Changeset: 6be9e226415d for MonetDB
URL: http://dev.monetdb.org/hg/MonetDB?cmd=changeset;node=6be9e226415d
Added Files:
sql/backends/monet5/Tests/pyapi29.sql
sql/backends/monet5/Tests/pyapi29.stable.err
sql/backends/monet5/Tests/pyapi29.stable.out
sql/test/testdb-upgrade-chain-hge/Tests/upgrade.stable.out.oid32
sql/test/testdb-upgrade-hge/Tests/upgrade.stable.out.oid32
Modified Files:
configure.ag
gdk/gdk_bbp.c
monetdb5/optimizer/opt_garbageCollector.c
sql/backends/monet5/Tests/All
Branch: iot
Log Message:
Merge with default
diffs (truncated from 19866 to 300 lines):
diff --git a/configure.ag b/configure.ag
--- a/configure.ag
+++ b/configure.ag
@@ -162,7 +162,7 @@ AC_ARG_ENABLE(netcdf,
[enable support for netcdf (default=auto)]),
enable_netcdf=$enableval,
enable_netcdf=$dft_netcdf)
-
+
dft_lidar=auto
AC_ARG_ENABLE(lidar,
AS_HELP_STRING([--enable-lidar],
@@ -299,6 +299,13 @@ AC_ARG_ENABLE(developer,
enable_developer=$enableval,
enable_developer=$dft_developer)
+dft_sanitizer=no
+AC_ARG_ENABLE(sanitizer,
+ AS_HELP_STRING([--enable-sanitizer],
+ [enable support for the GCC address sanitizer (default=no)]),
+ enable_sanitizer=$enableval,
+ enable_sanitizer=$dft_sanitizer)
+
dnl The console is a direct client hooked onto the kernel with full
dnl administrative privileges, bypassing any security checks. It is
dnl handy only during development.
@@ -521,7 +528,7 @@ case "$host_os" in
LINUX_DIST=`source /etc/os-release; echo ${ID}:${VERSION_ID}`
elif test -s /etc/fedora-release ; then
LINUX_DIST="`cat /etc/fedora-release | head -n1 \
- | sed 's|^.*\(Fedora\).* release \([[0-9]][[^ \n]]*\)\(
.*\)*$|\1:\2|'`"
+ | sed 's|^.*\(Fedora\).* release \([[0-9]][[^ \n]]*\)\(
.*\)*$|\1:\2|'`"
elif test -s /etc/centos-release ; then
LINUX_DIST="`cat /etc/centos-release | head -n1 \
| sed 's|^\(CentOS\).* release \([[0-9]][[^ \n]]*\)\(
.*\)*$|\1:\2|'`"
@@ -533,7 +540,7 @@ case "$host_os" in
| sed 's|^.*\(Red\) \(Hat\).* Linux *\([[A-Z]]*\)
release \([[0-9]][[^ \n]]*\)\( .*\)*$|\1\2:\4\3|' \
| sed 's|^Red Hat Enterprise Linux \([[AW]]S\) release
\([[0-9]][[^ \n]]*\)\( .*\)*$|RHEL:\2\1|' \
| sed 's|^\(CentOS\).* release \([[0-9]][[^ \n]]*\)\(
.*\)*$|\1:\2|' \
- | sed 's|^\(Scientific\) Linux.* release \([[0-9]][[^
\n]]*\)\( .*\)*$|\1:\2|'`"
+ | sed 's|^\(Scientific\) Linux.* release \([[0-9]][[^
\n]]*\)\( .*\)*$|\1:\2|'`"
elif test -s /etc/SuSE-release ; then
LINUX_DIST="`cat /etc/SuSE-release | head -n1 \
| sed 's|^.*\(S[[Uu]]SE\) LINUX Enterprise
\([[SD]]\)[[ervsktop]]* \([[0-9]][[^ \n]]*\)\( .*\)*$|\1:\3E\2|' \
@@ -542,7 +549,7 @@ case "$host_os" in
| sed 's|^open\(S[[Uu]]SE\) \([[0-9]][[^ \n]]*\)\(
.*\)*$|\1:\2|'`"
elif test -s /etc/gentoo-release ; then
LINUX_DIST="`cat /etc/gentoo-release | head -n1 \
- | sed 's|^.*\(Gentoo\) Base System.*
[[versionrelease]]* \([[0-9]][[^ \n]]*\)\( .*\)*$|\1:\2|'`"
+ | sed 's|^.*\(Gentoo\) Base System.*
[[versionrelease]]* \([[0-9]][[^ \n]]*\)\( .*\)*$|\1:\2|'`"
elif test -s /etc/lsb-release ; then
LINUX_DIST="`grep '^DISTRIB_ID=' /etc/lsb-release | cut -d'='
-f2`:`grep '^DISTRIB_RELEASE=' /etc/lsb-release | cut -d'=' -f2`"
elif test -s /etc/debian_version ; then
@@ -604,7 +611,7 @@ dnl Set compiler switches.
dnl The idea/goal is to be as strict as possible, i.e., enable preferably
dnl *all* warnings and make them errors. This should help keep the code
dnl as clean and portable as possible.
-dnl It turned out, though, that this, especially turning all warnings into
+dnl It turned out, though, that this, especially turning all warnings into
dnl errors, is a bit too ambitious for configure/autoconf. Hence, we set
dnl all flags that enable specific warnings and those that make the
dnl compiler die on them (-Werror) in X_CFLAGS, which are added to the
@@ -753,11 +760,31 @@ yes-*-*)
dnl # 193: zero used for undefined preprocessing identifier
dnl #1357: optimization disabled due to excessive resource
requirements; contact Intel Premier Support for assistance
dnl #1572: floating-point equality and inequality comparisons are
unreliable
- dnl #1599: declaration hides variable
+ dnl #1599: declaration hides variable
dnl #2259: non-pointer conversion from "." to "." may lose significant
bits
;;
esac
fi
+if test "x$enable_sanitizer" != xno; then
+case "$GCC" in
+yes)
+ # if no specific sanitizer was specified, use address sanitizer
+ if test "x$enable_sanitizer" = xyes; then
+ MCHECK_ADD_FLAG([-fsanitize=address])
+ else
+ MCHECK_ADD_FLAG([-fsanitize=$enable_sanitizer])
+ if test "x$enable_sanitizer" = xthread; then
+ X_CFLAGS="$X_CFLAGS -DNO_ATOMIC_INSTRUCTIONS"
+ fi
+ fi
+ MCHECK_ADD_FLAG([-fno-omit-frame-pointer])
+ ;;
+*)
+ AC_MSG_ERROR([--enable-sanitizer only supported with GCC])
+ ;;
+esac
+fi
+
AC_SUBST(CFLAGS)
AC_SUBST(X_CFLAGS)
@@ -778,7 +805,7 @@ case "$host_os" in
solaris*)
case "$GCC" in
yes) ;;
- *)
+ *)
THREAD_SAVE_FLAGS="$THREAD_SAVE_FLAGS -mt"
;;
esac
@@ -1002,7 +1029,7 @@ if test "x$enable_optimize" = xyes; then
JAVACFLAGS="$JAVACFLAGS -g:none -O"
case "$GCC-$CC_ver" in
yes-clang-*)
- CFLAGS="$CFLAGS -O3 -fomit-frame-pointer" # -finline-functions is no
longer supported in llvm 3.6
+ CFLAGS="$CFLAGS -O3 -fomit-frame-pointer" # -finline-functions is no
longer supported in llvm 3.6
;;
yes-*)
dnl -fomit-frame-pointer crashes memprof
@@ -1014,7 +1041,7 @@ if test "x$enable_optimize" = xyes; then
# -ftree-builtin-call-dce -ftree-ccp -ftree-ch
# -ftree-copyrename -ftree-dce -ftree-dominator-opts
# -ftree-dse -ftree-forwprop -ftree-fre -ftree-phiprop
- # -ftree-sra -ftree-pta -ftree-ter -funit-at-a-time
+ # -ftree-sra -ftree-pta -ftree-ter -funit-at-a-time
# on top of this -fomit-frame-pointer is enabled on machines
# where this does not interfere with debugging.
# -O2 on gcc enables optimisations which do not involve a
@@ -1035,7 +1062,7 @@ if test "x$enable_optimize" = xyes; then
# of -O2:
# -finline-functions, -funswitch-loops,
# -fpredictive-commoning, -fgcse-after-reload,
- # -ftree-vectorize and -fipa-cp-clone
+ # -ftree-vectorize and -fipa-cp-clone
CFLAGS="-O3 -fomit-frame-pointer -pipe ${CFLAGS}"
# because we explicitly disable debugging, we can explicitly
# enable -fomit-frame-pointer here
@@ -1076,7 +1103,7 @@ if test "x$enable_optimize" = xyes; then
# x86_64-*-*-10.*) CFLAGS="$CFLAGS
-axWPT ";;
dnl We need to use -mp instead of -mp1 as otherwise nextafter()
& nextafterf() do not work correctly for 0
- x86_64-*-*-11.*) CFLAGS="$CFLAGS -mp -O3 -restrict -unroll
-axSSE4.2 ";;
+ x86_64-*-*-11.*) CFLAGS="$CFLAGS -mp -O3 -restrict -unroll
-axSSE4.2 ";;
dnl -mp does no longer exist with icc 15; using -mieee-fp,
instead.
dnl adding -axSSE4.2 (or even -axCORE-AVX512) results in errors
like
dnl "error: ODBCFetch has been targeted for automatic cpu
dispatch" ...
@@ -1116,7 +1143,7 @@ if test "x$enable_optimize" = xyes; then
dnl (Mserver produces some incorrect
BATpropcheck warnings);
dnl hence, we use only "-O2", here.
;;
- esac
+ esac
;;
esac
# for stack-traces with assert, we DO want a frame-pointer
@@ -1767,7 +1794,7 @@ case "$have_bz2" in
;;
esac
-AC_MSG_CHECKING(for bzip2)
+AC_MSG_CHECKING(for bzip2)
if test "x$have_bz2" != xno; then
save_CPPFLAGS="$CPPFLAGS"
CPPFLAGS="$CPPFLAGS $BZ_CFLAGS"
@@ -1831,7 +1858,7 @@ PTHREAD_INCS=""
PTHREAD_EXTRA=""
AC_ARG_WITH(pthread,
AS_HELP_STRING([--with-pthread=DIR],
- [pthread library is installed in DIR]),
+ [pthread library is installed in DIR]),
have_pthread="$withval")
case "$have_pthread" in
@@ -1852,12 +1879,12 @@ if test "x$have_pthread" != xno; then
CPPFLAGS="$CPPFLAGS $PTHREAD_INCS/pthread
$PTHREAD_EXTRA"
AC_CHECK_HEADER(pthread.h,[AC_DEFINE(HAVE_PTHREAD_H, 1,
[Define if you
have the pthread.h])
- AC_CHECK_HEADERS(pthread.h semaphore.h
sched.h)
- PTHREAD_INCS="$PTHREAD_INCS/pthread"])
+ AC_CHECK_HEADERS(pthread.h semaphore.h
sched.h)
+ PTHREAD_INCS="$PTHREAD_INCS/pthread"])
;;
*)
CPPFLAGS="$CPPFLAGS $PTHREAD_INCS $PTHREAD_EXTRA"
- AC_CHECK_HEADERS(pthread.h semaphore.h sched.h)
+ AC_CHECK_HEADERS(pthread.h semaphore.h sched.h)
;;
esac
CPPFLAGS="$save_CPPFLAGS"
@@ -1868,7 +1895,7 @@ if test "x$have_pthread" != xno; then
yes-auto-clang-5.*|yes-yes-clang-5.*|yes-auto-clang-6.*|yes-yes-clang-6.*|yes-auto-clang-7.*|yes-yes-clang-7.*)
# clang 5.*/6.*/7.* (Xcode 6.0) does not
# seem to have / require -pthread as compiler
- # option; on Mac OS X Yosamite, "Apple LLVM
+ # option; on Mac OS X Yosamite, "Apple LLVM
# version 6.0 (clang-600.0.51) (based on LLVM 3.5svn)"
# complains about "error: argument unused during
# compilation: '-pthread'".
@@ -1921,16 +1948,16 @@ if test "x$have_pthread" != xno; then
;;
esac
- AC_SEARCH_LIBS(pthread_kill, ,
+ AC_SEARCH_LIBS(pthread_kill, ,
AC_DEFINE(HAVE_PTHREAD_KILL, 1,
[Define if you have the pthread_kill function]))
- AC_SEARCH_LIBS(pthread_sigmask, ,
+ AC_SEARCH_LIBS(pthread_sigmask, ,
AC_DEFINE(HAVE_PTHREAD_SIGMASK, 1,
[Define if you have the pthread_sigmask function]))
- AC_SEARCH_LIBS(pthread_kill_other_threads_np, ,
+ AC_SEARCH_LIBS(pthread_kill_other_threads_np, ,
AC_DEFINE(HAVE_PTHREAD_KILL_OTHER_THREADS_NP, 1,
[Define if you have the pthread_kill_other_threads_np
function]))
- AC_SEARCH_LIBS(pthread_setschedprio, ,
+ AC_SEARCH_LIBS(pthread_setschedprio, ,
AC_DEFINE(HAVE_PTHREAD_SETSCHEDPRIO, 1,
[Define if you have the pthread_setschedprio function]))
dnl this function very ugly is overloaded with semaphore stuff
@@ -1964,7 +1991,7 @@ READLINE_LIBS=""
READLINE_INCS=""
AC_ARG_WITH(readline,
AS_HELP_STRING([--with-readline=DIR],
- [readline library is installed in DIR]),
+ [readline library is installed in DIR]),
have_readline="$withval")
case "$have_readline" in
@@ -2534,8 +2561,8 @@ if test "x$have_proj" != xno ; then
CPPFLAGS="$CPPFLAGS $PROJ_INCS"
LDFLAGS="$LDFLAGS $PROJ_LIBS"
AC_CHECK_HEADER(proj_api.h,
- AC_CHECK_LIB(proj, pj_init_plus,
- AC_DEFINE(HAVE_PROJ, 1, [Define if the proj library
exists]),
+ AC_CHECK_LIB(proj, pj_init_plus,
+ AC_DEFINE(HAVE_PROJ, 1, [Define if the proj library
exists]),
[ if test "x$have_proj" != xauto; then
AC_MSG_ERROR([-lproj library not found]); fi
have_proj=no; why_have_proj="(proj library not found)"
], ),
[ if test "x$have_proj" != xauto; then AC_MSG_ERROR([proj_api.h
header not found]); fi
@@ -2582,7 +2609,7 @@ if test "x$have_samtools" != xno; then
[ why_have_samtools=; AC_DEFINE([HAVE_BAM_BAM_H], 1,
[Define to 1 if you have the <samtools/bam.h> header file.]) ],
[ why_have_samtools="Neither bam/bam.h or bam/bam.h
header not found" ])
fi
-
+
if test -z "$why_have_samtools"; then
AC_CHECK_HEADER(samtools/sam.h,
[ why_have_samtools=; AC_DEFINE([HAVE_SAMTOOLS_SAM_H],
1, [Define to 1 if you have the <samtools/sam.h> header file.]) ],
@@ -2777,7 +2804,7 @@ yes|auto)
fi
# read include dirs, libs and cflags
if test "x$have_liblas" != xno; then
- LIBLAS_INCS="`$LIBLAS_CONFIG --includes`"
+ LIBLAS_INCS="`$LIBLAS_CONFIG --includes`"
LIBLAS_LIBS="`$LIBLAS_CONFIG --libs`"
fi
# if lidar is enabled and liblas was not found abort
@@ -3049,7 +3076,7 @@ case "$host_os" in
esac
if test "x$have_setsockopt" = xno; then
- AC_CHECK_FUNC(setsockopt, [],
+ AC_CHECK_FUNC(setsockopt, [],
AC_CHECK_LIB(socket, setsockopt, [ SOCKET_LIBS="-lsocket
$SOCKET_LIBS"; have_setsockopt=yes; ]))
fi
@@ -3068,7 +3095,7 @@ if test "x$have_getaddrinfo" = xyes; the
fi
dnl incase of windows we need to use try_link because windows uses the
-dnl pascal style of function calls and naming scheme. Therefore the
+dnl pascal style of function calls and naming scheme. Therefore the
dnl function needs to be compiled with the correct header
AC_CHECK_TYPE(SOCKET, , AC_DEFINE(SOCKET,int,[type used for sockets]), [#ifdef
HAVE_WINSOCK_H
#include <winsock.h>
@@ -3683,6 +3710,7 @@ for comp in \
'debug ' \
'optimize ' \
'developer ' \
+ 'sanitizer ' \
'instrument' \
'profile ' \
; do
diff --git a/gdk/gdk_bbp.c b/gdk/gdk_bbp.c
--- a/gdk/gdk_bbp.c
+++ b/gdk/gdk_bbp.c
@@ -885,7 +885,7 @@ fixwkbheap(void)
new = (var_t *) Tloc(b, BUNfirst(b));
for (i = 0; i < b->batCount; i++) {
int len;
- owkb = (struct old_wkb *) (h2.base + old[i]);
+ owkb = (struct old_wkb *) (h2.base + (old[i] <<
GDK_VARSHIFT));
if ((len = owkb->len) == ~0)
len = 0;
if ((new[i] = HEAP_malloc(b->T->vheap, offsetof(struct
new_wkb, data) + len)) == 0)
diff --git a/monetdb5/optimizer/opt_garbageCollector.c
b/monetdb5/optimizer/opt_garbageCollector.c
--- a/monetdb5/optimizer/opt_garbageCollector.c
+++ b/monetdb5/optimizer/opt_garbageCollector.c
@@ -128,7 +128,7 @@ OPTgarbageCollectorImplementation(Client
chkDeclarations(cntxt->fdout, mb);
}
/* keep all actions taken as a post block comment */
- snprintf(buf,256,"%-20s actions=%2d time=" LLFMT "
usec","garbagecollctor",actions+1,GDKusec() - usec);
+ snprintf(buf,256,"%-20s actions=%2d time=" LLFMT "
usec","garbagecollector",actions+1,GDKusec() - usec);
newComment(mb,buf);
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