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--- configure.orig 2016-02-24 02:55:11 UTC
+++ configure
@@ -6886,7 +6886,7 @@ case $host_os in *\ *) host_os=`echo "$h
# set CFLAGS and CXXFLAGS
#user_CFLAGS="${CXXFLAGS}"
user_CFLAGS=${CFLAGS}
-generic_CFLAGS="-Wall -Wno-strict-aliasing -g -gdwarf-2 -Wuninitialized"
+generic_CFLAGS="-Wno-strict-aliasing -g -gdwarf-2 -Wuninitialized"
ext_CFLAGS=""
debug_CFLAGS=""
user_LDFLAGS="$LDFLAGS"
@@ -6922,8 +6922,8 @@ else
fi
CFLAGS="${generic_CFLAGS} ${ext_CFLAGS} ${user_CFLAGS} ${debug_CFLAGS}"
-CXXFLAGS="$CFLAGS"
-CXXFLAGS="$CXXFLAGS $BAM_CPPFLAGS $BOOST_CPPFLAGS -I./SeqAn-1.4.2"
+CXXFLAGS="-std=gnu++98 $CFLAGS"
+CXXFLAGS="-I./SeqAn-1.4.2 $CXXFLAGS $BAM_CPPFLAGS $BOOST_CPPFLAGS"
LDFLAGS="$BAM_LDFLAGS $BOOST_LDFLAGS $user_LDFLAGS"
if test "`cd $srcdir && pwd`" != "`pwd`"; then
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