fix: preserve exact semantic graph relationships - #1166
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Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
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# Conflicts: # Makefile.cbm # internal/cbm/extract_defs.c # src/foundation/compat_fs.c # src/foundation/compat_fs.h # src/pipeline/pipeline.c # src/pipeline/pipeline_incremental.c # tests/test_main.c # tests/test_pipeline.c # tests/test_store_checkpoint.c
Two fixes on top of the main merge.
1. try_incremental_or_delete_db removed the existing database unconditionally.
On main those two lines are only REACHED on the reindex route, because the
incremental path returns early. This branch restructured the function so there
is no early return, and the merge carried main's cleanup in verbatim -- so the
database was deleted on every route, including the no-op and the successful
incremental publish.
The failure mode was badly misleading: the pipeline genuinely succeeded and
logged pipeline.done nodes=17, and cleanup then destroyed the result, so every
later reader reported dump.verify reason=store_missing. Because the probe
suites all share ~/.cache/codebase-memory-mcp and all have the shape
"index a snippet, open the store, count nodes", one suite that indexed twice
destroyed the shared database and every probe suite after it failed at its
store-open gate.
Full suite went from 6539 passed / 836 failed to 7354 passed / 21 failed. The
narrow arena that isolates it -- test-runner mcp node_creation_probe -- went
from 83 failed to 269 passed, which is exactly main's number for that pairing.
2. pass_parallel.c sized its usage-properties buffer at 256 bytes while the
sequential twin in pass_usages.c uses 512.
esc_ref holds up to 255 bytes and the {"callee":"..."} wrapper adds 13, so a
long callable identifier truncated mid-string, cutting the closing quote-brace
and persisting malformed JSON into edge properties. The two paths must also
agree: the same repository indexed in parallel and sequentially has to produce
byte-identical edge properties. This is RED item 4 from the PR description, and
it was a live defect on main rather than only on this branch.
Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
extract_defs.c grew a file-static is_namespace_scope_kind() that restated the
C++/CUDA case from the shared cbm_is_namespace_scope_kind() and added Nix, then
took over the def-side call site. Restating the shared predicate dropped its
TypeScript case (`internal_module`), so TS namespace members lost the namespace
segment of their qualified name on the def side while extract_unified.c and the
enclosing-scope walk in helpers.c -- both still on the shared predicate --
continued to qualify them.
The two halves then disagreed about the same symbol, and `MyNS.inner()` stopped
resolving: the call site looked for `.MyNS.inner` and the definition had been
minted without the `MyNS` segment.
Fixed by delegating to the shared predicate instead of restating part of it, so
the wrapper adds only the case the shared predicate cannot express (Nix needs
the node, because the decision depends on the binding's value rather than its
kind string). One source of truth for kind -> namespace-scope.
This is the same class of defect as a hand-maintained second copy of a list:
the copy was correct when written and silently wrong the moment the original
grew a case.
Fixes six failures, all of which pass before the def-side call site changed and
none of which are in the same file as the change:
ts_lsp tslsp_nocrash_namespace
tslsp_nested_namespace_preserves_exact_callers
parallel 2 x TS_EXACT_LOCAL_CLASS edge-count parity
matrix_new_constructs 2 x app_module
ts_lsp, parallel and matrix_new_constructs: 434 passed, 0 failed.
Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
…sh stopped
main and this branch each grew their own atomic publication while the branch was
outstanding, and neither knew about the other:
main cbm_pipeline_run() copies the live database into an mkstemp staging
file, points the whole run at that copy, and renames it over the
destination at the end. That is what stops an INCREMENTAL run from
mutating the live database in place.
branch cbm_pipeline_publish_generation() builds a generation in its own stage
file, validates it (integrity check, FTS rebuild, seal), quarantines a
corrupt destination to a fresh .corrupt name, then renames.
The rebase kept both, nested, so the branch's layer ran against main's staging
file rather than the real database. Two consequences, both silent:
1. The quarantine became a no-op. Its "existing destination" was a staging file
we had just created, so a genuinely corrupt destination reached
cbm_rename_replace and was overwritten -- the one copy of the bytes that
would explain the corruption, destroyed by the recovery path.
2. Every publish failure collapsed to CBM_NOT_FOUND, because the outer wrapper
returned a bare -1 for its own errors, a cancellation, and a failed persist
alike. A caller could not tell "aborted, your data is intact" from "the
persist failed", which is the only distinction that matters at that moment.
Rather than pick one implementation, put each concern at the layer that owns it.
The outer wrapper owns the real destination's lifecycle, so it now owns the
quarantine: prepare_publish_destination() calls the branch's existing
prepare_existing_generation_for_replace() when the destination could not be
copied, which moves it aside only when it is verifiably not a readable SQLite
database. A destination that is valid (the backup failed for some other reason)
is sealed and replaced as before, never renamed away, so a good database is
never mislabelled .corrupt. main's guard that refuses to drop sidecars holding
uncommitted pages is kept ahead of it. A failed rename rolls the quarantine
back, so a caller is never left with no database at all.
The wrapper also stops flattening. Everything it does happens before the
publishing rename, so an abort there is genuinely non-destructive and can say
so: cancellation reports CBM_PIPELINE_ABORT_PRESERVE_DB, a failed seal reports
CBM_PIPELINE_PERSIST_FAILED, and a status from the inner publish propagates
unchanged. Both MCP call sites test only `rc == 0` and are unaffected; the codes
stay in pipeline_internal.h beside the stages that raise them, and pipeline.h no
longer claims a -1 it does not return.
Quarantining is now also correctly refused at the inner layer, which was the
same confusion in the other direction. publish_generation's destination is the
staging file the wrapper created moments earlier, so when that file was not a
readable database it was being parked as
`<db>.stage.<random>.corrupt` -- debris named after a temp file, which nothing
collects and no one can interpret. It only surfaced once the status codes stopped
collapsing, because the assertions that count leftover stage artifacts sat behind
the return-code assertions that failed first. The inner caller now discards an
unreadable staging file instead, and only the wrapper, which owns the user's real
database, ever quarantines.
Two of main's own tests asserted the bare -1. Both are named
cancelled_*_reindex_preserves_committed_db and now assert
CBM_PIPELINE_ABORT_PRESERVE_DB -- the value whose name is their subject. That
tightens the assertion rather than relaxing it: -2 answers their question and
-1 did not.
Closes the last 10 pipeline failures from the rebase.
pipeline, incremental, store_nodes, mcp: 662 passed, 2 skipped.
Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
PR item 2. Four of its five REDs; the fifth is a policy question left open. THREE SHADOW REDS -- a rebound name kept looking exactly bound. An imported `callback` that Python has already rebound must lose exact callable proof, or the graph reports a reference to a callable the name no longer refers to. Three binders were invisible: (callback := 0) module-level walrus [(callback := 0) for _ in (0,)] walrus inside a comprehension type callback = int PEP 695 type alias The first two because a module-level expression statement is routed to call resolution and never reaches the binding scanner at all, so no binder inside one was ever seen. The third because the scanner had no branch for type_alias_statement, and its generic recursion only descends -- an identifier alone binds nothing. The comprehension case needed care in the other direction: the whole node was skipped, correctly, because its iteration variables are private to it. But an assignment expression binds in the CONTAINING scope (PEP 572), which is exactly what separates it from every other binder a comprehension can hold. It is now scanned for walrus targets only. PARENTHESISED CALLABLE ARGUMENT -- `accept((handler))` produced no reference. The semantic row was recorded on the outermost parenthesised argument while the usage carrier stopped at the parentheses and was never marked a callable-value candidate at all, so the occurrence-exact join had nothing to join. A bare identifier now climbs to the same wrapper python_direct_callable_attribute_site already returns for the bound-method form, so `accept((handler))` and `accept((service.handler))` agree on one occurrence instead of disagreeing. That climb uses the cursor the caller already holds and checks the parent kind before doing anything. Walking up with ts_node_parent instead costs one slow fallback per identifier in the file, which the linearity guard in test_extraction.c rejects -- correctly, and it caught exactly that here. The fixture's expected span was also wrong: "((handler))" is the argument LIST, one byte wider on each side than either party, and per argument it would collide for any call with more than one argument. It now names "(handler)" -- the occurrence both sides actually use. Production was genuinely broken; the fixture was additionally wrong about where. LOCAL CALLABLE ALIAS -- a proven alias was refused by the shadow guard. `callback = handler` makes callback a local, so the usage is a local shadow, and a shadowed usage may only claim a semantic reference through the alias strategy. Python emitted lsp_callable_value_reference for every callable argument, so the one case the guard exists to admit could never satisfy it. A lexical binding that does not simply name the module symbol of the same spelling is an alias introduced in this body, and only that now claims the alias strategy. A module function referenced by its own name keeps the strategy it has always had, so the guard still refuses everything it refused before. STILL OPEN: the same fixture asserts no ordinary USAGE from `argument`, and the right-hand side of `callback = handler` is a second genuine occurrence of handler as a value. Whether that should become a CALL_REFERENCE (this PR's own proven-value policy, making the count 2) or emit nothing is a graph-content decision, not a defect, and is left for the maintainer. repro_reference_precision, call_reference_contract, extraction: 371 passed, 1 failed (that fixture). Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
make lint-ci was red on this branch before any of the rebase work. cppcheck reported all four halves of two ULARGE_INTEGER values in cbm_path_info_utf8 as assigned-but-never-read. The code is correct -- it is a union, and .QuadPart reads exactly what .LowPart/.HighPart wrote -- but cppcheck does not model that aliasing, so it cannot see the read. Composing the two 64-bit values arithmetically says the same thing without the union, so the checker needs no exception. That is the repository's stated preference: refactor first, adjust the rule second, suppress only as a rare justified exception -- and a suppression here would have to be re-justified by every future reader. Also applies clang-format to the lines this rebase touched in pipeline.c and extract_usages.c, plus one pre-existing violation in pipeline_incremental.c. Formatting only; the file set is limited to what LINT_SRCS/LINT_HDRS actually covers, so no unrelated whole-file reflow rides along. make -f Makefile.cbm lint-ci: passes. Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
…REFERENCE Maintainer decision closing the last open RED from PR item 2. `callback = handler` contains a genuine value occurrence of handler, and its exact callable identity is proven -- the alias binding below could not be created otherwise. The policy of this PR is proven exact value => CALL_REFERENCE, so that occurrence now emits a resolved reference row instead of remaining an ordinary USAGE. Bare identifier RHS only, and the usage-carrier rule in extract_usages.c is extended in lockstep, Python-gated -- a candidate the LSP never matches would change nothing, but the asymmetry would be a trap. The strategy distinction mirrors the argument path: a source name that is itself a local alias claims lsp_callable_alias, so the local-shadow guard admits exactly what it admits for arguments and refuses everything else. In the graph the two occurrences inside `argument` -- the RHS and the alias use in accept(callback) -- surface as ONE CALL_REFERENCE edge and zero USAGE edges, because edge dedup is by (src, tgt, type) and collapsing multiple sites between the same pair is its existing, intended behavior. That is precisely what the fixture always asserted, so it needed no relaxation, only the comment recording the decision. Also: GCC rejects repro_call_argument_matrix_b's _Static_assert comparing enumerators of two different anonymous enums (-Werror=enum-compare); clang accepts it, so only the Linux leg saw it. Cast both sides to int. repro_reference_precision + call_reference_contract: 100 passed, 0 failed. This closes all five item-2 REDs. Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
The branch adds internal/cbm/lsp/type_registry.h, and PROJECT_HDRS covered $(CBM_DIR)/*.h but not the lsp/ subdirectory -- so editing an lsp header rebuilt nothing and an incremental build silently tested stale header values. The branch's own invariant (repro_make_tracks_headers.sh) caught it on the repro-unix CI jobs; the same trap class as the lsp_all.o one fixed by #662. bash tests/repro/repro_make_tracks_headers.sh: green. Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
pipeline_test_set_mtime used utimensat(AT_FDCWD, ...), which does not exist on Windows, so the whole Windows test build failed to compile. Set the same instant through SetFileTime instead: FILETIME is 100ns ticks since 1601 -- the representation cbm_path_info_utf8 reads back -- so the round-trip loses nothing the incremental pipeline can observe. POSIX keeps utimensat. Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
The qa/** push trigger auto-ran the board from every qa branch, and the board is structurally red on GitHub runners: its real-repo corpus tier hardcodes a local path no runner can satisfy, so every auto-run failed on the skip gate regardless of the code under test -- red that blocks nobody trains everyone to ignore red. The board's primary venue is the local multi-leg CI, which can hold the corpus; workflow_dispatch remains for cross-platform spot checks. Scope: removes the push trigger only. The workflow was never a required check (non-gating by its own declaration), so no gating change on any branch. Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
write_temp_file used fopen(path, "w"): text mode on Windows rewrites \n as \r\n on disk, so the fixture bytes stop matching the source string the test reasons about. Three Windows-only failures follow: the two semantic-manifest tests compare cbm_sha256_hex(<string>) against the pipeline's hash of the file, and the quarantine test compares byte sizes (17 != 18). test_helpers.h and repro_harness.h already write "wb" for exactly this reason; this brings the one holdout in line (cbm_fopen + "wb"). Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
resolve_db_path returns a strdup the function owns, but neither the publish-failure return nor the success tail freed it -- cbm_pipeline_refresh_artifact only borrows the pointer. Every pipeline run leaked one path string; LeakSanitizer on the Linux leg aborted the pipeline, index_resilience and mcp suites over exactly this pair of exits (every leaked allocation across the leg traced to this single strdup). macOS stayed green because this setup has no leak detection there, which is precisely why the Linux leg exists. Linux container, same three suites under LSan: green after the fix. Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
…properties Two gaps in the callable-reference path, found while attributing a Windows-only failure of the Kotlin property-reference repro: 1. kt_callable_reference_has_ambiguous_parent treated every unlisted parent kind as ambiguous, including function_body -- so a single-expression body (fun f() = ::handler) never resolved its reference at all and fell to the name-only registry fallback. A single-expression body is an unconditional context: the expression IS the value, no branch selects among candidates. 2. The typed-receiver branch (Type::member, value::member) only consulted kotlin_lookup_method, so a reference to a PROPERTY emitted nothing even when the receiver type provably has that member. It now emits a row against the property QN; the property is not a callable target, so the downstream join can only produce USAGE, never a fabricated CALL_REFERENCE. Note: this does NOT close the property-reference repro on Windows. That fixture's holder::handler parses as navigation_expression under the vendored grammar, whose member occurrence is not a semantic-reference candidate -- the edge is decided by the name-only registry fallback, whose winner among same-named symbols is registration order (= readdir order, platform- dependent). That divergence is a design question recorded separately. repro_reference_precision + kotlin_lsp on macOS: 170 passed. Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
2 tasks
Maintainer decision (option B) closing the Kotlin property-reference repro's platform divergence at its root instead of tie-breaking the fallback. `holder::handler` (parsed as navigation by the vendored grammar) produced a USAGE edge whose target was chosen by the name-only registry fallback: with a same-named property (Holder.handler) and function (Functions.handler) in the project, the winner was registration order -- readdir order -- so Windows (lexicographic NTFS) borrowed the FUNCTION while macOS happened to pick the property. The graph's answer must not depend on directory enumeration. The occurrence is now claimed by exact, receiver-typed resolution. Five links, each of which was missing: 1. extract side: a Kotlin navigation member read is a semantic-reference candidate at the member occurrence, so an LSP row can claim it. With no row the join finds nothing -- but a candidate no longer falls back to the name-only registry guess, which is the fail-closed direction this PR is built on. 2. kotlin cross resolution: a property READ with a proven receiver emits a CALL_REFERENCE row against the property. The property is not a callable target, so the join can only produce USAGE, never a fabricated CALL_REFERENCE. Value reads only; calls stay with the invocation machinery. 3. receiver typing across files: kotlin_resolve_class_name composed <this module>.<name> for an unimported cross-file type, which can never name a type defined in another file. A per-call unique-short-name map (built from the project defs, ambiguous names fail closed) resolves the annotation to the real registered QN. Hash lookup, no scans. 4. cross registry fields: pxc_map_label dropped Variable defs entirely, so no cross registry ever saw a property. They now flow through (every language's registrar filters by explicit label, so only Kotlin consumes them) and the Kotlin registrar attaches them as fields of their receiver type, hash-bucketed -- a per-type scan would be the registry-tail-scan quadratic pattern. 5. def side: class-body variables now record their declaring class (parent_class) -- previously only methods did. The QN stays module-level, so this is additive metadata: the only structural parent_class consumer is Method-gated (DEFINES_METHOD), verified in pass_definitions/pass_parallel/ pipeline_incremental. Emission targets each field's REAL def QN carried through the field map: kotlin class properties are minted with module-level QNs (proj.Holder.handler, not proj.Holder.Holder.handler), so the composed form would name a node that does not exist and the join would silently drop the edge. The repro now proves the property edge on every platform for the same reason, not by racing readdir. Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
…ee the test harness cross arena Second LSan round from the Linux leg, both verified green in the container (532 passed, 0 failed under LSan): - dump_and_persist_hashes' two semantic-manifest abort returns leaked BOTH of the function's strdups (db_path and db_dir, the latter otherwise freed only further down). Same ownership rule as the previous fix: every exit releases what the function allocated. - test_parallel's sequential harness drives the passes directly and never destroyed ctx->seq_cross_arena, which the cross pass fills with the shared per-language registries (stdlib registrations included -- ~20MB per test). Production's run_sequential_pipeline destroys it after all passes; the harness now does the same. Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
…guage The deep-nesting torture tests (stack_overflow_a/b) went from 0-1s per test on main to 39-119s on this branch -- the 900s suite budget killed them on every venue except the M4 (three GitHub CI platforms and the local Linux leg, each dying mid-suite at a DIFFERENT test, which is what pointed at shared machinery rather than any one language). Sampling the child process found two quadratic layers, both branch-added: 1. recompute_state iterated the WHOLE scope stack on every code-bearing node to rebuild the walk-state flags -- O(depth) per node, and a deep descent pushes a frame per level, so deep trees paid O(n x depth). Each frame now saves the complete walk-state tuple it displaces and pop restores it verbatim: push and pop are O(1) and kind-agnostic, and the per-node recompute is gone entirely. The CALL frame's effect is applied by push_call_scope after the caller fills the invocation triple, preserving the old ordering exactly. 2. is_reference_node fetched ts_node_parent for EVERY identifier in EVERY language to serve a Puppet/Vimscript sigil-wrapper check -- the language gate sat inside the condition, after the fetch. ts_node_parent descends from the root (O(depth)), so all languages paid O(depth) per identifier. The gate now precedes the fetch; only Puppet/Vimscript files pay it. macOS, both suites together: 543s -> 54s. Per test: ts_cyclic 119s -> 6s, python_deep 105s -> 6s, go_deep 39s -> 8s, php_deep 45s -> 8s. The residual 6-8s vs main's 0-1s is the branch's larger legitimate per-node work; the remaining Python attribute-site parent walk is a bounded follow-up, recorded. Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
…ey feed The sequential lsp_cross pass builds its shared per-language cross registries in ctx->seq_cross_arena, which DELIBERATELY outlives the pass -- resolved_calls and the registries carry borrowed strings that pass_calls still reads, and the arena is destroyed only after all passes (the earlier freeing-here bug was a pass_calls use-after-free, says the comment at the arena's creation). But the per-file module-QN strings (def_modules[], malloc'd in cbm_pxc_collect_all_defs and handed to every registrar as def_module_qn) were freed at the END OF THE PASS -- the exact mistake the arena comment warns about, one level down. Any registry-reachable structure holding one of those pointers read freed memory in pass_calls. AddressSanitizer caught it as a heap-use-after-free (strcmp in cbm_pipeline_pass_calls on a string freed by the pass-end cleanup) on the first-ever run of the real-repo determinism tier (linux/fs/xfs, 355 files) -- a tier no CI runner can execute because the corpus is local-only, which is why it survived: bisect shows it predates today's commits (b020748 reproduces), and main is clean on the identical suite. Ownership now transfers to the ctx at the end of the pass and the strings are released beside the arena, in the pipeline teardown and in test_parallel's direct-drive harness. The parallel path is unchanged: it already destroys its registries and module strings together, before any later pass. Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
…solution it hid
c_lsp_process_file carried __attribute__((no_sanitize("address"))) over the
entire C LSP orchestration, excluding every direct memory access in it from
ASan -- placed for a stack-pointer-to-registry lifetime bug whose witness test
also had its assertion discarded ((void)find_resolved), so nothing could ever
prove the bug gone. Flagged by the memory-diagnostics standards report
(private/C_MEMORY_DIAGNOSTICS_STANDARDS_REPORT.md, priority 2) as the single
highest-value ASan coverage gap in the repository.
This branch's C LSP registry rework resolved the underlying lifetime: with the
suppression removed, the full c_lsp suite passes under ASan+UBSan (760 tests),
including the formerly-failing template field type resolution, whose test now
asserts the resolved call instead of discarding it.
Honest limit: the original bug predates the branch and its fix is the branch's
broad registry rework, not an isolatable commit -- so the revert-proof is
main-vs-branch (main: suppression + discarded assertion; branch: neither),
not a single-change revert-check.
Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
setenv/unsetenv do not exist on Windows, so the bug-repro runner failed to COMPILE there -- this is the 'runner did not execute' failure on the repro-windows CI job and the local Windows board alike. The compat layer's cbm_setenv/cbm_unsetenv (already included via repro_harness.h) are the repo idiom; test_pipeline.c uses them for the same variable. Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
The memory-diagnostics report's priority-4 lane (path-sensitive clang-analyzer, memory checks only) run over all 111 production files. 21 findings triaged; the real ones, all cold-path (none can explain #581's per-query residual): LEAKS - mcp get_architecture: scope_path leaked on the missing-store early return (REQUIRE_STORE frees only `project`); allocate after the gate. - pass_definitions: cancellation mid-extraction leaked the pass-owned result cache including already-extracted entries; mirror the end-of-pass cleanup. - store package-boundary scan: the row-scan abort path freed the node arrays but not the boundary accumulators or their duplicated package strings. - cbm quarantine set: a duplicate path line leaked the replaced value (and a fresh key copy -- the table borrows key pointers); a partial strdup failure leaked the surviving half. Reuse the stored key for duplicates. - pass_githistory: unchecked malloc/strdup -- an OOM dereferenced NULL and a failed strdup leaked the index cell. Allocate before claiming the slot. NULL/UB - cli config subcommand: NULL argv with nonzero argc slipped the guard (the inner `argv &&` shielded only the help comparison) into argv[0]. - store bfs_multi: a negative max_results broke out before any row was written, then freed fields of an unwritten negative-index slot. Clamp. - pass_calls emit_http_async_edge: the service-pattern call sites pass a NULL target behind a hand-duplicated URL predicate; a drift between the copies turned target->id into a null deref. The callee is now total. - sqlite_writer: both leaf-array OOM paths left leaf_count stale with a NULL array, walking pb_finalize_* into leaves[0]; consistent empty state routes them to the existing root=0 failure return. HARDENED (invariants true but invisible to path-sensitive analysis) - Leiden CSR + aggregate arrays, SCC adjacency: calloc + endpoint guards, so a future degree/collection miscount degrades benignly instead of UB. - SCC cycle fill: the ncyc==0 no-slot invariant made local. RECORDED FALSE POSITIVES (no code change) - yaml sequence starts (loop bound == alloc bound), cypher agg arrays (same count both sides), mcp read_message ch (assigned by fgetc each iteration), pkgmap clean buffer, mcp csize (Tarjan: ncomp>=1 when nverts>=1), vendored verstable x2. Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com> GATE + LANES (user decision: runner cost accepted) - make lint-mem (local triage) and lint-mem-ci (gating: vendored-filtered, any remaining finding fails). The gate is green because every false positive above was restructured for provability -- calloc'd fill-cursor arrays, explicit Tarjan invariant, zeroed buffer tails, min-1-element allocations -- never suppressed. - make diag: pinned newest-LLVM ASan/UBSan lane with straighter stacks. - CI: lint-mem job (_lint.yml) and test-diag job (_test.yml), both on the pinned LLVM 22 apt toolchain. Cost disclosure: roughly +25-40 min and +25-60 min (ccache-warm) per push respectively. Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
… C++ coverage Stage 2 of the memory-diagnostics program (user decision: go directly to the instrumented image rather than a C-only probe). MSan detects uninitialized READS, the one memory-error class no other lane covers dynamically, and it requires every linked library to be instrumented -- vendored C deps compile in-tree and instrument for free; the two external links do not: - test-infrastructure/Dockerfile.msan: pinned-base image building libc++/libc++abi/libunwind (llvmorg-18.1.8, LLVM_USE_SANITIZER= MemoryWithOrigins) and static zlib v1.3.1 into /opt/msan, with the symbolizer and MSan runtime in a separate last layer so tool additions never invalidate the ~30-min libc++ build. - scripts/msan.sh: the canonical lane entry. ALWAYS clean-builds its BUILD_DIR: make does not encode flags into dependencies, and a stage-1 probe's libstdc++ objects surviving into the libc++ lane produced a convincing-looking uninitialized-value report at preprocessor.cpp:168 -- the uninstrumented .so string constructor wrote the temporary, the instrumented move constructor read it. The clean rebuild proved it an artifact: extraction (incl. the C++ preprocessing path) runs 272/272 with zero reports. - Makefile.cbm: CXX_STDLIB / CXX_STDLIB_FLAGS hooks so the lane can swap libstdc++ for the instrumented libc++ (defaults identical; the shipping build is byte-for-byte unaffected). - docker-compose test-msan service: same aarch64 seccomp/setarch remedy as the TSan service (MSan's shadow layout hits the same personality() block). - CI test-msan job (_test.yml): buildx local-cache via the repo's existing pinned actions/cache -- no new third-party action pins; a warm run skips the libc++ build entirely. Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
Apple clang 15 (Xcode 15.4, the macOS CI image) rejects
static _Atomic cbm_log_sink_fn g_log_sink = NULL;
with "initializer element is not a compile-time constant": NULL expands
to ((void*)0), and the implicit void*-to-function-pointer conversion is
not a constant expression there. Casting to the function-pointer type
makes it an address constant, which is what a static initializer needs.
The local ladder could not have caught this. The macOS host here runs
Apple clang 21, which accepts the uncast form; the rejecting compiler
exists only on the CI image. Recording that plainly because it is a real
gap in what local verification can promise for macOS, not a slip in how
this batch was checked.
Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
DeusData
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…ee them scripts/ci/lint-mem.sh and scripts/ci/msan-lane.sh were committed at mode 100644, so the workflow step that runs them directly died with "Permission denied" (exit 126). scripts/lint-mem-gate.py gets the same treatment: it is invoked through python3 today, but it carries a shebang and should not depend on that. The exec-bit contract already exists to catch precisely this, and it did not, because it derives its candidate set from `git ls-files -s '*.sh'` -- tracked files only. A brand-new script is invisible there until it is committed, so the check passes on the run where the defect is introduced and only starts failing on the run that ships it. The window where the contract is most useful was the one window it could not see. It now also considers not-yet-tracked scripts by their filesystem mode. Verified against the real defect rather than in the abstract: with lint-mem.sh untracked and non-executable the contract reports "_lint.yml:76 executes scripts/ci/lint-mem.sh directly, but its committed mode is 100644", and passes once the bit is set. Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
DeusData
marked this pull request as ready for review
August 3, 2026 13:52
cbm_pipeline_publish_generation built its staging database name by hand as "<db>.stage.<pid>.<counter>", unlinked it, then wrote it. Any local process can compute that name in advance, so a symlink planted between the unlink and the write redirects the write to a target of the attacker's choosing — an arbitrary-file clobber when the database sits in a world-writable directory. The same file already solves this correctly elsewhere: create_staging_path() mints the name with mkstemp, so the file is created O_EXCL and we only ever write one we made ourselves. Publication now shares it. The unlink-first step goes away with the predictable name — it existed to clear a leftover at a name we might reuse, and a freshly minted name cannot collide, nor can its sidecars pre-exist. SCOPE, stated precisely because the PR description overstates it: the only caller of cbm_pipeline_publish_generation sits behind CBM_INCREMENTAL_TEST_API, which is set in CFLAGS_TEST and never in CFLAGS_PROD. The predictable name was therefore not reachable in a shipped binary — production publication already went through create_staging_path. This is removing a bad pattern from a test-only path before it can be promoted, not patching a live user-facing vulnerability. The regression test calls the function directly, because no pipeline entry point reaches it in a production build. It does not try to win the race — a test that has to win a race is a coin flip, not a gate. It asserts the property that removes the race: canaries occupy every name the old scheme could have chosen and all must survive publication. Verified both ways rather than green-only: against the old code it reports "survived == 31, expected PREDICTABLE_CANARIES == 32", exactly one canary consumed; with the fix the suite goes 18 passed/1 failed -> 19 passed. Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
MSan: vendored zstd fails to compile. Its MSan-only block (guarded by
MEMORY_SANITIZER) declares __msan_test_shadow returning intptr_t and
reaches for the type with
#define ZSTD_DEPS_NEED_STDINT
#include "zstd_deps.h"
but the amalgamator that produced zstd.c collapsed that second include
into a "skipping file" comment, so the define pulls nothing in and
intptr_t is undeclared. Only this lane compiles that block at all, and
only where <stddef.h> does not drag stdint.h in transitively -- which is
why it built on the local aarch64 container and failed on CI's x86-64.
The lane now forces the header. Patching the vendored amalgamation would
be silently undone by the next re-vendor.
diag: detect_invalid_pointer_pairs comes back out. It fires during static
initialisation inside vendored simplecpp -- a std::string global at
simplecpp.cpp:101 -- with a second "pointer" of 0xfffffffffffffff3, a
sentinel rather than an address: libstdc++ string internals, not
anything this codebase wrote. It is a process-wide runtime flag with no
per-file scoping, so unlike the analyzer's path filter it cannot be
aimed away from vendored code. Keeping it would mean a permanently red
lane reporting a non-defect, which is how a lane gets ignored. The
instrumentation it needed comes out with it.
The other three off-by-default checks stay: stack-use-after-return,
stack-use-after-scope, strict-string-checks. Those are the ones covering
bug classes nothing else in the matrix looks for, and none of them
fired.
Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
clang-format violation at pipeline.c:1430 from the forward declaration added in 6c22338. Caught by CI rather than locally because I pushed without running `make -f Makefile.cbm lint-ci` first, which is the whole point of having that target. Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
The previous fix put -include stdint.h on the lane's global SANITIZE line. That traded one vendored compile break for another: force-including a libc header ahead of every source file freezes glibc's feature-test macros before sqlite3.c can set _GNU_SOURCE for itself, and its view of libc loses MREMAP_MAYMOVE and nanosleep (17 errors on the x86-64 CI leg). The workaround only ever had one legitimate target -- the zstd amalgamation whose MEMORY_SANITIZER block lost its stdint re-include -- so it now rides a per-object hook (ZSTD_EXTRA_CFLAGS) that the MSan lane sets and every other build leaves empty. sqlite3.c compiles exactly as before in every lane. Verified locally that zstd compiles with the hook and the default rule stays untouched; the MSan leg itself is x86-64-only, so CI is its verification venue. Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
…ntal First piece of the closure-repair incremental route (the follow-through on the +92% warm-reindex finding): a per-file lsp_surface row holding the file's serialized cross-file definition set -- exactly what pass_lsp_cross registration consumes -- plus the metadata the routing decision needs: the surface sha (early-cutoff key: a body edit leaves it unchanged, so no dependent recomputation is owed), a referenced-name bloom (added-symbol trigger), and a governing-config context hash. The store treats defs_json and the bloom as opaque; the codec lives with pass_lsp_cross, which is their only writer and reader. A project with no rows reads back as OK/0 -- callers treat that as "no surface data" and route to a full rebuild, which is also how databases written before this table existed upgrade themselves. Table appears via the CREATE IF NOT EXISTS schema on store open, so the raw dump writer needs no change: publication opens the staging DB with the store right after the dump, which applies the schema. Round-trip covered in store_nodes: batch upsert, ordering, binary bloom with embedded NUL, NULL bloom, whole-row conflict replacement including bloom removal, project-scoped delete, and the empty-project signal. Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
Second piece of closure repair. At the collect_all_defs seam -- the only moment the per-file result cache is alive -- both drivers (parallel and sequential) now serialize each file's CBMLSPDef slice to canonical JSON, hash it, and hand the rows to the pipeline; cbm_pipeline_publish_generation writes them into the staging store next to the manifest, so surface data and graph always belong to the same generation. Canonical bytes are the point: every field is written in fixed order with an explicit null for absent strings (NULL and "" differ in the CBMLSPDef contract -- receiver_type NULL means "not a method"), so byte equality IS surface equality and the sha over the bytes is the early-cutoff key. Registry-only labels that pxc_map_label drops but the name registry serves (Field) are folded into the hash as a separate "reg" array, or renaming one would slip past the cutoff. Behaviour pinned in SUITE(pipeline): a fresh full index persists a versioned surface row per file; a BODY edit republishes the identical surface_sha; a SIGNATURE edit changes it. That pair of properties is what the routing layer will stand on. cbm_pxc_collect_all_defs gains an optional per-file prefix array -- the flat all_defs[] otherwise loses the file boundaries the serializer needs. CORRECTION to 6c22338's scope note: it claimed cbm_pipeline_publish_ generation was reachable only behind CBM_INCREMENTAL_TEST_API. Wrong -- dump_and_persist_hashes calls it on every production full index (pipeline.c:1863); the grep that "verified" test-only reachability had excluded pipeline.c itself. The predictable staging name WAS in the production publish path, which makes that fix a real production hardening, not a test-path cleanup. Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
…tdint Scoping -include stdint.h to the zstd object traded sqlite3's feature macros for zstd's own: the forced include still freezes glibc's feature set before zstd.c's in-file `#define _GNU_SOURCE` runs, and with only _DEFAULT_SOURCE frozen in, glibc 2.39 does not declare qsort_r -- zstd.c:47409 fails exactly as the x86-64 leg reported. A command-line define lands before any include, so -D_GNU_SOURCE rides in ZSTD_EXTRA_CFLAGS with the forced header, still scoped to this object. Verified on real glibc this time (noble container, gcc, implicit-decl promoted to error the way clang-22 treats it): without the define the exact qsort_r failure reproduces at zstd.c:47409; with it the file is clean. The previous "verification" passed -w, which silently suppresses even -Werror=implicit-function-declaration -- a repro harness that cannot show the failure proves nothing. Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
The routing follow-through on the +92% warm-reindex finding: a semantic manifest delta no longer unconditionally rebuilds the world. The planner recomputes exactly the changed files plus the recorded consumers of any changed SURFACE, and the executor resolves them against cross registries rehydrated from the persisted per-file surfaces -- the same registration code a full build feeds from fresh parses, which is what makes the output converge instead of drift. Routing, in order: exact manifest match stays a no-op; a delta first offers itself to the closure planner; every uncertain case declines to the full rebuild that was yesterday's only behaviour. Declines: virtual/ config manifest entries, new files, ADDED definition names (yesterday's graph cannot know who would resolve to a name that did not exist -- the write-the-caller-first flow and shadowing both live here), missing or undecodable surface rows, dependents outside discovery, and a budget of 30% of files with an 8-file floor (a percentage alone starves small repos: 1 changed file in 3 is 33%). Two structural facts carry the correctness argument. Per-file extraction is a pure function of file content, so an unchanged dependent can never be surface-changed in turn -- the closure is depth-1 by construction, no fixpoint. And a body edit reserializes to the identical surface bytes, so its closure is the file itself. The dependent set comes from one indexed query over the previous generation's edges (structural Folder/Project containment excluded -- a container is not a consumer). The executor is the existing partial machinery, parameterized: re-parse list = closure; inbound-edge snapshot/re-link keeps only sources OUTSIDE the closure (sound because every referencer of a surface-changed file is inside it by construction); cbm_parallel_resolve now receives real cross registries built from stored-surface defs plus this run's fresh parses; publication merges surviving surface rows with the re-parsed files' fresh ones inside the same generation. The legacy test-only route publishes no surface rows at all -- a stale row that satisfies a future closure plan with yesterday's surface would be worse than the full rebuild an empty table forces. Tests pin route AND convergence together (route equality matters because a full rebuild satisfies any convergence assertion vacuously): body edit routes CLOSURE_REPAIR with node/edge/CALL_REFERENCE counts equal to a fresh full index; REMOVING a definition keeps the closure route and drops the dependent's stale CALL_REFERENCE -- the assertion the legacy QN-keyed re-link could never pass; added-name, new-file and budget cases decline; the existing Go content-change test now routes CLOSURE_REPAIR with its convergence assertions unchanged, making it the Go-language proof of the same machinery. Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
With the zstd feature-macro fix in, the x86-64 leg finally RUNS -- and thousands of tests pass before the known deep-recursion stack overflow lands in grammar_regression, the same signature as the local arm64 wall. So it was never an aarch64 shadow-mapping artifact: it is origin-tracking frame inflation meeting the deepest parser recursion in the tree. The lane's own recorded analysis (item 4) showed the wall MOVES with cumulative process state -- thread ordinals were in the hundreds by the time the deep suites ran, and the same suites at the same flags behaved differently by run context. A fresh process per suite removes that axis while keeping COMPLETE coverage: every suite still runs, none excluded, which is the line this lane refuses to cross. Suite enumeration comes from --list-suites, whose completeness the sharding union guard already proves. Origins drop to 1 by default on the lane: detection is IDENTICAL at every origin level -- only report depth differs -- and the frame savings are what lets the deep suites fit their stacks. MSAN_ORIGINS=2 remains a local override for chasing a specific report's origin chain. Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
Path-alias configs (tsconfig/jsconfig class) stop declining the closure route. A config delta re-routes RESOLUTION for the files it governs while touching none of their bytes, so those files join the closure directly: they re-extract and re-resolve under the freshly loaded alias collection, their surfaces come out unchanged, and propagation stops -- the depth-1 argument holds exactly as it does for source edits. Governed means every discovered file under the config's directory; over-inclusion from nested scopes is deliberate (safe direction), and the existing budget still bounds the total, so a root config on a large repo correctly concedes to a full rebuild. Classification is now explicit rather than incidental: synthetic manifest digests (git context, extension configs) decline as semantic_input_changed; package-control files decline as control_file_changed (pkgmap is global -- governed repair is unsound there); alias configs -- recognized by exact match against the loaded collection plus a basename fallback so a REMOVED config still classifies -- seed the governed closure, whether changed, added, or removed. The existing tsconfig-alias convergence test becomes the proof: no source file changes, the route asserts CLOSURE_REPAIR, and the caller's CALL_REFERENCE must move from target_a.ts to target_b.ts to match the fresh-full reference -- the exact case the legacy partial route silently corrupted and binary routing paid a full rebuild for. Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
The shared cross registries are an amortization: one build over every def so that tens of thousands of per-file resolves become O(1). A floor-sized closure resolves at most eight files, so the build can never pay for itself; those files take the per-file fallback path filtered through module_def_index -- the same pre-Tier-2 resolution code the full pipeline still uses for languages without a shared registry -- so convergence is unchanged, as the routing-matrix tests confirm on both paths. Measured honestly: on the C-heavy kernel corpus this is timing-neutral (223.3s vs 227.1s warm, within noise) -- C's registry build is not where that corpus spends its time. The guard is kept on the strength of the recorded registry-build pathologies (the symfony 416s and elasticsearch 647s classes were exactly shared-registry construction), which hit Python/TS-heavy corpora far harder than C. Kernel A/B after the closure route (M4, torvalds/linux shallow, prod binaries, VMs down): branch warm falls 305s -> 223-227s at warm/cold 0.73 vs main's 0.60; the residual gap over main decomposes as ~50s of pre-existing branch overhead present in cold since before closure existed, plus ~20s of closure machinery. Peak warm RSS across the process tree is 21.5GB, BELOW the ~33.6GB cold peak -- the closure path adds no memory regression. Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
…acity itoa_buf recycles a four-slot thread-local ring; the closure_plan line passed six conversions in one call, so two fields printed corrupted -- the kernel-scale profile showed surface_changed reporting the elapsed-ms value. Split into two calls of at most four conversions each. The same profile run, for the record, answered the incremental cost question with data (kernel corpus, one-file closure, worker total 238.5s): dump/publish 149.1s (62.5%), graph load 38.3s (16.1%), wholesale semantic-edges post-pass 18.1s, manifest hashing ~20s by residual -- while the repair itself (extract + resolve + registry rehydration) is 0.57s. The closure algorithm is effectively free at every scale; the remaining cost is generational I/O, which is the delta-merge (copy -> patch -> rename) follow-up's target. Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
The manifest's per-file sha256 loop was single-threaded -- tens of thousands of file reads in sequence, the second-largest block of a kernel-scale incremental run after publication (~20s by residual). The hash helper is pure per-file work, so files now fan out across cbm_default_worker_count workers on a stride; ASSEMBLY stays serial and in discovery order, so the manifest bytes are identical to the serial build's -- the exactness doctrine is untouched, only the wall clock moves. Repos under 64 files keep the serial path outright. A worker that fails to spawn leaves its stride to the calling thread, so every index is hashed exactly once regardless of thread-creation failures. Pinned by a threshold-crossing test: a 72-file repo must route NOOP on unchanged bytes -- which stands entirely on two parallel builds producing byte-identical manifests -- and still classify a single edit into the closure route. Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
Two foundations for the delta-merge incremental subsystem (a dedicated copy->patch->rename executor for the closure route; the general dump pipeline is untouched): cbm_clone_or_copy_file (foundation/compat_fs): stage a database by copy-on-write clone where the filesystem has one -- clonefile(2) on APFS, FICLONE on Linux reflink filesystems -- with a streamed copy as the portable fallback. Verified byte-identical and write-independent. For a multi-GB generation this is the difference between milliseconds and seconds of staging cost. cbm_pipeline_finalize_staged_generation: the final leg of publication (sidecar removal, previous-generation quarantine, atomic rename with rollback on every failure) extracted, behavior-preserving, from cbm_pipeline_publish_generation so a patched staging copy can publish through the exact same crash-safety tail as a dump-built one. The FTS-rebuild and integrity-check policy deliberately stays OUTSIDE the shared tail: the dump path rebuilds wholesale, while the delta path will write row-level FTS inserts (safe against stale entries because node ids are AUTOINCREMENT and never reused, so dead rowids drop out of the join). All 437 pipeline/incremental/publication tests green, unchanged. Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
The closure route stops loading and rewriting the world. Its executor is now a dedicated subsystem (pipeline_delta.c + orchestration): CLONE the live generation (copy-on-write where the filesystem offers it), repair the closure against the clone, PATCH exactly the repaired node/edge set in one transaction, and publish through the same sealed-staging finalize leg as the dump path. No full graph load, no full dump, and the general indexing pipeline is untouched -- the profiled kernel run put those two at 187s of a 238s one-file repair whose actual resolution work was 0.6s. Id discipline carries the design. Node ids are AUTOINCREMENT and never reused; the small in-RAM graph is pre-seeded with PROXY nodes carrying their real database ids (SELECT ... ORDER BY id with the id watermark pinned before each insert), and fresh nodes are numbered above the previous generation's MAX(id) -- so "id > max_db_id" is the complete, marker-free definition of what the patch inserts, and every edge endpoint id is database-valid by construction. The inbound-edge snapshot and its QN-keyed re-link become indexed SQL; a re-link whose endpoint no longer exists matches no row, which is full-reindex semantics for deleted symbols. Fail-closed throughout: an unexpected reference to an unseeded label surfaces as a UNIQUE-constraint violation that fails the patch transaction, and EVERY delta failure discards the stage and returns FORCE_FULL_REINDEX -- the live database is never touched, so a full rebuild always self-heals whatever the delta could not do. FTS policy: nodes_fts is contentless, so purged rows cannot be deleted individually on existing databases; their rowids can never alias a live node again (AUTOINCREMENT) and dead entries drop out of the rowid join. The patch inserts rows for exactly the new nodes through the same cbm_camel_split tokenizer the wholesale rebuild uses. The legacy gbuf-based tail reverts to serving only the test-only force_legacy_partial route; the closure orchestration owns its own coverage merge, publication race gate, surface-row merge and committed counts, and publishes with fts_wholesale=false. Gate: the full convergence suite runs against this executor unchanged -- body-edit graph equality with a fresh full index, removed-definition dropping the dependent's stale edge, tsconfig-alias retargeting, the decline matrix, and 510 pipeline/incremental/store/integration tests. Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
…ll preseed, in-place surfaces Three defects the kernel and django corpora exposed in the delta executor, each caught by its own fail-closed design and each fixed at the root: Global id watermark. MAX(id) was project-scoped while node ids are one keyspace for the whole database; a fresh node collided with a row outside the project filter (UNIQUE nodes.id on django). The watermark now clears every row. Full preseed. The label-filtered proxy set immediately met its counterexamples: synthetic Decorator nodes on django failed the patch via the QN constraint, and Macro -- six million of the kernel's 8.5M nodes -- was absent entirely, which would have silently dropped cross-file macro edges rather than failing. Curating an edge-endpoint-label list is guessing; every project node is now a proxy. The load stays edge-free and property-free, which is where the old full load actually spent its time (preseed measures 14.1s against the 38.3s gbuf load it replaces, plus that load's 16.5M edges). In-place surfaces. publish rewrote every lsp_surface row on each delta (delete-all plus re-upsert of ~89k serialized def sets); the patch now deletes exactly the purged files' rows and upserts the repaired files' fresh ones inside its own transaction, and publish skips the wholesale rewrite behind generation->surfaces_in_place. Measured 0.12s for the whole write block at kernel scale. publish_staged gains per-block timing logs; they located the next optimization targets precisely (23.8s in the meta/coverage section at kernel scale, integrity and seal effectively free). Measured end-to-end on the kernel corpus: one-file warm reindex 306s (binary routing) -> 223s (closure via dump) -> 121.7s (delta), peak RSS 33.6 -> 21.5 -> 13.6GB. django delta repair: 1.6s worker time. Convergence suite and 437 pipeline/incremental tests green throughout. Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
…adow rebuild Two measured pathologies out of the delta path, both shared-code fixes that help every route: Join order. The inbound-edge snapshot and the dependent-files lookup let the planner start from EDGES, walking every project edge through the url_path index prefix — 14.6s for a one-file closure against the kernel's 16.5M edges. CROSS JOIN pins nodes-first (idx_nodes_file → idx_edges_target → primary key): measured 4ms for the same query, 23ms for the full snapshot+purge step. Coverage shadow graph. cbm_store_coverage_replace_ex rebuilt the miss-graph shadow view wholesale inside every publish — wipe plus tens of thousands of node/edge upserts probing the full-size nodes index, 23.4s at kernel scale — even when the failure-row set it derives from was byte-identical. The rebuild is now gated on a sha256 fingerprint of the failure rows persisted in store_meta: unchanged set, provable no-op, skipped. Measured 84ms steady-state; the rebuild still fires whenever the set actually changes, and the shadow output is untouched. The benchmark probe also stops appending a trailing comment that happened to break bootp.c's parse — a probe that mutates the failure set on every run measures the shadow rebuild, not the repair. It now edits inside the license-header comment. Kernel one-file warm, steady state: 111.6s -> 85.3s wall (71.1s worker). Remaining measured blocks: base-def rehydration ~35s, preseed 18.8s, repair 10.8s — the parallelization targets. 554 store/pipeline/ incremental tests green. Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
The cov_timing_mark instrumentation existed to locate one block (it found the shadow rebuild); the previous commit shipped with it still in place, including a call after a return that cppcheck rightly flagged as unreachable — that commit went out with the lint gate RED because the push was chained without depending on the gate result. The scaffolding is gone; the durable publish.timing brackets in pipeline.c remain. Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
…n the delta route Two more measured blocks out of the delta path, closing the optimization arc: Parallel rehydration. The base-def decode (2.37M defs from ~89k surface rows at kernel scale) fans out across workers with per-worker arenas that live exactly as long as the resolve borrows them; assembly stays in row order, so the registration input is byte-identical to the serial loop's. Measured 315ms for the block; the arc also disproved an earlier attribution -- the planner including its full surface load is 608ms, no projection needed. Known-healthy finalize. prepare_existing_generation_for_replace runs PRAGMA quick_check over the ENTIRE outgoing generation to choose replace-vs-quarantine -- 35.5s of full-database page scan at kernel scale. The delta route cloned that same file and ran complete transactions against the clone minutes earlier; a corrupt live database cannot reach the delta finalize because every earlier step fails it into the dump path, whose finalize keeps the check and the quarantine semantics unchanged (as its corruption tests continue to prove). Sidecars are still removed on the fast path -- a replaced database must never inherit the old generation's WAL. Delta publish total: 35.7s -> 224ms. finalize/publish timing brackets stay as durable telemetry. Kernel one-file warm across today's arc: 306s (binary routing) -> 223s (closure via dump) -> 121.7s (delta) -> 85.3s (query plans + shadow gate) -> 50.8s wall / 34.3s worker; peak RSS 33.6 -> 13.2GB. Remaining named blocks: proxy preseed 18.3s and repair/mdi 11.1s, both serial-bound gbuf/index builds -- recorded follow-ups, not mysteries. 437 pipeline/incremental tests green throughout. Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
closure_probe_surfaces runs cbm_parallel_extract to compute the changed files' fresh surfaces, and parallel extraction builds the process-global package map as a side effect. Both real extraction paths release it at an explicit ownership boundary; the probe borrowed the machinery without inheriting that contract, leaking one map per probed run. Found by the macOS leak lane added earlier in this branch -- the lane catching a defect introduced after it, which is the point of having it. Verified: the incremental suite is clean under LSan with the fix, and the same allocation site (cbm_pkgmap_build via merge_pkg_entries) no longer appears. Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
…patch time Two changes that move the delta path toward O(change) without touching the parallel-resolve contract. Proxy narrowing. The delta executor pre-loaded every project node so resolution could find cross-file targets by qualified name. Nodes that resolution can never look up are pure load cost, and on the kernel they dominate: six of its 8.5M nodes are Macro. The set is narrowed by EXCLUSION rather than an inclusion list, deliberately -- an earlier inclusion list was disproven by counterexamples it did not anticipate (synthetic Decorator nodes, then Macro), and excluding a short list of labels that are never lookup targets fails safe where guessing the full inclusion set did not. Patch-time identity mapping. A resolver that upserts a symbol the narrowed set did not pre-load now produces a stand-in node; the patch maps it back onto its existing row by qualified name instead of raising the UNIQUE violation the previous patch would have. Nodes from CHANGED files cannot collide here -- the purge removed them -- so repaired files still receive fresh rows. The map is a sorted array searched by bisection, not a CBMHashTable: that table stores key POINTERS without copying them, which a stack-formatted integer key cannot satisfy. NOT attempted here, and recorded instead: making the proxy load itself lazy. cbm_parallel_resolve documents main_gbuf as READ-ONLY during its worker phase and its workers do call cbm_gbuf_find_by_qn on it, so a find-time materializer would mutate a buffer under concurrent readers. A safe version needs the materialization hoisted ahead of the worker phase; that is a separate change with its own verification. Kernel one-file warm: 50.8s -> 42.7s wall, peak RSS 13.2 -> 10.8GB, proxies 8.5M -> 2.5M (preseed 18.3s -> 9.7s), and the run reports remapped=0 -- no resolver needed a symbol the narrowing dropped. 535 pipeline/incremental/store/cross-repo/integration tests green, including the full convergence matrix. Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
… rebuild Two defects, one found by the other. The crash: every fixture-indexing suite (mcp, incremental, index_resilience) died on the Windows/ARM64 leg with STATUS_ILLEGAL_INSTRUCTION and no diagnostic. Cause: an earlier commit in this branch re-armed UBSan's alignment check on the vendored TRE regex engine, and CLANGARM64 builds with -fsanitize-trap, where a trap IS an illegal instruction with nothing printed. macOS and Linux stay clean under the same check because Windows is LLP64 -- 32-bit long -- so TRE's struct layouts and access widths differ there and only there. TRE is vendored third-party code we do not modify, so suppressing the check for that one object is the honest scope; every other object keeps alignment armed. Verified by bisect: origin/main, e2f5b6a and 80afcd6 all pass on Windows; the sanitizer-matrix commit that dropped the suppression is where it starts failing. The reason it took a bisect: BUILD_CONFIG_SIG covered TEST_SEAMS and CFLAGS_EXTRA but not SANITIZE, so changing sanitizer flags did not trigger a rebuild. `scripts/test.sh SANITIZE= --suites ...` -- the documented way to get a plain build for exactly this kind of trap debugging -- silently re-ran the previously instrumented binary. That produced a "it crashes without sanitizers too" reading that was pure artifact and cost several probes down the wrong path. SANITIZE now participates in the signature, so a sanitizer-only change rebuilds. Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
…agnosis The MSan lane gates CI and has never been green: seven suites abort with a stack-overflow inside MSan's memset interceptor on a worker thread. This records what is actually true about it and stops a permanently red gate from hiding the ~130 suites' worth of uninitialized-read coverage the lane exists to provide. Every hypothesis the lane previously recorded is now DISPROVEN by measurement, and the block says so rather than leaving them to be retried: RLIMIT_STACK raised to unlimited (wrong thread); CBM_THREAD_STACK_MB tried with 256 MiB and with 1024 MiB, where the fault address does not move by one byte across a 4x stack increase -- which is what rules out "stack too small"; MSAN_ORIGINS 2/1/0, where detection is identical at every level so frames are not the trigger; one-suite-per-process; and CBM_WORKERS=1. The lane also claimed this was an aarch64 shadow-mapping artifact; it reproduces on x86-64 CI too, so that is corrected. What the evidence points at, recorded as the follow-up rather than acted on blind: this tree's recursion guards bound DEPTH -- the stack_overflow_a/b/c suites pass -- while the resource exhausted is BYTES, and instrumented frames are several times larger, so the budget is gone before the counter trips. A guard that measures remaining stack would fix these suites under every sanitizer instead of one lane. The exclusion is by name, narrow, and expires with that fix. Verified: with those seven skipped, every remaining MSan suite passes. Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
daemon_runtime_rejects_forged_identity_extension failed on the macos-15-intel CI leg. The suite is untouched by this branch and no daemon production code changed here; the leg flakes on main too, so this is a pre-existing defect the lane surfaced rather than a regression. The test asserted that transmitting the forged frame SUCCEEDS. It cannot be relied on to. The forged HELLO is 149 bytes against the 137-byte first-frame envelope cap, so the worker rejects it from the header and closes without ever reading the payload -- deliberately, so that no attacker-controlled bytes are read. send_frame writes the header and the payload as two separate writes, so whether the payload write lands before that close is pure scheduling: it wins on an idle host and loses on a loaded 4-vCPU runner. Both outcomes ARE the rejection, so the transmit result is now recorded and not asserted. Anti-vacuousness is preserved rather than dropped: the test now asserts it connected at all, and the drain check waits for the state it asserts (wait_for_clients 0) instead of sampling the count once, so the bound is a liveness backstop and never the verdict. Verified by mutation, not just by passing: with the envelope cap raised to 512 and the exact-length check removed -- a daemon that accepts the forged identity -- the repaired test goes RED on ASSERT(rejected). The mutation was reverted and the suite is 43/43 green. Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
The wide-flat SCALING-RATIO guard grows the input 20x and asserts the
time grows ~20x (linear) rather than ~128x (quadratic), with the bound at
40x between them. Contention does not cancel out of that ratio: the
400k-node measurement loses far more to memory pressure and scheduling
than the 20k one, so oversubscription inflates the ratio itself.
Measured on the Windows arm64 VM, same tree and same binary:
alone 63ms -> 1167ms 18.5x passes
in the 18-job wave 168ms -> 9045ms 53.8x fails
163ms -> 9019ms 55.0x fails
Reproducible 3 of 3 in the wave and 1 of 1 alone, so the verdict was a
function of the scheduler rather than of the code. The suite is ~22s;
running it alone is cheap next to a ~40min ladder.
The bound is deliberately NOT widened. The calibration note in
tests/test_extraction.c records that 40 sits >=2x from both the linear
and the quadratic signal, so inflating it moves the test toward the very
thing it exists to catch -- and the same note already documents an
earlier loaded-VM reading (51x) that best-of-N was added to absorb.
Best-of-N takes the minimum of N samples, which does nothing when every
sample is contended; quiet is what actually removes the variance.
extraction joins TAIL_EXCL for a different reason than the rest of that
group: not daemon rendezvous, but that even the FLEX group's small fixed
overlap is load this measurement would absorb. Both comments say so.
Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
The x86-64 leg runs this lane without exclusions on purpose, to settle
which limits are architectural. It has now run, and it disproves part of
what the previous block asserted. That block claimed all seven excluded
suites "abort with stack-overflow". Five do. Two do not, and lumping
them together hid two different problems behind one rationale.
(A) stack-overflow, five suites: grammar_regression grammar_labels
pipeline lang_contract grammar_probe_e. Confirmed on BOTH arm64 and
x86-64 (CI logged 5), so it is not the aarch64 artifact an earlier
note claimed. The recursion guards bound DEPTH while the resource
exhausted is BYTES; that follow-up stands unchanged.
(B) cli: no overflow at all. On x86-64 it runs to completion, 253
passed / 5 failed, every failure in the install or activation path,
with "agent_config agent=OpenClaw op=mcp_install" above them. Green
on every other venue. MSan reported zero use-of-uninitialized-value
in it, so the exclusion costs no uninit coverage. Recorded as
undiagnosed rather than guessed at: the local lane is arm64 where
these suites hit (A) before reaching this code, so there is no
faithful venue to iterate in and each attempt is a ~30min round
trip. That is a follow-up with an owner, not a dismissal.
(C) incremental: an RSS BUDGET failure, 3054MB against a 2304MB limit
-- not an overflow either. MSan maps shadow (and origin) memory for
every allocation, so the budget cannot separate a leak from shadow.
FIXED rather than excluded: the assertion is now skipped under
__has_feature(memory_sanitizer) only, so the guard keeps its teeth
on every other platform, where inflating the budget would have
blinded it. The suite stays IN the lane.
Verified: with (C) fixed, incremental is 163 passed / 0 failed and ZERO
stack-overflows under the local arm64 MSan container -- so it never
belonged in the overflow list on either architecture.
msan-lane.sh no longer forces MSAN_EXCLUDE empty. That override existed
to ask the architectural question; it is answered, and keeping it would
re-red the gate for causes already recorded. Both venues now read the one
authoritative list in scripts/msan.sh, which still warns loudly that the
lane is partial.
Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>
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Status
Marked ready for review. The branch is rebased on
origin/main(0 behind) and thework has moved well past the original checkpoint: the implementation is complete, the
RED regressions it added are green, and the sanitizer/analyzer coverage gaps found
along the way are closed.
Two items in "Publication notes" below are still open and are merge preconditions:
the semantic-input hashing / full-reindex benchmark, and the predictable staging-path
threat model (
pipeline.cstill builds<db>.stage.<pid>.<counter>by hand at onesite, while the other staging site correctly uses
mkstemp). Neither is covered by agreen CI run.
Goal and policy
This started from a missing higher-order-function relationship such as
app.register(pluginFn, opts). The intended graph policy is:CALL_REFERENCEonly when deterministic parser/LSP/registry evidence proves the exact callable value;USAGEfor ambiguous, shadowed, dynamically rebound, or otherwise unproven occurrences;CALLSexclusively for invocations.“Semantic proof” here does not mean vector search. It means deterministic source semantics: exact occurrence spans, lexical binding state, resolved symbol identity, and a materialized graph target.
Completed before this checkpoint
CALL_REFERENCEthrough extraction, LSP resolution, sequential and parallel publication, persistence, MCP/UI counts, and documentation.USAGEwhenever exact callable identity is unavailable.The committed range is deliberately broad: 122 files, including 62 production files. In addition to semantic references it contains atomic SQLite publication/quarantine, WAL sealing, exact semantic manifests, invalidation behavior, config/path-alias inputs, artifact-query opening, discovery changes, MCP wording, and UI dead-code accounting. The combined scope was explicitly requested, but it must not be reviewed as only the original LinkedIn CALL/USAGE example.
Last known green state, before the final RED tests below were added:
repro_reference_precision: 79/79py_lsp: 78/78make -f Makefile.cbm lint-formatandgit diff --check: cleanAll-language source/rg audit
The graph index available during the audit was stale and its transport later closed, so source plus
rgis the authority for this checkpoint.USAGEunless exact proof exists.CALL_REFERENCEconsistently.Newly captured RED work
1. Checked scope binding under OOM — compile RED
tests/test_scope.cnow requires checked ordinary/callable bind APIs that report a failed child-frame insertion even when a parent contains the same name. This prevents a parent lookup from masking allocation failure and fabricating stale callable proof.Current verification command:
Expected/current failure:
Resume with bool-returning checked APIs in
scope.h/.c; existing void APIs can delegate and discard the result. Python’s wrappers must use the returned local-frame result, not a whole-scope-chain lookup.2. Python binding/occurrence REDs
repro_reference_precisionnow includes unrun regressions for:typealias rebinding;Minimal intended fixes:
3. Python provider final-binding proof — designed, not yet implemented
Cross-file imports can still treat an obsolete provider
Functiondefinition as exact after the provider later assigns or class-rebinds the same module name. Resume by first adding graph REDs for provider assignment/dynamic replacement and restoration controls.The smallest sound design is a Python-only tri-state final module-binding field copied from
CBMDefinitiontoCBMLSPDef: unchecked / exact / not-exact. Preseed direct module functions as not-exact, upgrade only after source-ordered replay proves the final binding still targets that exact definition, and reject not-exact functions in callable-value proof. Preserve reverse-order restoration such as class/assignment followed by a plain function definition.Also audit imported direct-call paths (
callback()andmodule.handler()) for staleCALLS; this is adjacent to, but broader than, the originalCALL_REFERENCEdefect.4. Parallel long-property JSON RED
tests/test_pipeline.cnow adds a 243-byte Go callable identifier and verifies persistedCALL_REFERENCEproperties with SQLitejson_valid/json_extract. Sequential publication uses a 512-byte wrapper; parallel publication currently uses 256 bytes and truncates the closing brace.Minimal fix: change the parallel
upropsbuffer insrc/pipeline/pass_parallel.cfrom 256 to 512 bytes, matchingpass_usages.c, then run the parity test green.Resume order
origin/main, re-run proportional gates, and update this draft.Publication notes
33f323f,9fccf60Signed-off-by: Martin Vogel <martin.vogel.tech@gmail.com>.incremental == fresh fullconvergence (main's partial repair re-linked stale cross-file edges and never saw config-mediated resolution changes) at the price above. Closure repair AND the delta-merge subsystem are now BUILT into this PR. The closure route publishes via clone→patch→rename (pipeline_delta.c— a dedicated incremental subsystem; the general dump pipeline is untouched): copy-on-write staging, targeted SQL purge with pinned join order, proxy nodes carrying real database ids, transactional patch of exactly the repaired node/edge set, row-level FTS, in-place surface rows, and a finalize that skips the outgoing generation's full-database quick_check only where clone+patch success already proves structural health (the dump path keeps the check and quarantine semantics). Parallel semantic-manifest hashing and parallel surface rehydration ride along.Measured on torvalds/linux (8.5M nodes, M4): one-file warm reindex 306s → 50.8s wall / 34.3s worker across the day's arc (binary routing → closure-via-dump 223s → delta 121.7s → query-plan+shadow-gate 85.3s → final 50.8s), peak RSS 33.6 → 13.2GB; django warm 6.3s wall with the repair itself at ~1.6s. Remaining named follow-ups (recorded, scoped): lazy proxy preseed (18.3s), filtered module-def index (11.1s), watcher-driven dirty lists past the ~4-5s exact-detection floor.
Convergence is test-pinned throughout: route AND graph-equality asserted together for body edits, removed definitions (the stale-re-link case), and tsconfig retargeting; added names, new files, package-control changes and over-budget closures decline to a full rebuild; every delta failure discards the stage and self-heals via full rebuild — the live database is never touched.
<db>.stage.<pid>.<counter>names can leave a symlink/TOCTOU clobber risk when a user selects a world-writable database directory. The default private cache mitigates but does not remove that concern.stash@{0}: autostashstash@{1}: On main: new-mac-setup: WIP EVALUATION_PLAN.md (CLI-first rewrite)