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deps: bump libmdbx to 0.13.6 #15412

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Merged
merged 10 commits into from
May 12, 2025
Merged

deps: bump libmdbx to 0.13.6 #15412

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233950d
deps: bump libmdbx
shekhirin Mar 31, 2025
ffc1545
bump to 0.13.6
shekhirin May 6, 2025
19f6228
Merge remote-tracking branch 'origin/main' into alexey/bump-mdbx-1
shekhirin May 6, 2025
c927542
allow deps in conventional commits
shekhirin May 6, 2025
de9c1dc
fix cursor deletion test
shekhirin May 6, 2025
85fcd03
another breaking change
shekhirin May 6, 2025
01c8163
fix more cursor tests
shekhirin May 6, 2025
ef69ad0
show that cursor is now position at next after deletion
shekhirin May 6, 2025
24c8c1d
use Into impl to convert into database error
shekhirin May 6, 2025
26e1599
Merge remote-tracking branch 'origin/main' into alexey/bump-mdbx-1
shekhirin May 6, 2025
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4 changes: 3 additions & 1 deletion .github/workflows/pr-title.yml
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Original file line number Diff line number Diff line change
Expand Up @@ -26,15 +26,16 @@ jobs:
GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
with:
types: |
fix
feat
fix
chore
test
perf
refactor
docs
ci
revert
deps
continue-on-error: true
- name: Add PR Comment for Invalid Title
if: steps.lint_pr_title.outcome == 'failure'
Expand All @@ -59,6 +60,7 @@ jobs:
- `docs`: Documentation updates
- `ci`: Changes to CI/CD configurations
- `revert`: Reverts a previously merged PR
- `deps`: Updates dependencies

**Breaking Changes**

Expand Down
18 changes: 10 additions & 8 deletions crates/storage/db/src/implementation/mdbx/mod.rs
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Original file line number Diff line number Diff line change
Expand Up @@ -884,9 +884,7 @@ mod tests {
// Seek exact
let exact = cursor.seek_exact(missing_key).unwrap();
assert_eq!(exact, None);
assert_eq!(cursor.current(), Ok(Some((missing_key + 1, B256::ZERO))));
assert_eq!(cursor.prev(), Ok(Some((missing_key - 1, B256::ZERO))));
assert_eq!(cursor.prev(), Ok(Some((missing_key - 2, B256::ZERO))));
assert_eq!(cursor.current(), Ok(None));
}

#[test]
Expand Down Expand Up @@ -971,11 +969,14 @@ mod tests {

// Seek & delete key2 again
assert_eq!(cursor.seek_exact(key2), Ok(None));
assert_eq!(cursor.delete_current(), Ok(()));
assert_eq!(
cursor.delete_current(),
Err(DatabaseError::Delete(reth_libmdbx::Error::NoData.into()))
);
// Assert that key1 is still there
assert_eq!(cursor.seek_exact(key1), Ok(Some((key1, Account::default()))));
// Assert that key3 was deleted
assert_eq!(cursor.seek_exact(key3), Ok(None));
// Assert that key3 is still there
assert_eq!(cursor.seek_exact(key3), Ok(Some((key3, Account::default()))));
}

#[test]
Expand Down Expand Up @@ -1343,8 +1344,9 @@ mod tests {
let db: Arc<DatabaseEnv> = create_test_db(DatabaseEnvKind::RW);
let real_key = address!("0xa2c122be93b0074270ebee7f6b7292c7deb45047");

for i in 1..5 {
let key = ShardedKey::new(real_key, i * 100);
let shards = 5;
for i in 1..=shards {
let key = ShardedKey::new(real_key, if i == shards { u64::MAX } else { i * 100 });
let list = IntegerList::new_pre_sorted([i * 100u64]);

db.update(|tx| tx.put::<AccountsHistory>(key.clone(), list.clone()).expect(""))
Expand Down
828 changes: 552 additions & 276 deletions crates/storage/libmdbx-rs/mdbx-sys/libmdbx/CMakeLists.txt
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103 changes: 69 additions & 34 deletions crates/storage/libmdbx-rs/mdbx-sys/libmdbx/GNUmakefile
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Original file line number Diff line number Diff line change
@@ -1,4 +1,4 @@
# This makefile is for GNU Make 3.80 or above, and nowadays provided
# This makefile is for GNU Make 3.81 or above, and nowadays provided
# just for compatibility and preservation of traditions.
#
# Please use CMake in case of any difficulties or
Expand All @@ -16,6 +16,7 @@ ifneq ($(make_lt_3_81),0)
$(error Please use GNU Make 3.81 or above)
endif
make_ge_4_1 := $(shell expr "$(MAKE_VERx3)" ">=" " 4 1")
make_ge_4_4 := $(shell expr "$(MAKE_VERx3)" ">=" " 4 4")
SRC_PROBE_C := $(shell [ -f mdbx.c ] && echo mdbx.c || echo src/osal.c)
SRC_PROBE_CXX := $(shell [ -f mdbx.c++ ] && echo mdbx.c++ || echo src/mdbx.c++)
UNAME := $(shell uname -s 2>/dev/null || echo Unknown)
Expand Down Expand Up @@ -51,17 +52,24 @@ CC ?= gcc
CXX ?= g++
CFLAGS_EXTRA ?=
LD ?= ld
CMAKE ?= cmake
CMAKE_OPT ?=
CTEST ?= ctest
CTEST_OPT ?=
# target directory for `make dist`
DIST_DIR ?= dist

# build options
MDBX_BUILD_OPTIONS ?=-DNDEBUG=1
MDBX_BUILD_TIMESTAMP ?=$(shell date +%Y-%m-%dT%H:%M:%S%z)
MDBX_BUILD_CXX ?= YES
MDBX_BUILD_TIMESTAMP ?=$(if $(SOURCE_DATE_EPOCH),$(SOURCE_DATE_EPOCH),$(shell date +%Y-%m-%dT%H:%M:%S%z))
MDBX_BUILD_CXX ?=YES
MDBX_BUILD_METADATA ?=

# probe and compose common compiler flags with variable expansion trick (seems this work two times per session for GNU Make 3.81)
CFLAGS ?= $(strip $(eval CFLAGS := -std=gnu11 -O2 -g -Wall -Werror -Wextra -Wpedantic -ffunction-sections -fPIC -fvisibility=hidden -pthread -Wno-error=attributes $$(shell for opt in -fno-semantic-interposition -Wno-unused-command-line-argument -Wno-tautological-compare; do [ -z "$$$$($(CC) '-DMDBX_BUILD_FLAGS="probe"' $$$${opt} -c $(SRC_PROBE_C) -o /dev/null >/dev/null 2>&1 || echo failed)" ] && echo "$$$${opt} "; done)$(CFLAGS_EXTRA))$(CFLAGS))

# choosing C++ standard with variable expansion trick (seems this work two times per session for GNU Make 3.81)
CXXSTD ?= $(eval CXXSTD := $$(shell for std in gnu++23 c++23 gnu++2b c++2b gnu++20 c++20 gnu++2a c++2a gnu++17 c++17 gnu++1z c++1z gnu++14 c++14 gnu++1y c++1y gnu+11 c++11 gnu++0x c++0x; do $(CXX) -std=$$$${std} -c $(SRC_PROBE_CXX) -o /dev/null 2>probe4std-$$$${std}.err >/dev/null && echo "-std=$$$${std}" && exit; done))$(CXXSTD)
CXXSTD ?= $(eval CXXSTD := $$(shell for std in gnu++23 c++23 gnu++2b c++2b gnu++20 c++20 gnu++2a c++2a gnu++17 c++17 gnu++1z c++1z gnu++14 c++14 gnu++1y c++1y gnu+11 c++11 gnu++0x c++0x; do $(CXX) -std=$$$${std} -DMDBX_BUILD_CXX=1 -c $(SRC_PROBE_CXX) -o /dev/null 2>probe4std-$$$${std}.err >/dev/null && echo "-std=$$$${std}" && exit; done))$(CXXSTD)
CXXFLAGS ?= $(strip $(CXXSTD) $(filter-out -std=gnu11,$(CFLAGS)))

# libraries and options for linking
Expand All @@ -78,6 +86,13 @@ LDFLAGS ?= $(eval LDFLAGS := $$(shell $$(uname2ldflags)))$(LDFLAGS)
LIB_STDCXXFS ?= $(eval LIB_STDCXXFS := $$(shell echo '$$(cxx_filesystem_probe)' | cat mdbx.h++ - | sed $$$$'1s/\xef\xbb\xbf//' | $(CXX) -x c++ $(CXXFLAGS) -Wno-error - -Wl,--allow-multiple-definition -lstdc++fs $(LIBS) $(LDFLAGS) $(EXE_LDFLAGS) -o /dev/null 2>probe4lstdfs.err >/dev/null && echo '-Wl,--allow-multiple-definition -lstdc++fs'))$(LIB_STDCXXFS)
endif

ifneq ($(make_ge_4_4),1)
.NOTPARALLEL:
WAIT =
else
WAIT = .WAIT
endif

################################################################################

define uname2sosuffix
Expand Down Expand Up @@ -121,12 +136,13 @@ endef
SO_SUFFIX := $(shell $(uname2sosuffix))
HEADERS := mdbx.h mdbx.h++
LIBRARIES := libmdbx.a libmdbx.$(SO_SUFFIX)
TOOLS := mdbx_stat mdbx_copy mdbx_dump mdbx_load mdbx_chk mdbx_drop
TOOLS := chk copy drop dump load stat
MDBX_TOOLS := $(addprefix mdbx_,$(TOOLS))
MANPAGES := mdbx_stat.1 mdbx_copy.1 mdbx_dump.1 mdbx_load.1 mdbx_chk.1 mdbx_drop.1
TIP := // TIP:

.PHONY: all help options lib libs tools clean install uninstall check_buildflags_tag tools-static
.PHONY: install-strip install-no-strip strip libmdbx mdbx show-options lib-static lib-shared
.PHONY: install-strip install-no-strip strip libmdbx mdbx show-options lib-static lib-shared cmake-build ninja

boolean = $(if $(findstring $(strip $($1)),YES Yes yes y ON On on 1 true True TRUE),1,$(if $(findstring $(strip $($1)),NO No no n OFF Off off 0 false False FALSE),,$(error Wrong value `$($1)` of $1 for YES/NO option)))
select_by = $(if $(call boolean,$(1)),$(2),$(3))
Expand All @@ -148,7 +164,11 @@ else
$(info $(TIP) Use `make V=1` for verbose.)
endif

all: show-options $(LIBRARIES) $(TOOLS)
ifeq ($(UNAME),Darwin)
$(info $(TIP) Use `brew install gnu-sed gnu-tar` and add ones to the beginning of the PATH.)
endif

all: show-options $(LIBRARIES) $(MDBX_TOOLS)

help:
@echo " make all - build libraries and tools"
Expand All @@ -160,6 +180,7 @@ help:
@echo " make clean "
@echo " make install "
@echo " make uninstall "
@echo " make cmake-build | ninja - build by CMake & Ninja"
@echo ""
@echo " make strip - strip debug symbols from binaries"
@echo " make install-no-strip - install explicitly without strip"
Expand All @@ -175,6 +196,7 @@ show-options:
@echo " MDBX_BUILD_OPTIONS = $(MDBX_BUILD_OPTIONS)"
@echo " MDBX_BUILD_CXX = $(MDBX_BUILD_CXX)"
@echo " MDBX_BUILD_TIMESTAMP = $(MDBX_BUILD_TIMESTAMP)"
@echo " MDBX_BUILD_METADATA = $(MDBX_BUILD_METADATA)"
@echo '$(TIP) Use `make options` to listing available build options.'
@echo $(call select_by,MDBX_BUILD_CXX," CXX =`which $(CXX)` | `$(CXX) --version | head -1`"," CC =`which $(CC)` | `$(CC) --version | head -1`")
@echo $(call select_by,MDBX_BUILD_CXX," CXXFLAGS =$(CXXFLAGS)"," CFLAGS =$(CFLAGS)")
Expand Down Expand Up @@ -202,38 +224,39 @@ options:
@echo ""
@echo " MDBX_BUILD_OPTIONS = $(MDBX_BUILD_OPTIONS)"
@echo " MDBX_BUILD_TIMESTAMP = $(MDBX_BUILD_TIMESTAMP)"
@echo " MDBX_BUILD_METADATA = $(MDBX_BUILD_METADATA)"
@echo ""
@echo "## Assortment items for MDBX_BUILD_OPTIONS:"
@echo "## Note that the defaults should already be correct for most platforms;"
@echo "## you should not need to change any of these. Read their descriptions"
@echo "## in README and source code (see mdbx.c) if you do."
@grep -h '#ifndef MDBX_' mdbx.c | grep -v BUILD | uniq | sed 's/#ifndef / /'
@grep -h '#ifndef MDBX_' mdbx.c | grep -v BUILD | sort -u | sed 's/#ifndef / /'

lib libs libmdbx mdbx: libmdbx.a libmdbx.$(SO_SUFFIX)

tools: $(TOOLS)
tools-static: $(addsuffix .static,$(TOOLS)) $(addsuffix .static-lto,$(TOOLS))
tools: $(MDBX_TOOLS)
tools-static: $(addsuffix .static,$(MDBX_TOOLS)) $(addsuffix .static-lto,$(MDBX_TOOLS))

strip: all
@echo ' STRIP libmdbx.$(SO_SUFFIX) $(TOOLS)'
$(TRACE )strip libmdbx.$(SO_SUFFIX) $(TOOLS)
@echo ' STRIP libmdbx.$(SO_SUFFIX) $(MDBX_TOOLS)'
$(TRACE )strip libmdbx.$(SO_SUFFIX) $(MDBX_TOOLS)

clean:
@echo ' REMOVE ...'
$(QUIET)rm -rf $(TOOLS) mdbx_test @* *.[ao] *.[ls]o *.$(SO_SUFFIX) *.dSYM *~ tmp.db/* \
*.gcov *.log *.err src/*.o test/*.o mdbx_example dist \
config.h src/config.h src/version.c *.tar* buildflags.tag \
mdbx_*.static mdbx_*.static-lto
$(QUIET)rm -rf $(MDBX_TOOLS) mdbx_test @* *.[ao] *.[ls]o *.$(SO_SUFFIX) *.dSYM *~ tmp.db/* \
*.gcov *.log *.err src/*.o test/*.o mdbx_example dist @dist-check \
config.h src/config.h src/version.c *.tar* @buildflags.tag @dist-checked.tag \
mdbx_*.static mdbx_*.static-lto CMakeFiles

MDBX_BUILD_FLAGS =$(strip MDBX_BUILD_CXX=$(MDBX_BUILD_CXX) $(MDBX_BUILD_OPTIONS) $(call select_by,MDBX_BUILD_CXX,$(CXXFLAGS) $(LDFLAGS) $(LIB_STDCXXFS) $(LIBS),$(CFLAGS) $(LDFLAGS) $(LIBS)))
check_buildflags_tag:
$(QUIET)if [ "$(MDBX_BUILD_FLAGS)" != "$$(cat buildflags.tag 2>&1)" ]; then \
$(QUIET)if [ "$(MDBX_BUILD_FLAGS)" != "$$(cat @buildflags.tag 2>&1)" ]; then \
echo -n " CLEAN for build with specified flags..." && \
$(MAKE) IOARENA=false CXXSTD= -s clean >/dev/null && echo " Ok" && \
echo '$(MDBX_BUILD_FLAGS)' > buildflags.tag; \
echo '$(MDBX_BUILD_FLAGS)' > @buildflags.tag; \
fi

buildflags.tag: check_buildflags_tag
@buildflags.tag: check_buildflags_tag

lib-static libmdbx.a: mdbx-static.o $(call select_by,MDBX_BUILD_CXX,mdbx++-static.o)
@echo ' AR $@'
Expand All @@ -243,32 +266,46 @@ lib-shared libmdbx.$(SO_SUFFIX): mdbx-dylib.o $(call select_by,MDBX_BUILD_CXX,md
@echo ' LD $@'
$(QUIET)$(call select_by,MDBX_BUILD_CXX,$(CXX) $(CXXFLAGS),$(CC) $(CFLAGS)) $^ -pthread -shared $(LDFLAGS) $(call select_by,MDBX_BUILD_CXX,$(LIB_STDCXXFS)) $(LIBS) -o $@

ninja-assertions: CMAKE_OPT += -DMDBX_FORCE_ASSERTIONS=ON
ninja-assertions: cmake-build
ninja-debug: CMAKE_OPT += -DCMAKE_BUILD_TYPE=Debug
ninja-debug: cmake-build
ninja: cmake-build
cmake-build:
@echo " RUN: cmake -G Ninja && cmake --build"
$(QUIET)mkdir -p @cmake-ninja-build && $(CMAKE) $(CMAKE_OPT) -G Ninja -S . -B @cmake-ninja-build && $(CMAKE) --build @cmake-ninja-build

ctest: cmake-build
@echo " RUN: ctest .."
$(QUIET)$(CTEST) --test-dir @cmake-ninja-build --parallel `(nproc | sysctl -n hw.ncpu | echo 2) 2>/dev/null` --schedule-random $(CTEST_OPT)

################################################################################
# Amalgamated source code, i.e. distributed after `make dist`
MAN_SRCDIR := man1/

config.h: buildflags.tag mdbx.c $(lastword $(MAKEFILE_LIST))
config.h: @buildflags.tag $(WAIT) mdbx.c $(lastword $(MAKEFILE_LIST)) LICENSE NOTICE
@echo ' MAKE $@'
$(QUIET)(echo '#define MDBX_BUILD_TIMESTAMP "$(MDBX_BUILD_TIMESTAMP)"' \
&& echo "#define MDBX_BUILD_FLAGS \"$$(cat buildflags.tag)\"" \
&& echo "#define MDBX_BUILD_FLAGS \"$$(cat @buildflags.tag)\"" \
&& echo '#define MDBX_BUILD_COMPILER "$(shell (LC_ALL=C $(CC) --version || echo 'Please use GCC or CLANG compatible compiler') | head -1)"' \
&& echo '#define MDBX_BUILD_TARGET "$(shell set -o pipefail; (LC_ALL=C $(CC) -v 2>&1 | grep -i '^Target:' | cut -d ' ' -f 2- || (LC_ALL=C $(CC) --version | grep -qi e2k && echo E2K) || echo 'Please use GCC or CLANG compatible compiler') | head -1)"' \
&& echo '#define MDBX_BUILD_CXX $(call select_by,MDBX_BUILD_CXX,1,0)' \
&& echo '#define MDBX_BUILD_METADATA "$(MDBX_BUILD_METADATA)"' \
) >$@

mdbx-dylib.o: config.h mdbx.c mdbx.h $(lastword $(MAKEFILE_LIST))
mdbx-dylib.o: config.h mdbx.c mdbx.h $(lastword $(MAKEFILE_LIST)) LICENSE NOTICE
@echo ' CC $@'
$(QUIET)$(CC) $(CFLAGS) $(MDBX_BUILD_OPTIONS) '-DMDBX_CONFIG_H="config.h"' -DLIBMDBX_EXPORTS=1 -c mdbx.c -o $@

mdbx-static.o: config.h mdbx.c mdbx.h $(lastword $(MAKEFILE_LIST))
mdbx-static.o: config.h mdbx.c mdbx.h $(lastword $(MAKEFILE_LIST)) LICENSE NOTICE
@echo ' CC $@'
$(QUIET)$(CC) $(CFLAGS) $(MDBX_BUILD_OPTIONS) '-DMDBX_CONFIG_H="config.h"' -ULIBMDBX_EXPORTS -c mdbx.c -o $@

mdbx++-dylib.o: config.h mdbx.c++ mdbx.h mdbx.h++ $(lastword $(MAKEFILE_LIST))
mdbx++-dylib.o: config.h mdbx.c++ mdbx.h mdbx.h++ $(lastword $(MAKEFILE_LIST)) LICENSE NOTICE
@echo ' CC $@'
$(QUIET)$(CXX) $(CXXFLAGS) $(MDBX_BUILD_OPTIONS) '-DMDBX_CONFIG_H="config.h"' -DLIBMDBX_EXPORTS=1 -c mdbx.c++ -o $@

mdbx++-static.o: config.h mdbx.c++ mdbx.h mdbx.h++ $(lastword $(MAKEFILE_LIST))
mdbx++-static.o: config.h mdbx.c++ mdbx.h mdbx.h++ $(lastword $(MAKEFILE_LIST)) LICENSE NOTICE
@echo ' CC $@'
$(QUIET)$(CXX) $(CXXFLAGS) $(MDBX_BUILD_OPTIONS) '-DMDBX_CONFIG_H="config.h"' -ULIBMDBX_EXPORTS -c mdbx.c++ -o $@

Expand All @@ -285,11 +322,10 @@ mdbx_%.static-lto: mdbx_%.c config.h mdbx.c mdbx.h
$(QUIET)$(CC) $(CFLAGS) -Os -flto $(MDBX_BUILD_OPTIONS) '-DLIBMDBX_API=' '-DMDBX_CONFIG_H="config.h"' \
$< mdbx.c $(EXE_LDFLAGS) $(LIBS) -static -Wl,--strip-all -o $@


install: $(LIBRARIES) $(TOOLS) $(HEADERS)
install: $(LIBRARIES) $(MDBX_TOOLS) $(HEADERS)
@echo ' INSTALLING...'
$(QUIET)mkdir -p $(DESTDIR)$(prefix)/bin$(suffix) && \
$(INSTALL) -p $(EXE_INSTALL_FLAGS) $(TOOLS) $(DESTDIR)$(prefix)/bin$(suffix)/ && \
$(INSTALL) -p $(EXE_INSTALL_FLAGS) $(MDBX_TOOLS) $(DESTDIR)$(prefix)/bin$(suffix)/ && \
mkdir -p $(DESTDIR)$(prefix)/lib$(suffix)/ && \
$(INSTALL) -p $(EXE_INSTALL_FLAGS) $(filter-out libmdbx.a,$(LIBRARIES)) $(DESTDIR)$(prefix)/lib$(suffix)/ && \
mkdir -p $(DESTDIR)$(prefix)/lib$(suffix)/ && \
Expand All @@ -307,7 +343,7 @@ install-no-strip: install

uninstall:
@echo ' UNINSTALLING/REMOVE...'
$(QUIET)rm -f $(addprefix $(DESTDIR)$(prefix)/bin$(suffix)/,$(TOOLS)) \
$(QUIET)rm -f $(addprefix $(DESTDIR)$(prefix)/bin$(suffix)/,$(MDBX_TOOLS)) \
$(addprefix $(DESTDIR)$(prefix)/lib$(suffix)/,$(LIBRARIES)) \
$(addprefix $(DESTDIR)$(prefix)/include/,$(HEADERS)) \
$(addprefix $(DESTDIR)$(mandir)/man1/,$(MANPAGES))
Expand Down Expand Up @@ -347,18 +383,17 @@ bench-$(1)_$(2).txt: $(3) $(IOARENA) $(lastword $(MAKEFILE_LIST))
$(QUIET)(export LD_LIBRARY_PATH="./:$$$${LD_LIBRARY_PATH}"; \
ldd $(IOARENA) | grep -i $(1) && \
$(IOARENA) -D $(1) -B batch -m $(BENCH_CRUD_MODE) -n $(2) \
| tee $$@ | grep throughput | sed 's/throughput/batch×N/' && \
| tee $$@ | grep throughput | $(SED) 's/throughput/batch×N/' && \
$(IOARENA) -D $(1) -B crud -m $(BENCH_CRUD_MODE) -n $(2) \
| tee -a $$@ | grep throughput | sed 's/throughput/ crud/' && \
| tee -a $$@ | grep throughput | $(SED) 's/throughput/ crud/' && \
$(IOARENA) -D $(1) -B iterate,get,iterate,get,iterate -m $(BENCH_CRUD_MODE) -r 4 -n $(2) \
| tee -a $$@ | grep throughput | sed '0,/throughput/{s/throughput/iterate/};s/throughput/ get/' && \
| tee -a $$@ | grep throughput | $(SED) '0,/throughput/{s/throughput/iterate/};s/throughput/ get/' && \
$(IOARENA) -D $(1) -B delete -m $(BENCH_CRUD_MODE) -n $(2) \
| tee -a $$@ | grep throughput | sed 's/throughput/ delete/' && \
| tee -a $$@ | grep throughput | $(SED) 's/throughput/ delete/' && \
true) || mv -f $$@ $$@.error

endef


$(eval $(call bench-rule,mdbx,$(NN),libmdbx.$(SO_SUFFIX)))

$(eval $(call bench-rule,sophia,$(NN)))
Expand Down
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