diff --git a/R-package/configure b/R-package/configure
index d93a8c446..459d628cc 100755
--- a/R-package/configure
+++ b/R-package/configure
@@ -1,6 +1,6 @@
 #! /bin/sh
 # Guess values for system-dependent variables and create Makefiles.
-# Generated by GNU Autoconf 2.69 for xgboost 0.6-0.
+# Generated by GNU Autoconf 2.69 for xgboost 0.6-3.
 #
 #
 # Copyright (C) 1992-1996, 1998-2012 Free Software Foundation, Inc.
@@ -576,21 +576,14 @@ MAKEFLAGS=
 # Identity of this package.
 PACKAGE_NAME='xgboost'
 PACKAGE_TARNAME='xgboost'
-PACKAGE_VERSION='0.6-0'
-PACKAGE_STRING='xgboost 0.6-0'
+PACKAGE_VERSION='0.6-3'
+PACKAGE_STRING='xgboost 0.6-3'
 PACKAGE_BUGREPORT=''
 PACKAGE_URL=''
 
 ac_subst_vars='LTLIBOBJS
 LIBOBJS
 OPENMP_CXXFLAGS
-OBJEXT
-EXEEXT
-ac_ct_CXX
-CPPFLAGS
-LDFLAGS
-CXXFLAGS
-CXX
 target_alias
 host_alias
 build_alias
@@ -610,6 +603,7 @@ infodir
 docdir
 oldincludedir
 includedir
+runstatedir
 localstatedir
 sharedstatedir
 sysconfdir
@@ -632,17 +626,10 @@ SHELL'
 ac_subst_files=''
 ac_user_opts='
 enable_option_checking
-enable_openmp
 '
       ac_precious_vars='build_alias
 host_alias
-target_alias
-CXX
-CXXFLAGS
-LDFLAGS
-LIBS
-CPPFLAGS
-CCC'
+target_alias'
 
 
 # Initialize some variables set by options.
@@ -681,6 +668,7 @@ datadir='${datarootdir}'
 sysconfdir='${prefix}/etc'
 sharedstatedir='${prefix}/com'
 localstatedir='${prefix}/var'
+runstatedir='${localstatedir}/run'
 includedir='${prefix}/include'
 oldincludedir='/usr/include'
 docdir='${datarootdir}/doc/${PACKAGE_TARNAME}'
@@ -933,6 +921,15 @@ do
   | -silent | --silent | --silen | --sile | --sil)
     silent=yes ;;
 
+  -runstatedir | --runstatedir | --runstatedi | --runstated \
+  | --runstate | --runstat | --runsta | --runst | --runs \
+  | --run | --ru | --r)
+    ac_prev=runstatedir ;;
+  -runstatedir=* | --runstatedir=* | --runstatedi=* | --runstated=* \
+  | --runstate=* | --runstat=* | --runsta=* | --runst=* | --runs=* \
+  | --run=* | --ru=* | --r=*)
+    runstatedir=$ac_optarg ;;
+
   -sbindir | --sbindir | --sbindi | --sbind | --sbin | --sbi | --sb)
     ac_prev=sbindir ;;
   -sbindir=* | --sbindir=* | --sbindi=* | --sbind=* | --sbin=* \
@@ -1070,7 +1067,7 @@ fi
 for ac_var in	exec_prefix prefix bindir sbindir libexecdir datarootdir \
 		datadir sysconfdir sharedstatedir localstatedir includedir \
 		oldincludedir docdir infodir htmldir dvidir pdfdir psdir \
-		libdir localedir mandir
+		libdir localedir mandir runstatedir
 do
   eval ac_val=\$$ac_var
   # Remove trailing slashes.
@@ -1183,7 +1180,7 @@ if test "$ac_init_help" = "long"; then
   # Omit some internal or obsolete options to make the list less imposing.
   # This message is too long to be a string in the A/UX 3.1 sh.
   cat <<_ACEOF
-\`configure' configures xgboost 0.6-0 to adapt to many kinds of systems.
+\`configure' configures xgboost 0.6-3 to adapt to many kinds of systems.
 
 Usage: $0 [OPTION]... [VAR=VALUE]...
 
@@ -1223,6 +1220,7 @@ Fine tuning of the installation directories:
   --sysconfdir=DIR        read-only single-machine data [PREFIX/etc]
   --sharedstatedir=DIR    modifiable architecture-independent data [PREFIX/com]
   --localstatedir=DIR     modifiable single-machine data [PREFIX/var]
+  --runstatedir=DIR       modifiable per-process data [LOCALSTATEDIR/run]
   --libdir=DIR            object code libraries [EPREFIX/lib]
   --includedir=DIR        C header files [PREFIX/include]
   --oldincludedir=DIR     C header files for non-gcc [/usr/include]
@@ -1244,28 +1242,10 @@ fi
 
 if test -n "$ac_init_help"; then
   case $ac_init_help in
-     short | recursive ) echo "Configuration of xgboost 0.6-0:";;
+     short | recursive ) echo "Configuration of xgboost 0.6-3:";;
    esac
   cat <<\_ACEOF
 
-Optional Features:
-  --disable-option-checking  ignore unrecognized --enable/--with options
-  --disable-FEATURE       do not include FEATURE (same as --enable-FEATURE=no)
-  --enable-FEATURE[=ARG]  include FEATURE [ARG=yes]
-  --disable-openmp        do not use OpenMP
-
-Some influential environment variables:
-  CXX         C++ compiler command
-  CXXFLAGS    C++ compiler flags
-  LDFLAGS     linker flags, e.g. -L<lib dir> if you have libraries in a
-              nonstandard directory <lib dir>
-  LIBS        libraries to pass to the linker, e.g. -l<library>
-  CPPFLAGS    (Objective) C/C++ preprocessor flags, e.g. -I<include dir> if
-              you have headers in a nonstandard directory <include dir>
-
-Use these variables to override the choices made by `configure' or to help
-it to find libraries and programs with nonstandard names/locations.
-
 Report bugs to the package provider.
 _ACEOF
 ac_status=$?
@@ -1329,7 +1309,7 @@ fi
 test -n "$ac_init_help" && exit $ac_status
 if $ac_init_version; then
   cat <<\_ACEOF
-xgboost configure 0.6-0
+xgboost configure 0.6-3
 generated by GNU Autoconf 2.69
 
 Copyright (C) 2012 Free Software Foundation, Inc.
@@ -1342,95 +1322,11 @@ fi
 ## ------------------------ ##
 ## Autoconf initialization. ##
 ## ------------------------ ##
-
-# ac_fn_cxx_try_compile LINENO
-# ----------------------------
-# Try to compile conftest.$ac_ext, and return whether this succeeded.
-ac_fn_cxx_try_compile ()
-{
-  as_lineno=${as_lineno-"$1"} as_lineno_stack=as_lineno_stack=$as_lineno_stack
-  rm -f conftest.$ac_objext
-  if { { ac_try="$ac_compile"
-case "(($ac_try" in
-  *\"* | *\`* | *\\*) ac_try_echo=\$ac_try;;
-  *) ac_try_echo=$ac_try;;
-esac
-eval ac_try_echo="\"\$as_me:${as_lineno-$LINENO}: $ac_try_echo\""
-$as_echo "$ac_try_echo"; } >&5
-  (eval "$ac_compile") 2>conftest.err
-  ac_status=$?
-  if test -s conftest.err; then
-    grep -v '^ *+' conftest.err >conftest.er1
-    cat conftest.er1 >&5
-    mv -f conftest.er1 conftest.err
-  fi
-  $as_echo "$as_me:${as_lineno-$LINENO}: \$? = $ac_status" >&5
-  test $ac_status = 0; } && {
-	 test -z "$ac_cxx_werror_flag" ||
-	 test ! -s conftest.err
-       } && test -s conftest.$ac_objext; then :
-  ac_retval=0
-else
-  $as_echo "$as_me: failed program was:" >&5
-sed 's/^/| /' conftest.$ac_ext >&5
-
-	ac_retval=1
-fi
-  eval $as_lineno_stack; ${as_lineno_stack:+:} unset as_lineno
-  as_fn_set_status $ac_retval
-
-} # ac_fn_cxx_try_compile
-
-# ac_fn_cxx_try_link LINENO
-# -------------------------
-# Try to link conftest.$ac_ext, and return whether this succeeded.
-ac_fn_cxx_try_link ()
-{
-  as_lineno=${as_lineno-"$1"} as_lineno_stack=as_lineno_stack=$as_lineno_stack
-  rm -f conftest.$ac_objext conftest$ac_exeext
-  if { { ac_try="$ac_link"
-case "(($ac_try" in
-  *\"* | *\`* | *\\*) ac_try_echo=\$ac_try;;
-  *) ac_try_echo=$ac_try;;
-esac
-eval ac_try_echo="\"\$as_me:${as_lineno-$LINENO}: $ac_try_echo\""
-$as_echo "$ac_try_echo"; } >&5
-  (eval "$ac_link") 2>conftest.err
-  ac_status=$?
-  if test -s conftest.err; then
-    grep -v '^ *+' conftest.err >conftest.er1
-    cat conftest.er1 >&5
-    mv -f conftest.er1 conftest.err
-  fi
-  $as_echo "$as_me:${as_lineno-$LINENO}: \$? = $ac_status" >&5
-  test $ac_status = 0; } && {
-	 test -z "$ac_cxx_werror_flag" ||
-	 test ! -s conftest.err
-       } && test -s conftest$ac_exeext && {
-	 test "$cross_compiling" = yes ||
-	 test -x conftest$ac_exeext
-       }; then :
-  ac_retval=0
-else
-  $as_echo "$as_me: failed program was:" >&5
-sed 's/^/| /' conftest.$ac_ext >&5
-
-	ac_retval=1
-fi
-  # Delete the IPA/IPO (Inter Procedural Analysis/Optimization) information
-  # created by the PGI compiler (conftest_ipa8_conftest.oo), as it would
-  # interfere with the next link command; also delete a directory that is
-  # left behind by Apple's compiler.  We do this before executing the actions.
-  rm -rf conftest.dSYM conftest_ipa8_conftest.oo
-  eval $as_lineno_stack; ${as_lineno_stack:+:} unset as_lineno
-  as_fn_set_status $ac_retval
-
-} # ac_fn_cxx_try_link
 cat >config.log <<_ACEOF
 This file contains any messages produced by compilers while
 running configure, to aid debugging if configure makes a mistake.
 
-It was created by xgboost $as_me 0.6-0, which was
+It was created by xgboost $as_me 0.6-3, which was
 generated by GNU Autoconf 2.69.  Invocation command line was
 
   $ $0 $@
@@ -1779,590 +1675,17 @@ ac_compiler_gnu=$ac_cv_c_compiler_gnu
 
 
 
-CXX1X=`"${R_HOME}/bin/R" CMD config CXX1X`
-CXX1XSTD=`"${R_HOME}/bin/R" CMD config CXX1XSTD`
-CXX="${CXX1X} ${CXX1XSTD}"
-CXXFLAGS=`"${R_HOME}/bin/R" CMD config CXX1XFLAGS`
+OPENMP_CXXFLAGS=""
 
-ac_ext=cpp
-ac_cpp='$CXXCPP $CPPFLAGS'
-ac_compile='$CXX -c $CXXFLAGS $CPPFLAGS conftest.$ac_ext >&5'
-ac_link='$CXX -o conftest$ac_exeext $CXXFLAGS $CPPFLAGS $LDFLAGS conftest.$ac_ext $LIBS >&5'
-ac_compiler_gnu=$ac_cv_cxx_compiler_gnu
-
-  OPENMP_CXXFLAGS=
-  # Check whether --enable-openmp was given.
-if test "${enable_openmp+set}" = set; then :
-  enableval=$enable_openmp;
+if test `uname -s` = "Linux"
+then
+  OPENMP_CXXFLAGS="\$(SHLIB_OPENMP_CFLAGS)"
 fi
 
-  if test "$enable_openmp" != no; then
-    ac_ext=cpp
-ac_cpp='$CXXCPP $CPPFLAGS'
-ac_compile='$CXX -c $CXXFLAGS $CPPFLAGS conftest.$ac_ext >&5'
-ac_link='$CXX -o conftest$ac_exeext $CXXFLAGS $CPPFLAGS $LDFLAGS conftest.$ac_ext $LIBS >&5'
-ac_compiler_gnu=$ac_cv_cxx_compiler_gnu
-if test -z "$CXX"; then
-  if test -n "$CCC"; then
-    CXX=$CCC
-  else
-    if test -n "$ac_tool_prefix"; then
-  for ac_prog in g++ c++ gpp aCC CC cxx cc++ cl.exe FCC KCC RCC xlC_r xlC
-  do
-    # Extract the first word of "$ac_tool_prefix$ac_prog", so it can be a program name with args.
-set dummy $ac_tool_prefix$ac_prog; ac_word=$2
-{ $as_echo "$as_me:${as_lineno-$LINENO}: checking for $ac_word" >&5
-$as_echo_n "checking for $ac_word... " >&6; }
-if ${ac_cv_prog_CXX+:} false; then :
-  $as_echo_n "(cached) " >&6
-else
-  if test -n "$CXX"; then
-  ac_cv_prog_CXX="$CXX" # Let the user override the test.
-else
-as_save_IFS=$IFS; IFS=$PATH_SEPARATOR
-for as_dir in $PATH
-do
-  IFS=$as_save_IFS
-  test -z "$as_dir" && as_dir=.
-    for ac_exec_ext in '' $ac_executable_extensions; do
-  if as_fn_executable_p "$as_dir/$ac_word$ac_exec_ext"; then
-    ac_cv_prog_CXX="$ac_tool_prefix$ac_prog"
-    $as_echo "$as_me:${as_lineno-$LINENO}: found $as_dir/$ac_word$ac_exec_ext" >&5
-    break 2
-  fi
-done
-  done
-IFS=$as_save_IFS
-
+if test `uname -s` = "Darwin"
+then
+  OPENMP_CXXFLAGS="\$(SHLIB_OPENMP_CFLAGS)"
 fi
-fi
-CXX=$ac_cv_prog_CXX
-if test -n "$CXX"; then
-  { $as_echo "$as_me:${as_lineno-$LINENO}: result: $CXX" >&5
-$as_echo "$CXX" >&6; }
-else
-  { $as_echo "$as_me:${as_lineno-$LINENO}: result: no" >&5
-$as_echo "no" >&6; }
-fi
-
-
-    test -n "$CXX" && break
-  done
-fi
-if test -z "$CXX"; then
-  ac_ct_CXX=$CXX
-  for ac_prog in g++ c++ gpp aCC CC cxx cc++ cl.exe FCC KCC RCC xlC_r xlC
-do
-  # Extract the first word of "$ac_prog", so it can be a program name with args.
-set dummy $ac_prog; ac_word=$2
-{ $as_echo "$as_me:${as_lineno-$LINENO}: checking for $ac_word" >&5
-$as_echo_n "checking for $ac_word... " >&6; }
-if ${ac_cv_prog_ac_ct_CXX+:} false; then :
-  $as_echo_n "(cached) " >&6
-else
-  if test -n "$ac_ct_CXX"; then
-  ac_cv_prog_ac_ct_CXX="$ac_ct_CXX" # Let the user override the test.
-else
-as_save_IFS=$IFS; IFS=$PATH_SEPARATOR
-for as_dir in $PATH
-do
-  IFS=$as_save_IFS
-  test -z "$as_dir" && as_dir=.
-    for ac_exec_ext in '' $ac_executable_extensions; do
-  if as_fn_executable_p "$as_dir/$ac_word$ac_exec_ext"; then
-    ac_cv_prog_ac_ct_CXX="$ac_prog"
-    $as_echo "$as_me:${as_lineno-$LINENO}: found $as_dir/$ac_word$ac_exec_ext" >&5
-    break 2
-  fi
-done
-  done
-IFS=$as_save_IFS
-
-fi
-fi
-ac_ct_CXX=$ac_cv_prog_ac_ct_CXX
-if test -n "$ac_ct_CXX"; then
-  { $as_echo "$as_me:${as_lineno-$LINENO}: result: $ac_ct_CXX" >&5
-$as_echo "$ac_ct_CXX" >&6; }
-else
-  { $as_echo "$as_me:${as_lineno-$LINENO}: result: no" >&5
-$as_echo "no" >&6; }
-fi
-
-
-  test -n "$ac_ct_CXX" && break
-done
-
-  if test "x$ac_ct_CXX" = x; then
-    CXX="g++"
-  else
-    case $cross_compiling:$ac_tool_warned in
-yes:)
-{ $as_echo "$as_me:${as_lineno-$LINENO}: WARNING: using cross tools not prefixed with host triplet" >&5
-$as_echo "$as_me: WARNING: using cross tools not prefixed with host triplet" >&2;}
-ac_tool_warned=yes ;;
-esac
-    CXX=$ac_ct_CXX
-  fi
-fi
-
-  fi
-fi
-# Provide some information about the compiler.
-$as_echo "$as_me:${as_lineno-$LINENO}: checking for C++ compiler version" >&5
-set X $ac_compile
-ac_compiler=$2
-for ac_option in --version -v -V -qversion; do
-  { { ac_try="$ac_compiler $ac_option >&5"
-case "(($ac_try" in
-  *\"* | *\`* | *\\*) ac_try_echo=\$ac_try;;
-  *) ac_try_echo=$ac_try;;
-esac
-eval ac_try_echo="\"\$as_me:${as_lineno-$LINENO}: $ac_try_echo\""
-$as_echo "$ac_try_echo"; } >&5
-  (eval "$ac_compiler $ac_option >&5") 2>conftest.err
-  ac_status=$?
-  if test -s conftest.err; then
-    sed '10a\
-... rest of stderr output deleted ...
-         10q' conftest.err >conftest.er1
-    cat conftest.er1 >&5
-  fi
-  rm -f conftest.er1 conftest.err
-  $as_echo "$as_me:${as_lineno-$LINENO}: \$? = $ac_status" >&5
-  test $ac_status = 0; }
-done
-
-cat confdefs.h - <<_ACEOF >conftest.$ac_ext
-/* end confdefs.h.  */
-
-int
-main ()
-{
-
-  ;
-  return 0;
-}
-_ACEOF
-ac_clean_files_save=$ac_clean_files
-ac_clean_files="$ac_clean_files a.out a.out.dSYM a.exe b.out"
-# Try to create an executable without -o first, disregard a.out.
-# It will help us diagnose broken compilers, and finding out an intuition
-# of exeext.
-{ $as_echo "$as_me:${as_lineno-$LINENO}: checking whether the C++ compiler works" >&5
-$as_echo_n "checking whether the C++ compiler works... " >&6; }
-ac_link_default=`$as_echo "$ac_link" | sed 's/ -o *conftest[^ ]*//'`
-
-# The possible output files:
-ac_files="a.out conftest.exe conftest a.exe a_out.exe b.out conftest.*"
-
-ac_rmfiles=
-for ac_file in $ac_files
-do
-  case $ac_file in
-    *.$ac_ext | *.xcoff | *.tds | *.d | *.pdb | *.xSYM | *.bb | *.bbg | *.map | *.inf | *.dSYM | *.o | *.obj ) ;;
-    * ) ac_rmfiles="$ac_rmfiles $ac_file";;
-  esac
-done
-rm -f $ac_rmfiles
-
-if { { ac_try="$ac_link_default"
-case "(($ac_try" in
-  *\"* | *\`* | *\\*) ac_try_echo=\$ac_try;;
-  *) ac_try_echo=$ac_try;;
-esac
-eval ac_try_echo="\"\$as_me:${as_lineno-$LINENO}: $ac_try_echo\""
-$as_echo "$ac_try_echo"; } >&5
-  (eval "$ac_link_default") 2>&5
-  ac_status=$?
-  $as_echo "$as_me:${as_lineno-$LINENO}: \$? = $ac_status" >&5
-  test $ac_status = 0; }; then :
-  # Autoconf-2.13 could set the ac_cv_exeext variable to `no'.
-# So ignore a value of `no', otherwise this would lead to `EXEEXT = no'
-# in a Makefile.  We should not override ac_cv_exeext if it was cached,
-# so that the user can short-circuit this test for compilers unknown to
-# Autoconf.
-for ac_file in $ac_files ''
-do
-  test -f "$ac_file" || continue
-  case $ac_file in
-    *.$ac_ext | *.xcoff | *.tds | *.d | *.pdb | *.xSYM | *.bb | *.bbg | *.map | *.inf | *.dSYM | *.o | *.obj )
-	;;
-    [ab].out )
-	# We found the default executable, but exeext='' is most
-	# certainly right.
-	break;;
-    *.* )
-	if test "${ac_cv_exeext+set}" = set && test "$ac_cv_exeext" != no;
-	then :; else
-	   ac_cv_exeext=`expr "$ac_file" : '[^.]*\(\..*\)'`
-	fi
-	# We set ac_cv_exeext here because the later test for it is not
-	# safe: cross compilers may not add the suffix if given an `-o'
-	# argument, so we may need to know it at that point already.
-	# Even if this section looks crufty: it has the advantage of
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-done
-test "$ac_cv_exeext" = no && ac_cv_exeext=
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-$as_echo "$as_me: failed program was:" >&5
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-
-{ { $as_echo "$as_me:${as_lineno-$LINENO}: error: in \`$ac_pwd':" >&5
-$as_echo "$as_me: error: in \`$ac_pwd':" >&2;}
-as_fn_error 77 "C++ compiler cannot create executables
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-else
-  { $as_echo "$as_me:${as_lineno-$LINENO}: result: yes" >&5
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-fi
-{ $as_echo "$as_me:${as_lineno-$LINENO}: checking for C++ compiler default output file name" >&5
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-{ $as_echo "$as_me:${as_lineno-$LINENO}: result: $ac_file" >&5
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-ac_exeext=$ac_cv_exeext
-
-rm -f -r a.out a.out.dSYM a.exe conftest$ac_cv_exeext b.out
-ac_clean_files=$ac_clean_files_save
-{ $as_echo "$as_me:${as_lineno-$LINENO}: checking for suffix of executables" >&5
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-eval ac_try_echo="\"\$as_me:${as_lineno-$LINENO}: $ac_try_echo\""
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-  (eval "$ac_link") 2>&5
-  ac_status=$?
-  $as_echo "$as_me:${as_lineno-$LINENO}: \$? = $ac_status" >&5
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-  # If both `conftest.exe' and `conftest' are `present' (well, observable)
-# catch `conftest.exe'.  For instance with Cygwin, `ls conftest' will
-# work properly (i.e., refer to `conftest.exe'), while it won't with
-# `rm'.
-for ac_file in conftest.exe conftest conftest.*; do
-  test -f "$ac_file" || continue
-  case $ac_file in
-    *.$ac_ext | *.xcoff | *.tds | *.d | *.pdb | *.xSYM | *.bb | *.bbg | *.map | *.inf | *.dSYM | *.o | *.obj ) ;;
-    *.* ) ac_cv_exeext=`expr "$ac_file" : '[^.]*\(\..*\)'`
-	  break;;
-    * ) break;;
-  esac
-done
-else
-  { { $as_echo "$as_me:${as_lineno-$LINENO}: error: in \`$ac_pwd':" >&5
-$as_echo "$as_me: error: in \`$ac_pwd':" >&2;}
-as_fn_error $? "cannot compute suffix of executables: cannot compile and link
-See \`config.log' for more details" "$LINENO" 5; }
-fi
-rm -f conftest conftest$ac_cv_exeext
-{ $as_echo "$as_me:${as_lineno-$LINENO}: result: $ac_cv_exeext" >&5
-$as_echo "$ac_cv_exeext" >&6; }
-
-rm -f conftest.$ac_ext
-EXEEXT=$ac_cv_exeext
-ac_exeext=$EXEEXT
-cat confdefs.h - <<_ACEOF >conftest.$ac_ext
-/* end confdefs.h.  */
-#include <stdio.h>
-int
-main ()
-{
-FILE *f = fopen ("conftest.out", "w");
- return ferror (f) || fclose (f) != 0;
-
-  ;
-  return 0;
-}
-_ACEOF
-ac_clean_files="$ac_clean_files conftest.out"
-# Check that the compiler produces executables we can run.  If not, either
-# the compiler is broken, or we cross compile.
-{ $as_echo "$as_me:${as_lineno-$LINENO}: checking whether we are cross compiling" >&5
-$as_echo_n "checking whether we are cross compiling... " >&6; }
-if test "$cross_compiling" != yes; then
-  { { ac_try="$ac_link"
-case "(($ac_try" in
-  *\"* | *\`* | *\\*) ac_try_echo=\$ac_try;;
-  *) ac_try_echo=$ac_try;;
-esac
-eval ac_try_echo="\"\$as_me:${as_lineno-$LINENO}: $ac_try_echo\""
-$as_echo "$ac_try_echo"; } >&5
-  (eval "$ac_link") 2>&5
-  ac_status=$?
-  $as_echo "$as_me:${as_lineno-$LINENO}: \$? = $ac_status" >&5
-  test $ac_status = 0; }
-  if { ac_try='./conftest$ac_cv_exeext'
-  { { case "(($ac_try" in
-  *\"* | *\`* | *\\*) ac_try_echo=\$ac_try;;
-  *) ac_try_echo=$ac_try;;
-esac
-eval ac_try_echo="\"\$as_me:${as_lineno-$LINENO}: $ac_try_echo\""
-$as_echo "$ac_try_echo"; } >&5
-  (eval "$ac_try") 2>&5
-  ac_status=$?
-  $as_echo "$as_me:${as_lineno-$LINENO}: \$? = $ac_status" >&5
-  test $ac_status = 0; }; }; then
-    cross_compiling=no
-  else
-    if test "$cross_compiling" = maybe; then
-	cross_compiling=yes
-    else
-	{ { $as_echo "$as_me:${as_lineno-$LINENO}: error: in \`$ac_pwd':" >&5
-$as_echo "$as_me: error: in \`$ac_pwd':" >&2;}
-as_fn_error $? "cannot run C++ compiled programs.
-If you meant to cross compile, use \`--host'.
-See \`config.log' for more details" "$LINENO" 5; }
-    fi
-  fi
-fi
-{ $as_echo "$as_me:${as_lineno-$LINENO}: result: $cross_compiling" >&5
-$as_echo "$cross_compiling" >&6; }
-
-rm -f conftest.$ac_ext conftest$ac_cv_exeext conftest.out
-ac_clean_files=$ac_clean_files_save
-{ $as_echo "$as_me:${as_lineno-$LINENO}: checking for suffix of object files" >&5
-$as_echo_n "checking for suffix of object files... " >&6; }
-if ${ac_cv_objext+:} false; then :
-  $as_echo_n "(cached) " >&6
-else
-  cat confdefs.h - <<_ACEOF >conftest.$ac_ext
-/* end confdefs.h.  */
-
-int
-main ()
-{
-
-  ;
-  return 0;
-}
-_ACEOF
-rm -f conftest.o conftest.obj
-if { { ac_try="$ac_compile"
-case "(($ac_try" in
-  *\"* | *\`* | *\\*) ac_try_echo=\$ac_try;;
-  *) ac_try_echo=$ac_try;;
-esac
-eval ac_try_echo="\"\$as_me:${as_lineno-$LINENO}: $ac_try_echo\""
-$as_echo "$ac_try_echo"; } >&5
-  (eval "$ac_compile") 2>&5
-  ac_status=$?
-  $as_echo "$as_me:${as_lineno-$LINENO}: \$? = $ac_status" >&5
-  test $ac_status = 0; }; then :
-  for ac_file in conftest.o conftest.obj conftest.*; do
-  test -f "$ac_file" || continue;
-  case $ac_file in
-    *.$ac_ext | *.xcoff | *.tds | *.d | *.pdb | *.xSYM | *.bb | *.bbg | *.map | *.inf | *.dSYM ) ;;
-    *) ac_cv_objext=`expr "$ac_file" : '.*\.\(.*\)'`
-       break;;
-  esac
-done
-else
-  $as_echo "$as_me: failed program was:" >&5
-sed 's/^/| /' conftest.$ac_ext >&5
-
-{ { $as_echo "$as_me:${as_lineno-$LINENO}: error: in \`$ac_pwd':" >&5
-$as_echo "$as_me: error: in \`$ac_pwd':" >&2;}
-as_fn_error $? "cannot compute suffix of object files: cannot compile
-See \`config.log' for more details" "$LINENO" 5; }
-fi
-rm -f conftest.$ac_cv_objext conftest.$ac_ext
-fi
-{ $as_echo "$as_me:${as_lineno-$LINENO}: result: $ac_cv_objext" >&5
-$as_echo "$ac_cv_objext" >&6; }
-OBJEXT=$ac_cv_objext
-ac_objext=$OBJEXT
-{ $as_echo "$as_me:${as_lineno-$LINENO}: checking whether we are using the GNU C++ compiler" >&5
-$as_echo_n "checking whether we are using the GNU C++ compiler... " >&6; }
-if ${ac_cv_cxx_compiler_gnu+:} false; then :
-  $as_echo_n "(cached) " >&6
-else
-  cat confdefs.h - <<_ACEOF >conftest.$ac_ext
-/* end confdefs.h.  */
-
-int
-main ()
-{
-#ifndef __GNUC__
-       choke me
-#endif
-
-  ;
-  return 0;
-}
-_ACEOF
-if ac_fn_cxx_try_compile "$LINENO"; then :
-  ac_compiler_gnu=yes
-else
-  ac_compiler_gnu=no
-fi
-rm -f core conftest.err conftest.$ac_objext conftest.$ac_ext
-ac_cv_cxx_compiler_gnu=$ac_compiler_gnu
-
-fi
-{ $as_echo "$as_me:${as_lineno-$LINENO}: result: $ac_cv_cxx_compiler_gnu" >&5
-$as_echo "$ac_cv_cxx_compiler_gnu" >&6; }
-if test $ac_compiler_gnu = yes; then
-  GXX=yes
-else
-  GXX=
-fi
-ac_test_CXXFLAGS=${CXXFLAGS+set}
-ac_save_CXXFLAGS=$CXXFLAGS
-{ $as_echo "$as_me:${as_lineno-$LINENO}: checking whether $CXX accepts -g" >&5
-$as_echo_n "checking whether $CXX accepts -g... " >&6; }
-if ${ac_cv_prog_cxx_g+:} false; then :
-  $as_echo_n "(cached) " >&6
-else
-  ac_save_cxx_werror_flag=$ac_cxx_werror_flag
-   ac_cxx_werror_flag=yes
-   ac_cv_prog_cxx_g=no
-   CXXFLAGS="-g"
-   cat confdefs.h - <<_ACEOF >conftest.$ac_ext
-/* end confdefs.h.  */
-
-int
-main ()
-{
-
-  ;
-  return 0;
-}
-_ACEOF
-if ac_fn_cxx_try_compile "$LINENO"; then :
-  ac_cv_prog_cxx_g=yes
-else
-  CXXFLAGS=""
-      cat confdefs.h - <<_ACEOF >conftest.$ac_ext
-/* end confdefs.h.  */
-
-int
-main ()
-{
-
-  ;
-  return 0;
-}
-_ACEOF
-if ac_fn_cxx_try_compile "$LINENO"; then :
-
-else
-  ac_cxx_werror_flag=$ac_save_cxx_werror_flag
-	 CXXFLAGS="-g"
-	 cat confdefs.h - <<_ACEOF >conftest.$ac_ext
-/* end confdefs.h.  */
-
-int
-main ()
-{
-
-  ;
-  return 0;
-}
-_ACEOF
-if ac_fn_cxx_try_compile "$LINENO"; then :
-  ac_cv_prog_cxx_g=yes
-fi
-rm -f core conftest.err conftest.$ac_objext conftest.$ac_ext
-fi
-rm -f core conftest.err conftest.$ac_objext conftest.$ac_ext
-fi
-rm -f core conftest.err conftest.$ac_objext conftest.$ac_ext
-   ac_cxx_werror_flag=$ac_save_cxx_werror_flag
-fi
-{ $as_echo "$as_me:${as_lineno-$LINENO}: result: $ac_cv_prog_cxx_g" >&5
-$as_echo "$ac_cv_prog_cxx_g" >&6; }
-if test "$ac_test_CXXFLAGS" = set; then
-  CXXFLAGS=$ac_save_CXXFLAGS
-elif test $ac_cv_prog_cxx_g = yes; then
-  if test "$GXX" = yes; then
-    CXXFLAGS="-g -O2"
-  else
-    CXXFLAGS="-g"
-  fi
-else
-  if test "$GXX" = yes; then
-    CXXFLAGS="-O2"
-  else
-    CXXFLAGS=
-  fi
-fi
-ac_ext=cpp
-ac_cpp='$CXXCPP $CPPFLAGS'
-ac_compile='$CXX -c $CXXFLAGS $CPPFLAGS conftest.$ac_ext >&5'
-ac_link='$CXX -o conftest$ac_exeext $CXXFLAGS $CPPFLAGS $LDFLAGS conftest.$ac_ext $LIBS >&5'
-ac_compiler_gnu=$ac_cv_cxx_compiler_gnu
-
-
-{ $as_echo "$as_me:${as_lineno-$LINENO}: checking for $CXX option to support OpenMP" >&5
-$as_echo_n "checking for $CXX option to support OpenMP... " >&6; }
-if ${ac_cv_prog_cxx_openmp+:} false; then :
-  $as_echo_n "(cached) " >&6
-else
-  cat confdefs.h - <<_ACEOF >conftest.$ac_ext
-/* end confdefs.h.  */
-
-#ifndef _OPENMP
- choke me
-#endif
-#include <omp.h>
-int main () { return omp_get_num_threads (); }
-
-_ACEOF
-if ac_fn_cxx_try_link "$LINENO"; then :
-  ac_cv_prog_cxx_openmp='none needed'
-else
-  ac_cv_prog_cxx_openmp='unsupported'
-	  for ac_option in -fopenmp -xopenmp -qopenmp \
-                           -openmp -mp -omp -qsmp=omp -homp \
-			   -fopenmp=libomp \
-                           -Popenmp --openmp; do
-	    ac_save_CXXFLAGS=$CXXFLAGS
-	    CXXFLAGS="$CXXFLAGS $ac_option"
-	    cat confdefs.h - <<_ACEOF >conftest.$ac_ext
-/* end confdefs.h.  */
-
-#ifndef _OPENMP
- choke me
-#endif
-#include <omp.h>
-int main () { return omp_get_num_threads (); }
-
-_ACEOF
-if ac_fn_cxx_try_link "$LINENO"; then :
-  ac_cv_prog_cxx_openmp=$ac_option
-fi
-rm -f core conftest.err conftest.$ac_objext \
-    conftest$ac_exeext conftest.$ac_ext
-	    CXXFLAGS=$ac_save_CXXFLAGS
-	    if test "$ac_cv_prog_cxx_openmp" != unsupported; then
-	      break
-	    fi
-	  done
-fi
-rm -f core conftest.err conftest.$ac_objext \
-    conftest$ac_exeext conftest.$ac_ext
-fi
-{ $as_echo "$as_me:${as_lineno-$LINENO}: result: $ac_cv_prog_cxx_openmp" >&5
-$as_echo "$ac_cv_prog_cxx_openmp" >&6; }
-    case $ac_cv_prog_cxx_openmp in #(
-      "none needed" | unsupported)
-	;; #(
-      *)
-	OPENMP_CXXFLAGS=$ac_cv_prog_cxx_openmp ;;
-    esac
-  fi
 
 
 ac_config_files="$ac_config_files src/Makevars"
@@ -2909,7 +2232,7 @@ cat >>$CONFIG_STATUS <<\_ACEOF || ac_write_fail=1
 # report actual input values of CONFIG_FILES etc. instead of their
 # values after options handling.
 ac_log="
-This file was extended by xgboost $as_me 0.6-0, which was
+This file was extended by xgboost $as_me 0.6-3, which was
 generated by GNU Autoconf 2.69.  Invocation command line was
 
   CONFIG_FILES    = $CONFIG_FILES
@@ -2962,7 +2285,7 @@ _ACEOF
 cat >>$CONFIG_STATUS <<_ACEOF || ac_write_fail=1
 ac_cs_config="`$as_echo "$ac_configure_args" | sed 's/^ //; s/[\\""\`\$]/\\\\&/g'`"
 ac_cs_version="\\
-xgboost config.status 0.6-0
+xgboost config.status 0.6-3
 configured by $0, generated by GNU Autoconf 2.69,
   with options \\"\$ac_cs_config\\"
 
diff --git a/R-package/configure.ac b/R-package/configure.ac
index edb504706..de2f7dde2 100644
--- a/R-package/configure.ac
+++ b/R-package/configure.ac
@@ -2,43 +2,19 @@
 
 AC_PREREQ(2.62)
 
-AC_INIT([xgboost],[0.6-0],[],[xgboost],[])
+AC_INIT([xgboost],[0.6-3],[],[xgboost],[])
 
-CXX1X=`"${R_HOME}/bin/R" CMD config CXX1X`
-CXX1XSTD=`"${R_HOME}/bin/R" CMD config CXX1XSTD`
-CXX="${CXX1X} ${CXX1XSTD}"
-CXXFLAGS=`"${R_HOME}/bin/R" CMD config CXX1XFLAGS`
+OPENMP_CXXFLAGS=""
 
-AC_LANG(C++)
-  OPENMP_[]_AC_LANG_PREFIX[]FLAGS=
-  AC_ARG_ENABLE([openmp],
-    [AS_HELP_STRING([--disable-openmp], [do not use OpenMP])])
-  if test "$enable_openmp" != no; then
-    AC_CACHE_CHECK([for $[]_AC_CC[] option to support OpenMP],
-      [ac_cv_prog_[]_AC_LANG_ABBREV[]_openmp],
-      [AC_LINK_IFELSE([_AC_LANG_OPENMP],
-	 [ac_cv_prog_[]_AC_LANG_ABBREV[]_openmp='none needed'],
-	 [ac_cv_prog_[]_AC_LANG_ABBREV[]_openmp='unsupported'
-	  for ac_option in -fopenmp -xopenmp -qopenmp \
-                           -openmp -mp -omp -qsmp=omp -homp \
-			   -fopenmp=libomp \
-                           -Popenmp --openmp; do
-	    ac_save_[]_AC_LANG_PREFIX[]FLAGS=$[]_AC_LANG_PREFIX[]FLAGS
-	    _AC_LANG_PREFIX[]FLAGS="$[]_AC_LANG_PREFIX[]FLAGS $ac_option"
-	    AC_LINK_IFELSE([_AC_LANG_OPENMP],
-	      [ac_cv_prog_[]_AC_LANG_ABBREV[]_openmp=$ac_option])
-	    _AC_LANG_PREFIX[]FLAGS=$ac_save_[]_AC_LANG_PREFIX[]FLAGS
-	    if test "$ac_cv_prog_[]_AC_LANG_ABBREV[]_openmp" != unsupported; then
-	      break
-	    fi
-	  done])])
-    case $ac_cv_prog_[]_AC_LANG_ABBREV[]_openmp in #(
-      "none needed" | unsupported)
-	;; #(
-      *)
-	OPENMP_[]_AC_LANG_PREFIX[]FLAGS=$ac_cv_prog_[]_AC_LANG_ABBREV[]_openmp ;;
-    esac
-  fi
+if test `uname -s` = "Linux"
+then
+  OPENMP_CXXFLAGS="\$(SHLIB_OPENMP_CFLAGS)"
+fi
+
+if test `uname -s` = "Darwin"
+then
+  OPENMP_CXXFLAGS="\$(SHLIB_OPENMP_CFLAGS)"
+fi
 
 AC_SUBST(OPENMP_CXXFLAGS)
 AC_CONFIG_FILES([src/Makevars])
diff --git a/src/common/thread_local.h b/src/common/thread_local.h
index 812fe973c..c996152fc 100644
--- a/src/common/thread_local.h
+++ b/src/common/thread_local.h
@@ -19,7 +19,9 @@ namespace xgboost {
 namespace common {
 
 // macro hanlding for threadlocal variables
-#ifdef __GNUC__
+#ifdef __sun
+  #define MX_TREAD_LOCAL
+#elif defined(__GNUC__)
   #define MX_TREAD_LOCAL __thread
 #elif __STDC_VERSION__ >= 201112L
   #define  MX_TREAD_LOCAL _Thread_local