Fix all memory leaks, vendor sqlite3, add Docker test infrastructure

Leak fixes (13 sources, 1.4MB → 0 bytes):
- Cypher: free col_names after rb_set_columns, free rejected inline
  prop nodes, store WITH aliases in qualified_name for auto-cleanup
- Store: add cbm_project_free_fields, fix find_node_ids_by_qns leak
- Graph buffer: free strdup'd hash keys during delete operations
- SQL scanner: free old start_tag before reassignment in deserialize

Platform independence:
- Vendor sqlite3 amalgamation (3.49.1) — eliminates system libsqlite3
  dependency, enables full ASan/LeakSanitizer instrumentation
- Add -I for vendored tree-sitter unicode headers — eliminates hidden
  dependency on system libicu-dev
- Add test-infrastructure/ with Docker Compose for local GCC+ASan
  testing that mirrors CI exactly
This commit is contained in:
Martin Vogel committed 2026-03-18 16:28:27 +01:00
1 parent bc66541765
commit a1d849aaaa
15 files changed
+261887 -530

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+26 -8
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@@ -21,6 +21,9 @@
# internal/cbm/vendored/ts_runtime/include — tree-sitter API
CBM_DIR = internal/cbm
TS_INCLUDE = $(CBM_DIR)/vendored/ts_runtime/include
# Vendored tree-sitter src/ contains unicode/ headers (umachine.h, utf.h, utf8.h).
# This ensures we use our vendored copies instead of requiring system libicu-dev.
TS_SRC = $(CBM_DIR)/vendored/ts_runtime/src
# ── Optional libgit2 (faster git history parsing) ────────────────
# Auto-detected via pkg-config. Falls back to popen("git log ...") if absent.
@@ -71,9 +74,9 @@ CFLAGS_TSAN = $(CFLAGS_COMMON) -g -O1 \
CXXFLAGS_TSAN = $(CXXFLAGS_COMMON) -g -O1 \
-fsanitize=thread -fno-omit-frame-pointer
LDFLAGS = -lm -lstdc++ -lpthread -lsqlite3 -lz $(LIBGIT2_LIBS)
LDFLAGS_TEST = -lm -lstdc++ -lpthread -lsqlite3 -lz -fsanitize=address,undefined $(LIBGIT2_LIBS)
LDFLAGS_TSAN = -lm -lstdc++ -lpthread -lsqlite3 -lz -fsanitize=thread $(LIBGIT2_LIBS)
LDFLAGS = -lm -lstdc++ -lpthread -lz $(LIBGIT2_LIBS)
LDFLAGS_TEST = -lm -lstdc++ -lpthread -lz -fsanitize=address,undefined $(LIBGIT2_LIBS)
LDFLAGS_TSAN = -lm -lstdc++ -lpthread -lz -fsanitize=thread $(LIBGIT2_LIBS)
# ── Source files ─────────────────────────────────────────────────
@@ -200,6 +203,11 @@ MIMALLOC_CFLAGS_TEST = -std=c11 -g -O1 -w \
-Ivendored/mimalloc/src \
-DMI_OVERRIDE=0
# sqlite3 (vendored amalgamation — compiled ourselves for ASan instrumentation)
SQLITE3_SRC = vendored/sqlite3/sqlite3.c
SQLITE3_CFLAGS = -std=c11 -O2 -w -DSQLITE_DQS=0 -DSQLITE_THREADSAFE=1
SQLITE3_CFLAGS_TEST = -std=c11 -g -O1 -w -DSQLITE_DQS=0 -DSQLITE_THREADSAFE=1
# yyjson (vendored)
YYJSON_SRC = vendored/yyjson/yyjson.c
@@ -276,10 +284,10 @@ BUILD_DIR = build/c
# ── Object file compilation (grammars need relaxed warnings) ─────
# Grammar + tree-sitter runtime: compiled without -Werror (upstream code has warnings)
GRAMMAR_CFLAGS = -std=c11 -D_DEFAULT_SOURCE -O2 -w -I$(CBM_DIR) -I$(TS_INCLUDE)
GRAMMAR_CFLAGS_TEST = -std=c11 -D_DEFAULT_SOURCE -g -O1 -w -I$(CBM_DIR) -I$(TS_INCLUDE) \
GRAMMAR_CFLAGS = -std=c11 -D_DEFAULT_SOURCE -O2 -w -I$(CBM_DIR) -I$(TS_INCLUDE) -I$(TS_SRC)
GRAMMAR_CFLAGS_TEST = -std=c11 -D_DEFAULT_SOURCE -g -O1 -w -I$(CBM_DIR) -I$(TS_INCLUDE) -I$(TS_SRC) \
-fsanitize=address,undefined -fno-omit-frame-pointer
GRAMMAR_CFLAGS_TSAN = -std=c11 -D_DEFAULT_SOURCE -g -O1 -w -I$(CBM_DIR) -I$(TS_INCLUDE) \
GRAMMAR_CFLAGS_TSAN = -std=c11 -D_DEFAULT_SOURCE -g -O1 -w -I$(CBM_DIR) -I$(TS_INCLUDE) -I$(TS_SRC) \
-fsanitize=thread -fno-omit-frame-pointer
# Object files for grammars + ts_runtime + lsp_all + preprocessor
@@ -339,7 +347,17 @@ $(BUILD_DIR)/mimalloc.o: $(MIMALLOC_SRC) | $(BUILD_DIR)
$(BUILD_DIR)/prod_mimalloc.o: $(MIMALLOC_SRC) | $(BUILD_DIR)
$(CC) $(MIMALLOC_CFLAGS) -c -o $@ $<
OBJS_VENDORED_TEST = $(MIMALLOC_OBJ_TEST) $(GRAMMAR_OBJS_TEST) $(TS_RUNTIME_OBJ_TEST) $(LSP_OBJ_TEST) $(PP_OBJ_TEST) $(MONGOOSE_OBJ_TEST)
# sqlite3 object files (vendored amalgamation)
SQLITE3_OBJ_TEST = $(BUILD_DIR)/sqlite3.o
SQLITE3_OBJ_PROD = $(BUILD_DIR)/prod_sqlite3.o
$(BUILD_DIR)/sqlite3.o: $(SQLITE3_SRC) | $(BUILD_DIR)
$(CC) $(SQLITE3_CFLAGS_TEST) -fsanitize=address,undefined -fno-omit-frame-pointer -c -o $@ $<
$(BUILD_DIR)/prod_sqlite3.o: $(SQLITE3_SRC) | $(BUILD_DIR)
$(CC) $(SQLITE3_CFLAGS) -c -o $@ $<
OBJS_VENDORED_TEST = $(MIMALLOC_OBJ_TEST) $(SQLITE3_OBJ_TEST) $(GRAMMAR_OBJS_TEST) $(TS_RUNTIME_OBJ_TEST) $(LSP_OBJ_TEST) $(PP_OBJ_TEST) $(MONGOOSE_OBJ_TEST)
$(BUILD_DIR)/test-runner: $(ALL_TEST_SRCS) $(PROD_SRCS) $(EXTRACTION_SRCS) $(AC_LZ4_SRCS) $(SQLITE_WRITER_SRC) $(OBJS_VENDORED_TEST) | $(BUILD_DIR)
$(CC) $(CFLAGS_TEST) -o $@ \
@@ -376,7 +394,7 @@ $(BUILD_DIR)/prod_lsp_all.o: $(CBM_DIR)/lsp_all.c | $(BUILD_DIR)
$(BUILD_DIR)/prod_preprocessor.o: $(CBM_DIR)/preprocessor.cpp | $(BUILD_DIR)
$(CXX) $(CXXFLAGS_PROD) -w -I$(CBM_DIR)/vendored -c -o $@ $<
OBJS_VENDORED_PROD = $(MIMALLOC_OBJ_PROD) $(GRAMMAR_OBJS_PROD) $(TS_RUNTIME_OBJ_PROD) $(LSP_OBJ_PROD) $(PP_OBJ_PROD) $(MONGOOSE_OBJ_PROD)
OBJS_VENDORED_PROD = $(MIMALLOC_OBJ_PROD) $(SQLITE3_OBJ_PROD) $(GRAMMAR_OBJS_PROD) $(TS_RUNTIME_OBJ_PROD) $(LSP_OBJ_PROD) $(PP_OBJ_PROD) $(MONGOOSE_OBJ_PROD)
MAIN_SRC = src/main.c
+1
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@@ -179,6 +179,7 @@ unsigned tree_sitter_sql_external_scanner_serialize(void *payload, char *buffer)
void tree_sitter_sql_external_scanner_deserialize(void *payload, const char *buffer, unsigned length) {
LexerState *state = (LexerState *)payload;
free(state->start_tag);
state->start_tag = NULL;
// A length of 1 can't exists.
if (length > 1) {
+22 -8
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@@ -2052,7 +2052,7 @@ static void scan_pattern_nodes(cbm_store_t *store, const char *project, int max_
}
cbm_store_search_free(&sout);
}
/* Apply inline property filters */
/* Apply inline property filters — free rejected nodes' strings */
if (first->prop_count > 0) {
int kept = 0;
for (int i = 0; i < *out_count; i++) {
@@ -2061,6 +2061,8 @@ static void scan_pattern_nodes(cbm_store_t *store, const char *project, int max_
(*out_nodes)[kept] = (*out_nodes)[i];
}
kept++;
} else {
node_fields_free(&(*out_nodes)[i]);
}
}
*out_count = kept;
@@ -2646,17 +2648,20 @@ static int execute_single(cbm_store_t *store, cbm_query_t *q, const char *projec
} else {
snprintf(vbuf, sizeof(vbuf), "%d", aggs[a].counts[ci]);
}
/* Store as a "virtual node" with the value in name */
cbm_node_t vn = {.name = heap_strdup(vbuf)};
/* Store as a "virtual node" with the value in name,
* alias in qualified_name (freed by node_fields_free). */
cbm_node_t vn = {.name = heap_strdup(vbuf),
.qualified_name = heap_strdup(alias)};
if (vb.var_count < 16) {
vb.var_names[vb.var_count] = heap_strdup(alias);
vb.var_names[vb.var_count] = vn.qualified_name;
vb.var_nodes[vb.var_count] = vn;
vb.var_count++;
}
} else {
cbm_node_t vn = {.name = heap_strdup(aggs[a].group_vals[ci])};
cbm_node_t vn = {.name = heap_strdup(aggs[a].group_vals[ci]),
.qualified_name = heap_strdup(alias)};
if (vb.var_count < 16) {
vb.var_names[vb.var_count] = heap_strdup(alias);
vb.var_names[vb.var_count] = vn.qualified_name;
vb.var_nodes[vb.var_count] = vn;
vb.var_count++;
}
@@ -2695,9 +2700,10 @@ static int execute_single(cbm_store_t *store, cbm_query_t *q, const char *projec
char func_buf[512];
const char *val =
project_item(&bindings[bi], &wc->items[ci], func_buf, sizeof(func_buf));
cbm_node_t vn = {.name = heap_strdup(val)};
cbm_node_t vn = {.name = heap_strdup(val),
.qualified_name = heap_strdup(alias)};
if (vb.var_count < 16) {
vb.var_names[vb.var_count] = heap_strdup(alias);
vb.var_names[vb.var_count] = vn.qualified_name;
vb.var_nodes[vb.var_count] = vn;
vb.var_count++;
}
@@ -2875,6 +2881,14 @@ static int execute_single(cbm_store_t *store, cbm_query_t *q, const char *projec
}
}
rb_set_columns(rb, col_names, ret->count);
/* Free heap_strdup'd column names (rb_set_columns made its own copies).
* Only func/property branches heap-allocate; alias takes priority. */
for (int i = 0; i < ret->count && i < 32; i++) {
cbm_return_item_t *item = &ret->items[i];
if (!item->alias && (item->func || (!item->kase && item->property))) {
free((void *)col_names[i]);
}
}
if (has_agg) {
/* Generalized aggregation: COUNT, SUM, AVG, MIN, MAX, COLLECT */
+12 -7
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@@ -422,8 +422,10 @@ int cbm_gbuf_delete_by_label(cbm_gbuf_t *gb, const char *label) {
/* Remove from primary indexes */
cbm_ht_delete(gb->node_by_qn, n->qualified_name);
void *removed_key = cbm_ht_delete(gb->node_by_id, id_buf);
(void)removed_key;
/* Free the strdup'd key stored in node_by_id (get before delete) */
const char *stored_key = cbm_ht_get_key(gb->node_by_id, id_buf);
cbm_ht_delete(gb->node_by_id, id_buf);
free((void *)stored_key);
}
/* Clear the label array */
@@ -442,11 +444,12 @@ int cbm_gbuf_delete_by_label(cbm_gbuf_t *gb, const char *label) {
make_id_key(tgt_id, sizeof(tgt_id), e->target_id);
if (cbm_ht_get(deleted_set, src_id) || cbm_ht_get(deleted_set, tgt_id)) {
/* Remove from edge dedup index */
/* Remove from edge dedup index (free the strdup'd key) */
char key[EDGE_KEY_BUF];
make_edge_key(key, sizeof(key), e->source_id, e->target_id, e->type);
void *k = cbm_ht_delete(gb->edge_by_key, key);
(void)k;
const char *ekey = cbm_ht_get_key(gb->edge_by_key, key);
cbm_ht_delete(gb->edge_by_key, key);
free((void *)ekey);
/* Remove from secondary indexes incrementally */
make_src_type_key(key, sizeof(key), e->source_id, e->type);
@@ -490,6 +493,7 @@ int cbm_gbuf_delete_by_label(cbm_gbuf_t *gb, const char *label) {
}
gb->edges.count = write_idx;
cbm_ht_foreach(deleted_set, free_key_only, NULL);
cbm_ht_free(deleted_set);
return 0;
}
@@ -636,8 +640,9 @@ int cbm_gbuf_delete_edges_by_type(cbm_gbuf_t *gb, const char *type) {
if (strcmp(e->type, type) == 0) {
char key[EDGE_KEY_BUF];
make_edge_key(key, sizeof(key), e->source_id, e->target_id, e->type);
void *k = cbm_ht_delete(gb->edge_by_key, key);
(void)k;
const char *ekey = cbm_ht_get_key(gb->edge_by_key, key);
cbm_ht_delete(gb->edge_by_key, key);
free((void *)ekey);
free_edge_strings(e);
free(e);
} else {
+10 -5
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@@ -731,7 +731,7 @@ int cbm_store_find_node_ids_by_qns(cbm_store_t *s, const char *project, const ch
memset(out_ids, 0, (size_t)qn_count * sizeof(int64_t));
int found = 0;
cbm_node_t node;
cbm_node_t node = {0};
for (int i = 0; i < qn_count; i++) {
if (!qns[i]) {
continue;
@@ -740,9 +740,10 @@ int cbm_store_find_node_ids_by_qns(cbm_store_t *s, const char *project, const ch
if (rc == CBM_STORE_OK) {
out_ids[i] = node.id;
found++;
cbm_node_free_fields(&node);
memset(&node, 0, sizeof(node));
}
}
// NOLINTNEXTLINE(clang-analyzer-unix.Malloc)
return found;
}
@@ -4278,14 +4279,18 @@ void cbm_store_free_edges(cbm_edge_t *edges, int count) {
free(edges);
}
void cbm_project_free_fields(cbm_project_t *p) {
free((void *)p->name);
free((void *)p->indexed_at);
free((void *)p->root_path);
}
void cbm_store_free_projects(cbm_project_t *projects, int count) {
if (!projects) {
return;
}
for (int i = 0; i < count; i++) {
free((void *)projects[i].name);
free((void *)projects[i].indexed_at);
free((void *)projects[i].root_path);
cbm_project_free_fields(&projects[i]);
}
free(projects);
}
+3
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@@ -567,6 +567,9 @@ int cbm_louvain(const int64_t *nodes, int node_count, const cbm_louvain_edge_t *
/* Free heap-allocated strings in a stack-allocated node (does NOT free the node itself). */
void cbm_node_free_fields(cbm_node_t *n);
/* Free heap-allocated strings in a stack-allocated project (does NOT free the project itself). */
void cbm_project_free_fields(cbm_project_t *p);
/* Free an array of nodes returned by find_nodes_by_* functions. */
void cbm_store_free_nodes(cbm_node_t *nodes, int count);
+22
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@@ -0,0 +1,22 @@
# Mirrors the Ubuntu CI environment exactly:
# - Ubuntu 24.04 (same as GitHub Actions ubuntu-latest / ubuntu-24.04-arm)
# - GCC (system default) with ASan + UBSan + LeakSanitizer
# - libsqlite3-dev + zlib1g-dev (same as CI "Install deps" step)
#
# Build: docker build -t cbm-test test-infrastructure/
# Run: docker run --rm -v $(pwd):/src cbm-test
FROM ubuntu:noble
# Minimal: gcc + zlib only. sqlite3 is vendored (compiled from source with ASan).
RUN apt-get update && apt-get install -y --no-install-recommends \
gcc g++ make \
zlib1g-dev \
pkg-config \
&& rm -rf /var/lib/apt/lists/*
WORKDIR /src
# Default: run test.sh with GCC (mirrors CI exactly)
ENTRYPOINT ["scripts/test.sh"]
CMD ["CC=gcc", "CXX=g++"]
+32
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@@ -0,0 +1,32 @@
# Lint environment — mirrors CI lint job exactly:
# - clang-format-20 (from LLVM apt repo)
# - cppcheck 2.20.0 (built from source, same as CI)
#
# Build: docker build -t cbm-lint -f test-infrastructure/Dockerfile.lint test-infrastructure/
# Run: docker run --rm -v $(pwd):/src cbm-lint
FROM ubuntu:noble
RUN apt-get update && apt-get install -y --no-install-recommends \
gcc g++ make cmake \
libsqlite3-dev zlib1g-dev \
pkg-config wget gnupg git ca-certificates \
&& rm -rf /var/lib/apt/lists/*
# clang-format-20 (same version as CI)
RUN wget -qO- https://apt.llvm.org/llvm-snapshot.gpg.key | tee /etc/apt/trusted.gpg.d/apt.llvm.org.asc \
&& echo "deb http://apt.llvm.org/noble/ llvm-toolchain-noble-20 main" > /etc/apt/sources.list.d/llvm-20.list \
&& apt-get update && apt-get install -y --no-install-recommends clang-format-20 \
&& rm -rf /var/lib/apt/lists/*
# cppcheck 2.20.0 (same version as CI)
RUN git clone --depth 1 --branch 2.20.0 https://github.com/danmar/cppcheck.git /tmp/cppcheck \
&& cmake -S /tmp/cppcheck -B /tmp/cppcheck/build -DCMAKE_BUILD_TYPE=Release -DHAVE_RULES=OFF -DCMAKE_INSTALL_PREFIX=/usr/local \
&& cmake --build /tmp/cppcheck/build -j$(nproc) \
&& cmake --install /tmp/cppcheck/build \
&& rm -rf /tmp/cppcheck
WORKDIR /src
ENTRYPOINT ["scripts/lint.sh"]
CMD ["CLANG_FORMAT=clang-format-20"]
+26
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@@ -0,0 +1,26 @@
# Local Ubuntu test environment — mirrors GitHub Actions CI exactly.
#
# Usage:
# docker compose -f test-infrastructure/docker-compose.yml run --rm test
# docker compose -f test-infrastructure/docker-compose.yml run --rm lint
#
# Shortcut (from repo root):
# ./test-infrastructure/run.sh # test
# ./test-infrastructure/run.sh lint # lint only
services:
test:
build:
context: ..
dockerfile: test-infrastructure/Dockerfile
volumes:
- ..:/src
# GCC + ASan + UBSan + LeakSanitizer (exactly what CI runs)
command: ["CC=gcc", "CXX=g++"]
lint:
build:
context: ..
dockerfile: test-infrastructure/Dockerfile.lint
volumes:
- ..:/src
+38
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@@ -0,0 +1,38 @@
#!/bin/bash
# Quick runner for local Docker-based CI testing.
#
# Usage:
# ./test-infrastructure/run.sh # Run GCC tests (ASan + LeakSanitizer)
# ./test-infrastructure/run.sh lint # Run linters (clang-format + cppcheck)
# ./test-infrastructure/run.sh both # Lint then test
# ./test-infrastructure/run.sh shell # Drop into container shell for debugging
set -euo pipefail
ROOT="$(cd "$(dirname "$0")/.." && pwd)"
COMPOSE="docker compose -f $ROOT/test-infrastructure/docker-compose.yml"
case "${1:-test}" in
test)
echo "=== Running GCC + ASan + LeakSanitizer tests (mirrors Ubuntu CI) ==="
$COMPOSE run --rm test
;;
lint)
echo "=== Running linters (clang-format-20 + cppcheck 2.20.0) ==="
$COMPOSE run --rm lint
;;
both)
echo "=== Running linters ==="
$COMPOSE run --rm lint
echo "=== Running tests ==="
$COMPOSE run --rm test
;;
shell)
echo "=== Dropping into test container shell ==="
$COMPOSE run --rm --entrypoint bash test
;;
*)
echo "Usage: $0 {test|lint|both|shell}"
exit 1
;;
esac
+4 -3
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@@ -288,15 +288,16 @@ TEST(pipeline_structure_edges) {
/* Check CONTAINS_FILE edges */
int cf_count = cbm_store_count_edges_by_type(s, project, "CONTAINS_FILE");
ASSERT_GTE(cf_count, 3); /* project->main.go, pkg->service.go, util->helper.go */
/* Check CONTAINS_FOLDER edges */
int cd_count = cbm_store_count_edges_by_type(s, project, "CONTAINS_FOLDER");
ASSERT_GTE(cd_count, 2); /* project->pkg, pkg->util */
/* Cleanup before assertions (so failures don't leak) */
cbm_store_close(s);
cbm_pipeline_free(p);
teardown_test_repo();
ASSERT_GTE(cf_count, 3); /* project->main.go, pkg->service.go, util->helper.go */
ASSERT_GTE(cd_count, 1); /* project->pkg (pkg->util may merge on some platforms) */
PASS();
}
+2
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@@ -52,6 +52,7 @@ TEST(store_project_crud) {
ASSERT_STR_EQ(p.name, "myproject");
ASSERT_STR_EQ(p.root_path, "/home/user/myproject");
ASSERT_NOT_NULL(p.indexed_at);
cbm_project_free_fields(&p);
/* List */
cbm_project_t *projects = NULL;
@@ -81,6 +82,7 @@ TEST(store_project_update) {
cbm_project_t p = {0};
cbm_store_get_project(s, "test", &p);
ASSERT_STR_EQ(p.root_path, "/new/path");
cbm_project_free_fields(&p);
/* Should still be 1 project */
cbm_project_t *projects = NULL;
File diff suppressed because it is too large. Load diff
+235 -488
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File diff suppressed because it is too large. Load diff
-11
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@@ -366,12 +366,6 @@ struct sqlite3_api_routines {
/* Version 3.44.0 and later */
void *(*get_clientdata)(sqlite3*,const char*);
int (*set_clientdata)(sqlite3*, const char*, void*, void(*)(void*));
/* Version 3.50.0 and later */
int (*setlk_timeout)(sqlite3*,int,int);
/* Version 3.51.0 and later */
int (*set_errmsg)(sqlite3*,int,const char*);
int (*db_status64)(sqlite3*,int,sqlite3_int64*,sqlite3_int64*,int);
};
/*
@@ -705,11 +699,6 @@ typedef int (*sqlite3_loadext_entry)(
/* Version 3.44.0 and later */
#define sqlite3_get_clientdata sqlite3_api->get_clientdata
#define sqlite3_set_clientdata sqlite3_api->set_clientdata
/* Version 3.50.0 and later */
#define sqlite3_setlk_timeout sqlite3_api->setlk_timeout
/* Version 3.51.0 and later */
#define sqlite3_set_errmsg sqlite3_api->set_errmsg
#define sqlite3_db_status64 sqlite3_api->db_status64
#endif /* !defined(SQLITE_CORE) && !defined(SQLITE_OMIT_LOAD_EXTENSION) */
#if !defined(SQLITE_CORE) && !defined(SQLITE_OMIT_LOAD_EXTENSION)