);
       return length;
     }
     
     // copy user data to local buffer
     int bytesToCopy = buf.length-count;
     bytesToCopy = (len<bytesToCopy) ? len : bytesToCopy;
-    sum.update(b, off, bytesToCopy);
     System.arraycopy(b, off, buf, count, bytesToCopy);
     count += bytesToCopy;
     if (count == buf.length) {
@@ -136,22 +141,45 @@ abstract public class FSOutputSummer extends OutputStream {
    * the underlying output stream. 
    */
   protected synchronized void flushBuffer() throws IOException {
-    flushBuffer(false);
+    flushBuffer(false, true);
   }
 
-  /* Forces any buffered output bytes to be checksumed and written out to
+  /* Forces buffered output bytes to be checksummed and written out to
-   * the underlying output stream.  If keep is true, then the state of 
+   * the underlying output stream. If there is a trailing partial chunk in the
-   * this object remains intact.
+   * buffer,
+   * 1) flushPartial tells us whether to flush that chunk
+   * 2) if flushPartial is true, keep tells us whether to keep that chunk in the
+   * buffer (if flushPartial is false, it is always kept in the buffer)
+   *
+   * Returns the number of bytes that were flushed but are still left in the
+   * buffer (can only be non-zero if keep is true).
    */
-  protected synchronized void flushBuffer(boolean keep) throws IOException {
+  protected synchronized int flushBuffer(boolean keep,
-    if (count != 0) {
+      boolean flushPartial) throws IOException {
-      int chunkLen = count;
+    int bufLen = count;
+    int partialLen = bufLen % sum.getBytesPerChecksum();
+    int lenToFlush = flushPartial ? bufLen : bufLen - partialLen;
+    if (lenToFlush != 0) {
+      writeChecksumChunks(buf, 0, lenToFlush);
+      if (!flushPartial || keep) {
+        count = partialLen;
+        System.arraycopy(buf, bufLen - count, buf, 0, count);
+      } else {
       count = 0;
-      writeChecksumChunk(buf, 0, chunkLen, keep);
-      if (keep) {
-        count = chunkLen;
       }
     }
+
+    // total bytes left minus unflushed bytes left
+    return count - (bufLen - lenToFlush);
+  }
+
+  /**
+   * Checksums all complete data chunks and flushes them to the underlying
+   * stream. If there is a trailing partial chunk, it is not flushed and is
+   * maintained in the buffer.
+   */
+  public void flush() throws IOException {
+    flushBuffer(false, false);
   }
 
   /**
@@ -161,18 +189,18 @@ abstract public class FSOutputSummer extends OutputStream {
     return count;
   }
   
-  /** Generate checksum for the data chunk and output data chunk & checksum
+  /** Generate checksums for the given data chunks and output chunks & checksums
-   * to the underlying output stream. If keep is true then keep the
+   * to the underlying output stream.
-   * current checksum intact, do not reset it.
    */
-  private void writeChecksumChunk(byte b[], int off, int len, boolean keep)
+  private void writeChecksumChunks(byte b[], int off, int len)
   throws IOException {
-    int tempChecksum = (int)sum.getValue();
+    sum.calculateChunkedSums(b, off, len, checksum, 0);
-    if (!keep) {
+    for (int i = 0; i < len; i += sum.getBytesPerChecksum()) {
-      sum.reset();
+      int chunkLen = Math.min(sum.getBytesPerChecksum(), len - i);
+      int ckOffset = i / sum.getBytesPerChecksum() * sum.getChecksumSize();
+      writeChunk(b, off + i, chunkLen, checksum, ckOffset,
+          sum.getChecksumSize());
     }
-    int2byte(tempChecksum, checksum);
-    writeChunk(b, off, len, checksum);
   }
 
   /**
@@ -196,9 +224,14 @@ abstract public class FSOutputSummer extends OutputStream {
   /**
    * Resets existing buffer with a new one of the specified size.
    */
-  protected synchronized void resetChecksumChunk(int size) {
+  protected synchronized void setChecksumBufSize(int size) {
-    sum.reset();
     this.buf = new byte[size];
+    this.checksum = new byte[((size - 1) / sum.getBytesPerChecksum() + 1) *
+        sum.getChecksumSize()];
     this.count = 0;
   }
+
+  protected synchronized void resetChecksumBufSize() {
+    setChecksumBufSize(sum.getBytesPerChecksum() * BUFFER_NUM_CHUNKS);
+  }
 }

hadoop-common-project/hadoop-common/src/main/java/org/apache/hadoop/util/DataChecksum.java

@@ -339,6 +339,7 @@ public class DataChecksum implements Checksum {
       byte[] data, int dataOff, int dataLen,
       byte[] checksums, int checksumsOff, String fileName,
       long basePos) throws ChecksumException {
+    if (type.size == 0) return;
 
     if (NativeCrc32.isAvailable()) {
       NativeCrc32.verifyChunkedSumsByteArray(bytesPerChecksum, type.id,
@@ -421,6 +422,7 @@ public class DataChecksum implements Checksum {
   public void calculateChunkedSums(
       byte[] data, int dataOffset, int dataLength,
       byte[] sums, int sumsOffset) {
+    if (type.size == 0) return;
 
     if (NativeCrc32.isAvailable()) {
       NativeCrc32.calculateChunkedSumsByteArray(bytesPerChecksum, type.id,

hadoop-common-project/hadoop-common/src/main/java/org/apache/hadoop/util/NativeCrc32.java

@@ -42,7 +42,7 @@ class NativeCrc32 {
    * modified.
    * 
    * @param bytesPerSum the chunk size (eg 512 bytes)
-   * @param checksumType the DataChecksum type constant
+   * @param checksumType the DataChecksum type constant (NULL is not supported)
    * @param sums the DirectByteBuffer pointing at the beginning of the
    *             stored checksums
    * @param data the DirectByteBuffer pointing at the beginning of the

hadoop-hdfs-project/hadoop-hdfs/CHANGES.txt

@@ -434,6 +434,9 @@ Release 2.6.0 - UNRELEASED
     HDFS-6773. MiniDFSCluster should skip edit log fsync by default (Stephen
     Chu via Colin Patrick McCabe)
 
+    HDFS-6865. Byte array native checksumming on client side
+    (James Thomas via todd)
+
   BUG FIXES
 
     HDFS-6823. dfs.web.authentication.kerberos.principal shows up in logs for 

hadoop-hdfs-project/hadoop-hdfs/src/main/bin/hdfs

@@ -80,6 +80,7 @@ shift
 case ${COMMAND} in
   balancer)
     CLASS=org.apache.hadoop.hdfs.server.balancer.Balancer
+    hadoop_debug "Appending HADOOP_BALANCER_OPTS onto HADOOP_OPTS"
     HADOOP_OPTS="${HADOOP_OPTS} ${HADOOP_BALANCER_OPTS}"
   ;;
   cacheadmin)
@@ -105,19 +106,24 @@ case ${COMMAND} in
       HADOOP_SECURE_PID_DIR="${HADOOP_SECURE_PID_DIR:-$HADOOP_SECURE_DN_PID_DIR}"
       HADOOP_SECURE_LOG_DIR="${HADOOP_SECURE_LOG_DIR:-$HADOOP_SECURE_DN_LOG_DIR}"
       
-      HADOOP_OPTS="${HADOOP_OPTS} ${HADOOP_DN_SECURE_EXTRA_OPTS} ${HADOOP_DATANODE_OPTS}"
+      hadoop_debug "Appending HADOOP_DATANODE_OPTS onto HADOOP_OPTS"
+      hadoop_debug "Appending HADOOP_DN_SECURE_EXTRA_OPTS onto HADOOP_OPTS"
+      HADOOP_OPTS="${HADOOP_OPTS} ${HADOOP_DATANODE_OPTS} ${HADOOP_DN_SECURE_EXTRA_OPTS}"
       CLASS="org.apache.hadoop.hdfs.server.datanode.SecureDataNodeStarter"
     else
+      hadoop_debug "Appending HADOOP_DATANODE_OPTS onto HADOOP_OPTS"
       HADOOP_OPTS="${HADOOP_OPTS} ${HADOOP_DATANODE_OPTS}"
       CLASS='org.apache.hadoop.hdfs.server.datanode.DataNode'
     fi
   ;;
   dfs)
     CLASS=org.apache.hadoop.fs.FsShell
+    hadoop_debug "Appending HADOOP_CLIENT_OPTS onto HADOOP_OPTS"
     HADOOP_OPTS="${HADOOP_OPTS} ${HADOOP_CLIENT_OPTS}"
   ;;
   dfsadmin)
     CLASS=org.apache.hadoop.hdfs.tools.DFSAdmin
+    hadoop_debug "Appending HADOOP_CLIENT_OPTS onto HADOOP_OPTS"
     HADOOP_OPTS="${HADOOP_OPTS} ${HADOOP_CLIENT_OPTS}"
   ;;
   fetchdt)
@@ -125,6 +131,7 @@ case ${COMMAND} in
   ;;
   fsck)
     CLASS=org.apache.hadoop.hdfs.tools.DFSck
+    hadoop_debug "Appending HADOOP_CLIENT_OPTS onto HADOOP_OPTS"
     HADOOP_OPTS="${HADOOP_OPTS} ${HADOOP_CLIENT_OPTS}"
   ;;
   getconf)
@@ -135,12 +142,15 @@ case ${COMMAND} in
   ;;
   haadmin)
     CLASS=org.apache.hadoop.hdfs.tools.DFSHAAdmin
-    CLASSPATH="${CLASSPATH}:${TOOL_PATH}"
+    hadoop_debug "Injecting TOOL_PATH into CLASSPATH"
+    hadoop_add_classpath "${TOOL_PATH}"
+    hadoop_debug "Appending HADOOP_CLIENT_OPTS onto HADOOP_OPTS"
     HADOOP_OPTS="${HADOOP_OPTS} ${HADOOP_CLIENT_OPTS}"
   ;;
   journalnode)
     daemon="true"
     CLASS='org.apache.hadoop.hdfs.qjournal.server.JournalNode'
+    hadoop_debug "Appending HADOOP_JOURNALNODE_OPTS onto HADOOP_OPTS"
     HADOOP_OPTS="${HADOOP_OPTS} ${HADOOP_JOURNALNODE_OPTS}"
   ;;
   jmxget)
@@ -152,6 +162,7 @@ case ${COMMAND} in
   namenode)
     daemon="true"
     CLASS='org.apache.hadoop.hdfs.server.namenode.NameNode'
+    hadoop_debug "Appending HADOOP_NAMENODE_OPTS onto HADOOP_OPTS"
     HADOOP_OPTS="${HADOOP_OPTS} ${HADOOP_NAMENODE_OPTS}"
   ;;
   nfs3)
@@ -164,9 +175,12 @@ case ${COMMAND} in
       HADOOP_SECURE_PID_DIR="${HADOOP_SECURE_PID_DIR:-$HADOOP_SECURE_NFS3_PID_DIR}"
       HADOOP_SECURE_LOG_DIR="${HADOOP_SECURE_LOG_DIR:-$HADOOP_SECURE_NFS3_LOG_DIR}"
       
-      HADOOP_OPTS="${HADOOP_OPTS} ${HADOOP_NFS3_SECURE_EXTRA_OPTS} ${HADOOP_NFS3_OPTS}"
+      hadoop_debug "Appending HADOOP_NFS3_OPTS onto HADOOP_OPTS"
+      hadoop_debug "Appending HADOOP_NFS3_SECURE_EXTRA_OPTS onto HADOOP_OPTS"
+      HADOOP_OPTS="${HADOOP_OPTS} ${HADOOP_NFS3_OPTS} ${HADOOP_NFS3_SECURE_EXTRA_OPTS}"
       CLASS=org.apache.hadoop.hdfs.nfs.nfs3.PrivilegedNfsGatewayStarter
     else
+      hadoop_debug "Appending HADOOP_NFS3_OPTS onto HADOOP_OPTS"
       HADOOP_OPTS="${HADOOP_OPTS} ${HADOOP_NFS3_OPTS}"
       CLASS=org.apache.hadoop.hdfs.nfs.nfs3.Nfs3
     fi
@@ -183,11 +197,13 @@ case ${COMMAND} in
   portmap)
     daemon="true"
     CLASS=org.apache.hadoop.portmap.Portmap
+    hadoop_debug "Appending HADOOP_PORTMAP_OPTS onto HADOOP_OPTS"
     HADOOP_OPTS="${HADOOP_OPTS} ${HADOOP_PORTMAP_OPTS}"
   ;;
   secondarynamenode)
     daemon="true"
     CLASS='org.apache.hadoop.hdfs.server.namenode.SecondaryNameNode'
+    hadoop_debug "Appending HADOOP_SECONDARYNAMENODE_OPTS onto HADOOP_OPTS"
     HADOOP_OPTS="${HADOOP_OPTS} ${HADOOP_SECONDARYNAMENODE_OPTS}"
   ;;
   snapshotDiff)
@@ -196,6 +212,7 @@ case ${COMMAND} in
   zkfc)
     daemon="true"
     CLASS='org.apache.hadoop.hdfs.tools.DFSZKFailoverController'
+    hadoop_debug "Appending HADOOP_ZKFC_OPTS onto HADOOP_OPTS"
     HADOOP_OPTS="${HADOOP_OPTS} ${HADOOP_ZKFC_OPTS}"
   ;;
   -*)
@@ -236,8 +253,6 @@ fi
 hadoop_add_param HADOOP_OPTS Xmx "${JAVA_HEAP_MAX}"
 hadoop_finalize
 
-export CLASSPATH
-
 if [[ -n "${daemon}" ]]; then
   if [[ -n "${secure_service}" ]]; then
     hadoop_secure_daemon_handler \

hadoop-hdfs-project/hadoop-hdfs/src/main/java/org/apache/hadoop/hdfs/DFSOutputStream.java

@@ -401,7 +401,7 @@ public class DFSOutputStream extends FSOutputSummer
         // one chunk that fills up the partial chunk.
         //
         computePacketChunkSize(0, freeInCksum);
-        resetChecksumChunk(freeInCksum);
+        setChecksumBufSize(freeInCksum);
         appendChunk = true;
       } else {
         // if the remaining space in the block is smaller than 
@@ -1566,7 +1566,7 @@ public class DFSOutputStream extends FSOutputSummer
 
   private DFSOutputStream(DFSClient dfsClient, String src, Progressable progress,
       HdfsFileStatus stat, DataChecksum checksum) throws IOException {
-    super(checksum, checksum.getBytesPerChecksum(), checksum.getChecksumSize());
+    super(checksum);
     this.dfsClient = dfsClient;
     this.src = src;
     this.fileId = stat.getFileId();
@@ -1720,22 +1720,21 @@ public class DFSOutputStream extends FSOutputSummer
 
   // @see FSOutputSummer#writeChunk()
   @Override
-  protected synchronized void writeChunk(byte[] b, int offset, int len, byte[] checksum) 
+  protected synchronized void writeChunk(byte[] b, int offset, int len,
-                                                        throws IOException {
+      byte[] checksum, int ckoff, int cklen) throws IOException {
     dfsClient.checkOpen();
     checkClosed();
 
-    int cklen = checksum.length;
     int bytesPerChecksum = this.checksum.getBytesPerChecksum(); 
     if (len > bytesPerChecksum) {
       throw new IOException("writeChunk() buffer size is " + len +
                             " is larger than supported  bytesPerChecksum " +
                             bytesPerChecksum);
     }
-    if (checksum.length != this.checksum.getChecksumSize()) {
+    if (cklen != this.checksum.getChecksumSize()) {
       throw new IOException("writeChunk() checksum size is supposed to be " +
                             this.checksum.getChecksumSize() + 
-                            " but found to be " + checksum.length);
+                            " but found to be " + cklen);
     }
 
     if (currentPacket == null) {
@@ -1751,7 +1750,7 @@ public class DFSOutputStream extends FSOutputSummer
       }
     }
 
-    currentPacket.writeChecksum(checksum, 0, cklen);
+    currentPacket.writeChecksum(checksum, ckoff, cklen);
     currentPacket.writeData(b, offset, len);
     currentPacket.numChunks++;
     bytesCurBlock += len;
@@ -1775,7 +1774,7 @@ public class DFSOutputStream extends FSOutputSummer
       // crc chunks from now on.
       if (appendChunk && bytesCurBlock%bytesPerChecksum == 0) {
         appendChunk = false;
-        resetChecksumChunk(bytesPerChecksum);
+        resetChecksumBufSize();
       }
 
       if (!appendChunk) {
@@ -1856,20 +1855,13 @@ public class DFSOutputStream extends FSOutputSummer
       long lastBlockLength = -1L;
       boolean updateLength = syncFlags.contains(SyncFlag.UPDATE_LENGTH);
       synchronized (this) {
-        /* Record current blockOffset. This might be changed inside
-         * flushBuffer() where a partial checksum chunk might be flushed.
-         * After the flush, reset the bytesCurBlock back to its previous value,
-         * any partial checksum chunk will be sent now and in next packet.
-         */
-        long saveOffset = bytesCurBlock;
-        Packet oldCurrentPacket = currentPacket;
         // flush checksum buffer, but keep checksum buffer intact
-        flushBuffer(true);
+        int numKept = flushBuffer(true, true);
         // bytesCurBlock potentially incremented if there was buffered data
 
         if (DFSClient.LOG.isDebugEnabled()) {
           DFSClient.LOG.debug(
-            "DFSClient flush() : saveOffset " + saveOffset +  
+            "DFSClient flush() :" +
             " bytesCurBlock " + bytesCurBlock +
             " lastFlushOffset " + lastFlushOffset);
         }
@@ -1886,14 +1878,6 @@ public class DFSOutputStream extends FSOutputSummer
                 bytesCurBlock, currentSeqno++, this.checksum.getChecksumSize());
           }
         } else {
-          // We already flushed up to this offset.
-          // This means that we haven't written anything since the last flush
-          // (or the beginning of the file). Hence, we should not have any
-          // packet queued prior to this call, since the last flush set
-          // currentPacket = null.
-          assert oldCurrentPacket == null :
-            "Empty flush should not occur with a currentPacket";
-
           if (isSync && bytesCurBlock > 0) {
             // Nothing to send right now,
             // and the block was partially written,
@@ -1913,7 +1897,7 @@ public class DFSOutputStream extends FSOutputSummer
         // Restore state of stream. Record the last flush offset 
         // of the last full chunk that was flushed.
         //
-        bytesCurBlock = saveOffset;
+        bytesCurBlock -= numKept;
         toWaitFor = lastQueuedSeqno;
       } // end synchronized
 

hadoop-hdfs-project/hadoop-hdfs/src/test/java/org/apache/hadoop/hdfs/TestFileAppend.java

@@ -261,7 +261,9 @@ public class TestFileAppend{
         start += 29;
       }
       stm.write(fileContents, start, AppendTestUtil.FILE_SIZE -start);
-
+      // need to make sure we completely write out all full blocks before
+      // the checkFile() call (see FSOutputSummer#flush)
+      stm.flush();
       // verify that full blocks are sane
       checkFile(fs, file1, 1);
       stm.close();

hadoop-hdfs-project/hadoop-hdfs/src/test/java/org/apache/hadoop/hdfs/security/token/block/TestBlockToken.java

@@ -394,6 +394,8 @@ public class TestBlockToken {
       Path filePath = new Path(fileName);
       FSDataOutputStream out = fs.create(filePath, (short) 1);
       out.write(new byte[1000]);
+      // ensure that the first block is written out (see FSOutputSummer#flush)
+      out.flush();
       LocatedBlocks locatedBlocks = cluster.getNameNodeRpc().getBlockLocations(
           fileName, 0, 1000);
       while (locatedBlocks.getLastLocatedBlock() == null) {

hadoop-hdfs-project/hadoop-hdfs/src/test/java/org/apache/hadoop/hdfs/server/namenode/TestBlockUnderConstruction.java

@@ -70,6 +70,9 @@ public class TestBlockUnderConstruction {
     long blocksBefore = stm.getPos() / BLOCK_SIZE;
     
     TestFileCreation.writeFile(stm, BLOCK_SIZE);
+    // need to make sure the full block is completely flushed to the DataNodes
+    // (see FSOutputSummer#flush)
+    stm.flush();
     int blocksAfter = 0;
     // wait until the block is allocated by DataStreamer
     BlockLocation[] locatedBlocks;

hadoop-hdfs-project/hadoop-hdfs/src/test/java/org/apache/hadoop/hdfs/server/namenode/TestDecommissioningStatus.java

@@ -141,6 +141,9 @@ public class TestDecommissioningStatus {
     Random rand = new Random(seed);
     rand.nextBytes(buffer);
     stm.write(buffer);
+    // need to make sure that we actually write out both file blocks
+    // (see FSOutputSummer#flush)
+    stm.flush();
     // Do not close stream, return it
     // so that it is not garbage collected
     return stm;

hadoop-mapreduce-project/bin/mapred

@@ -64,13 +64,15 @@ shift
 
 case ${COMMAND} in
   mradmin|jobtracker|tasktracker|groups)
-    echo "Sorry, the ${COMMAND} command is no longer supported."
+    hadoop_error "Sorry, the ${COMMAND} command is no longer supported."
-    echo "You may find similar functionality with the \"yarn\" shell command."
+    hadoop_error "You may find similar functionality with the \"yarn\" shell command."
     hadoop_exit_with_usage 1
   ;;
   archive)
     CLASS=org.apache.hadoop.tools.HadoopArchives
+    hadoop_debug "Injecting TOOL_PATH into CLASSPATH"
     hadoop_add_classpath "${TOOL_PATH}"
+    hadoop_debug "Appending HADOOP_CLIENT_OPTS onto HADOOP_OPTS"
     HADOOP_OPTS="${HADOOP_OPTS} ${HADOOP_CLIENT_OPTS}"
   ;;
   classpath)
@@ -80,12 +82,15 @@ case ${COMMAND} in
   ;;
   distcp)
     CLASS=org.apache.hadoop.tools.DistCp
+    hadoop_debug "Injecting TOOL_PATH into CLASSPATH"
     hadoop_add_classpath "${TOOL_PATH}"
+    hadoop_debug "Appending HADOOP_CLIENT_OPTS onto HADOOP_OPTS"
     HADOOP_OPTS="${HADOOP_OPTS} ${HADOOP_CLIENT_OPTS}"
   ;;
   historyserver)
     daemon="true"
     CLASS=org.apache.hadoop.mapreduce.v2.hs.JobHistoryServer
+    hadoop_debug "Appending HADOOP_JOB_HISTORYSERVER_OPTS onto HADOOP_OPTS"
     HADOOP_OPTS="${HADOOP_OPTS} ${HADOOP_JOB_HISTORYSERVER_OPTS}"
     if [ -n "${HADOOP_JOB_HISTORYSERVER_HEAPSIZE}" ]; then
       JAVA_HEAP_MAX="-Xmx${HADOOP_JOB_HISTORYSERVER_HEAPSIZE}m"
@@ -97,6 +102,7 @@ case ${COMMAND} in
   ;;
   pipes)
     CLASS=org.apache.hadoop.mapred.pipes.Submitter
+    hadoop_debug "Appending HADOOP_CLIENT_OPTS onto HADOOP_OPTS"
     HADOOP_OPTS="${HADOOP_OPTS} ${HADOOP_CLIENT_OPTS}"
   ;;
   queue)
@@ -104,10 +110,12 @@ case ${COMMAND} in
   ;;
   sampler)
     CLASS=org.apache.hadoop.mapred.lib.InputSampler
+    hadoop_debug "Appending HADOOP_CLIENT_OPTS onto HADOOP_OPTS"
     HADOOP_OPTS="${HADOOP_OPTS} ${HADOOP_CLIENT_OPTS}"
   ;;
   version)
     CLASS=org.apache.hadoop.util.VersionInfo
+    hadoop_debug "Appending HADOOP_CLIENT_OPTS onto HADOOP_OPTS"
     HADOOP_OPTS="${HADOOP_OPTS} ${HADOOP_CLIENT_OPTS}"
   ;;
   -*|*)
@@ -130,8 +138,6 @@ fi
 hadoop_add_param HADOOP_OPTS Xmx "${JAVA_HEAP_MAX}"
 hadoop_finalize
 
-export CLASSPATH
-
 if [[ -n "${daemon}" ]]; then
   if [[ -n "${secure_service}" ]]; then
     hadoop_secure_daemon_handler "${HADOOP_DAEMON_MODE}" "${COMMAND}"\

hadoop-yarn-project/hadoop-yarn/bin/yarn

@@ -72,6 +72,7 @@ shift
 case "${COMMAND}" in
   application|applicationattempt|container)
     CLASS=org.apache.hadoop.yarn.client.cli.ApplicationCLI
+    hadoop_debug "Append YARN_CLIENT_OPTS onto YARN_OPTS"
     YARN_OPTS="${YARN_OPTS} ${YARN_CLIENT_OPTS}"
     set -- "${COMMAND}" "$@"
   ;;
@@ -82,10 +83,12 @@ case "${COMMAND}" in
   ;;
   daemonlog)
     CLASS=org.apache.hadoop.log.LogLevel
+    hadoop_debug "Append YARN_CLIENT_OPTS onto YARN_OPTS"
     YARN_OPTS="${YARN_OPTS} ${YARN_CLIENT_OPTS}"
   ;;
   jar)
     CLASS=org.apache.hadoop.util.RunJar
+    hadoop_debug "Append YARN_CLIENT_OPTS onto YARN_OPTS"
     YARN_OPTS="${YARN_OPTS} ${YARN_CLIENT_OPTS}"
   ;;
   historyserver)
@@ -97,15 +100,18 @@ case "${COMMAND}" in
   ;;
   logs)
     CLASS=org.apache.hadoop.yarn.logaggregation.LogDumper
+    hadoop_debug "Append YARN_CLIENT_OPTS onto YARN_OPTS"
     YARN_OPTS="${YARN_OPTS} ${YARN_CLIENT_OPTS}"
   ;;
   node)
     CLASS=org.apache.hadoop.yarn.client.cli.NodeCLI
+    hadoop_debug "Append YARN_CLIENT_OPTS onto YARN_OPTS"
     YARN_OPTS="${YARN_OPTS} ${YARN_CLIENT_OPTS}"
   ;;
   nodemanager)
     daemon="true"
     CLASS='org.apache.hadoop.yarn.server.nodemanager.NodeManager'
+    hadoop_debug "Append YARN_NODEMANAGER_OPTS onto YARN_OPTS"
     YARN_OPTS="${YARN_OPTS} ${YARN_NODEMANAGER_OPTS}"
     if [[ -n "${YARN_NODEMANAGER_HEAPSIZE}" ]]; then
       JAVA_HEAP_MAX="-Xmx${YARN_NODEMANAGER_HEAPSIZE}m"
@@ -114,6 +120,7 @@ case "${COMMAND}" in
   proxyserver)
     daemon="true"
     CLASS='org.apache.hadoop.yarn.server.webproxy.WebAppProxyServer'
+    hadoop_debug "Append YARN_PROXYSERVER_OPTS onto YARN_OPTS"
     YARN_OPTS="${YARN_OPTS} ${YARN_PROXYSERVER_OPTS}"
     if [[ -n "${YARN_PROXYSERVER_HEAPSIZE}" ]]; then
       JAVA_HEAP_MAX="-Xmx${YARN_PROXYSERVER_HEAPSIZE}m"
@@ -123,17 +130,20 @@ case "${COMMAND}" in
     daemon="true"
     CLASS='org.apache.hadoop.yarn.server.resourcemanager.ResourceManager'
     YARN_OPTS="${YARN_OPTS} ${YARN_RESOURCEMANAGER_OPTS}"
+    hadoop_debug "Append YARN_RESOURCEMANAGER_OPTS onto YARN_OPTS"
     if [[ -n "${YARN_RESOURCEMANAGER_HEAPSIZE}" ]]; then
       JAVA_HEAP_MAX="-Xmx${YARN_RESOURCEMANAGER_HEAPSIZE}m"
     fi
   ;;
   rmadmin)
     CLASS='org.apache.hadoop.yarn.client.cli.RMAdminCLI'
+    hadoop_debug "Append YARN_CLIENT_OPTS onto YARN_OPTS"
     YARN_OPTS="${YARN_OPTS} ${YARN_CLIENT_OPTS}"
   ;;
   timelineserver)
     daemon="true"
     CLASS='org.apache.hadoop.yarn.server.applicationhistoryservice.ApplicationHistoryServer'
+    hadoop_debug "Append YARN_TIMELINESERVER_OPTS onto YARN_OPTS"
     YARN_OPTS="${YARN_OPTS} ${YARN_TIMELINESERVER_OPTS}"
     if [[ -n "${YARN_TIMELINESERVER_HEAPSIZE}" ]]; then
       JAVA_HEAP_MAX="-Xmx${YARN_TIMELINESERVER_HEAPSIZE}m"
@@ -141,6 +151,7 @@ case "${COMMAND}" in
   ;;
   version)
     CLASS=org.apache.hadoop.util.VersionInfo
+    hadoop_debug "Append YARN_CLIENT_OPTS onto YARN_OPTS"
     YARN_OPTS="${YARN_OPTS} ${YARN_CLIENT_OPTS}"
   ;;
   -*)
@@ -153,6 +164,8 @@ esac
 
 # set HADOOP_OPTS to YARN_OPTS so that we can use
 # finalize, etc, without doing anything funky
+hadoop_debug "Resetting HADOOP_OPTS=YARN_OPTS"
+# shellcheck disable=SC2034
 HADOOP_OPTS="${YARN_OPTS}"
 
 daemon_outfile="${HADOOP_LOG_DIR}/hadoop-${HADOOP_IDENT_STRING}-${COMMAND}-${HOSTNAME}.out"
@@ -180,8 +193,6 @@ hadoop_add_param HADOOP_OPTS yarn.root.logger "-Dyarn.root.logger=${YARN_ROOT_LO
 
 hadoop_finalize
 
-export CLASSPATH
-
 if [[ -n "${daemon}" ]]; then
   if [[ -n "${secure_service}" ]]; then
     hadoop_secure_daemon_handler "${HADOOP_DAEMON_MODE}" "${COMMAND}" \