[R-package] pass R-configured compiler flags to checks in configure (#4506)

* [R-package] pass compiler flags to checks in configure

* leave OpenMP check alone

* prefer C++11 flags

* install Matrix in valgrind tests

* one less AC_LANG() call
Co-authored-by: Nikita Titov <nekit94-12@hotmail.com>

R-package/configure

@@ -1694,7 +1694,17 @@ if test -z "${R_HOME}"; then
     exit 1
 fi
 CC=`"${R_HOME}/bin/R" CMD config CC`
-CXX=`"${R_HOME}/bin/R" CMD config CXX11`
+CXX11=`"${R_HOME}/bin/R" CMD config CXX11`
+CXX11STD=`"${R_HOME}/bin/R" CMD config CXX11STD`
+CXX="${CXX11} ${CXX11STD}"
+CPPFLAGS=`"${R_HOME}/bin/R" CMD config CPPFLAGS`
+CXXFLAGS=`"${R_HOME}/bin/R" CMD config CXX11FLAGS`
+ac_ext=cpp
+ac_cpp='$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
+
 
 # LightGBM-specific flags
 LGB_CPPFLAGS=""
@@ -1712,12 +1722,6 @@ LGB_CPPFLAGS="${LGB_CPPFLAGS} -DEIGEN_MPL2_ONLY"
 { $as_echo "$as_me:${as_lineno-$LINENO}: checking whether MM_PREFETCH works" >&5
 $as_echo_n "checking whether MM_PREFETCH works... " >&6; }
 ac_mmprefetch=no
-ac_ext=cpp
-ac_cpp='$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
-
 cat confdefs.h - <<_ACEOF >conftest.$ac_ext
 /* end confdefs.h.  */
 
@@ -1739,7 +1743,7 @@ main ()
 
 
 _ACEOF
-${CXX} -o conftest conftest.cpp 2>/dev/null && ./conftest && ac_mmprefetch=yes
+${CXX} ${CPPFLAGS} ${CXXFLAGS} -o conftest conftest.cpp 2>/dev/null && ./conftest && ac_mmprefetch=yes
 { $as_echo "$as_me:${as_lineno-$LINENO}: result: ${ac_mmprefetch}" >&5
 $as_echo "${ac_mmprefetch}" >&6; }
 if test "${ac_mmprefetch}" = yes; then
@@ -1753,12 +1757,6 @@ fi
 { $as_echo "$as_me:${as_lineno-$LINENO}: checking whether MM_MALLOC works" >&5
 $as_echo_n "checking whether MM_MALLOC works... " >&6; }
 ac_mm_malloc=no
-ac_ext=cpp
-ac_cpp='$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
-
 cat confdefs.h - <<_ACEOF >conftest.$ac_ext
 /* end confdefs.h.  */
 
@@ -1780,7 +1778,7 @@ main ()
 
 
 _ACEOF
-${CXX} -o conftest conftest.cpp 2>/dev/null && ./conftest && ac_mm_malloc=yes
+${CXX} ${CPPFLAGS} ${CXXFLAGS} -o conftest conftest.cpp 2>/dev/null && ./conftest && ac_mm_malloc=yes
 { $as_echo "$as_me:${as_lineno-$LINENO}: result: ${ac_mm_malloc}" >&5
 $as_echo "${ac_mm_malloc}" >&6; }
 if test "${ac_mm_malloc}" = yes; then

R-package/configure.ac

@@ -21,7 +21,12 @@ if test -z "${R_HOME}"; then
     exit 1
 fi
 CC=`"${R_HOME}/bin/R" CMD config CC`
-CXX=`"${R_HOME}/bin/R" CMD config CXX11`
+CXX11=`"${R_HOME}/bin/R" CMD config CXX11`
+CXX11STD=`"${R_HOME}/bin/R" CMD config CXX11STD`
+CXX="${CXX11} ${CXX11STD}"
+CPPFLAGS=`"${R_HOME}/bin/R" CMD config CPPFLAGS`
+CXXFLAGS=`"${R_HOME}/bin/R" CMD config CXX11FLAGS`
+AC_LANG(C++)
 
 # LightGBM-specific flags
 LGB_CPPFLAGS=""
@@ -38,7 +43,6 @@ LGB_CPPFLAGS="${LGB_CPPFLAGS} -DEIGEN_MPL2_ONLY"
 
 AC_MSG_CHECKING([whether MM_PREFETCH works])
 ac_mmprefetch=no
-AC_LANG(C++)
 AC_LANG_CONFTEST(
     [
         AC_LANG_PROGRAM(
@@ -53,7 +57,7 @@ AC_LANG_CONFTEST(
         )
     ]
 )
-${CXX} -o conftest conftest.cpp 2>/dev/null && ./conftest && ac_mmprefetch=yes
+${CXX} ${CPPFLAGS} ${CXXFLAGS} -o conftest conftest.cpp 2>/dev/null && ./conftest && ac_mmprefetch=yes
 AC_MSG_RESULT([${ac_mmprefetch}])
 if test "${ac_mmprefetch}" = yes; then
     LGB_CPPFLAGS+=" -DMM_PREFETCH=1"
@@ -65,7 +69,6 @@ fi
 
 AC_MSG_CHECKING([whether MM_MALLOC works])
 ac_mm_malloc=no
-AC_LANG(C++)
 AC_LANG_CONFTEST(
     [
         AC_LANG_PROGRAM(
@@ -80,7 +83,7 @@ AC_LANG_CONFTEST(
         )
     ]
 )
-${CXX} -o conftest conftest.cpp 2>/dev/null && ./conftest && ac_mm_malloc=yes
+${CXX} ${CPPFLAGS} ${CXXFLAGS} -o conftest conftest.cpp 2>/dev/null && ./conftest && ac_mm_malloc=yes
 AC_MSG_RESULT([${ac_mm_malloc}])
 if test "${ac_mm_malloc}" = yes; then
     LGB_CPPFLAGS+=" -DMM_MALLOC=1"