substrate-ai 0.20.39 → 0.20.40

package/dist/cli/index.js

@@ -1,10 +1,10 @@
 #!/usr/bin/env node
-import { FileStateStore, RunManifest, SUBSTRATE_OWNED_SETTINGS_KEYS, SupervisorLock, VALID_PHASES, WorkGraphRepository, ZERO_FINDING_COUNTS, buildPipelineStatusOutput, createDatabaseAdapter, createStateStore, findPackageRoot, formatOutput, formatPipelineStatusHuman, formatPipelineSummary, formatTokenTelemetry, getAllDescendantPids, getAutoHealthData, getSubstrateDefaultSettings, inspectProcessTree, parseDbTimestampAsUtc, parseRuntimeProbes, registerHealthCommand, resolveBmadMethodSrcPath, resolveBmadMethodVersion, resolveMainRepoRoot, resolveRunManifest, rollupFindingCounts } from "../health-R9GiVIiQ.js";
+import { FileStateStore, RunManifest, SUBSTRATE_OWNED_SETTINGS_KEYS, SupervisorLock, VALID_PHASES, WorkGraphRepository, ZERO_FINDING_COUNTS, buildPipelineStatusOutput, createDatabaseAdapter, createStateStore, findPackageRoot, formatOutput, formatPipelineStatusHuman, formatPipelineSummary, formatTokenTelemetry, getAllDescendantPids, getAutoHealthData, getSubstrateDefaultSettings, inspectProcessTree, parseDbTimestampAsUtc, parseRuntimeProbes, registerHealthCommand, resolveBmadMethodSrcPath, resolveBmadMethodVersion, resolveMainRepoRoot, resolveRunManifest, rollupFindingCounts } from "../health-qUCPCz1O.js";
 import { createLogger } from "../logger-KeHncl-f.js";
 import { createEventBus } from "../helpers-CElYrONe.js";
 import { AdapterRegistry, BudgetConfigSchema, CURRENT_CONFIG_FORMAT_VERSION, CURRENT_TASK_GRAPH_VERSION, ConfigError, CostTrackerConfigSchema, DEFAULT_CONFIG, DoltClient, DoltNotInstalled, GlobalSettingsSchema, InMemoryDatabaseAdapter, IngestionServer, MonitorDatabaseImpl, OPERATIONAL_FINDING, PartialGlobalSettingsSchema, PartialProviderConfigSchema, ProvidersSchema, RoutingRecommender, STORY_METRICS, TelemetryConfigSchema, addTokenUsage, aggregateTokenUsageForRun, checkDoltInstalled, compareRunMetrics, createAmendmentRun, createConfigSystem, createDecision, createDoltClient, createPipelineRun, getActiveDecisions, getAllCostEntriesFiltered, getBaselineRunMetrics, getDecisionsByCategory, getDecisionsByPhaseForRun, getLatestCompletedRun, getLatestRun, getPipelineRunById, getPlanningCostTotal, getRetryableEscalations, getRunMetrics, getRunningPipelineRuns, getSessionCostSummary, getSessionCostSummaryFiltered, getStoryMetricsForRun, getTokenUsageSummary, incrementRunRestarts, initSchema, initializeDolt, listRunMetrics, loadParentRunDecisions, supersedeDecision, tagRunAsBaseline, updatePipelineRun } from "../dist-VcMmfo2w.js";
 import "../adapter-registry-DXLMTmfD.js";
-import { AdapterTelemetryPersistence, AppError, DoltRepoMapMetaRepository, DoltSymbolRepository, ERR_REPO_MAP_STORAGE_WRITE, EpicIngester, GitClient, GrammarLoader, RepoMapInjector, RepoMapModule, RepoMapQueryEngine, RepoMapStorage, SymbolParser, createContextCompiler, createDispatcher, createEventEmitter, createImplementationOrchestrator, createPackLoader, createPhaseOrchestrator, createStopAfterGate, createTelemetryAdvisor, formatPhaseCompletionSummary, getFactoryRunSummaries, getScenarioResultsForRun, getTwinRunsForRun, listGraphRuns, registerExportCommand, registerFactoryCommand, registerRunCommand, registerScenariosCommand, resolveStoryKeys, runAnalysisPhase, runPlanningPhase, runProbeAuthor, runSolutioningPhase, validateStopAfterFromConflict } from "../run-Dm70k8bR.js";
+import { AdapterTelemetryPersistence, AppError, DoltRepoMapMetaRepository, DoltSymbolRepository, ERR_REPO_MAP_STORAGE_WRITE, EpicIngester, GitClient, GrammarLoader, RepoMapInjector, RepoMapModule, RepoMapQueryEngine, RepoMapStorage, SymbolParser, createContextCompiler, createDispatcher, createEventEmitter, createImplementationOrchestrator, createPackLoader, createPhaseOrchestrator, createStopAfterGate, createTelemetryAdvisor, formatPhaseCompletionSummary, getFactoryRunSummaries, getScenarioResultsForRun, getTwinRunsForRun, listGraphRuns, registerExportCommand, registerFactoryCommand, registerRunCommand, registerScenariosCommand, resolveStoryKeys, runAnalysisPhase, runPlanningPhase, runProbeAuthor, runSolutioningPhase, validateStopAfterFromConflict } from "../run-Dhxrf7Nj.js";
 import "../errors-CogpxBUg.js";
 import "../routing-CcBOCuC9.js";
 import "../decisions-C0pz9Clx.js";
@@ -3667,7 +3667,7 @@ async function runStatusAction(options) {
 			logger$13.debug({ err }, "Work graph query failed, continuing without work graph data");
 		}
 		if (run === void 0) {
-			const { inspectProcessTree: inspectProcessTree$1 } = await import("../health-C-ZrHJwL.js");
+			const { inspectProcessTree: inspectProcessTree$1 } = await import("../health-B54Vy4Ux.js");
 			const substrateDirPath = join(projectRoot, ".substrate");
 			const processInfo = inspectProcessTree$1({
 				projectRoot,
@@ -5198,7 +5198,7 @@ async function runSupervisorAction(options, deps = {}) {
 								await initSchema(expAdapter);
 								const { runRunAction: runPipeline } = await import(
 									/* @vite-ignore */
-									"../run-CL1C4M2f.js"
+									"../run-D2xj574m.js"
 );
 								const runStoryFn = async (opts) => {
 									const exitCode = await runPipeline({

package/dist/{health-C-ZrHJwL.js → health-B54Vy4Ux.js}

@@ -1,4 +1,4 @@
-import { DEFAULT_STALL_THRESHOLD_SECONDS, getAllDescendantPids, getAutoHealthData, inspectProcessTree, isOrchestratorProcessLine, registerHealthCommand, runHealthAction } from "./health-R9GiVIiQ.js";
+import { DEFAULT_STALL_THRESHOLD_SECONDS, getAllDescendantPids, getAutoHealthData, inspectProcessTree, isOrchestratorProcessLine, registerHealthCommand, runHealthAction } from "./health-qUCPCz1O.js";
 import "./logger-KeHncl-f.js";
 import "./dist-VcMmfo2w.js";
 import "./decisions-C0pz9Clx.js";

package/dist/{health-R9GiVIiQ.js → health-qUCPCz1O.js}

@@ -4508,10 +4508,90 @@ function computeTakenOptionPerGroup(hardClauses, workingDir) {
 *   3. The presence of `## Runtime Probes` heading followed by a fenced yaml block
 *      (represented as a single "runtime-probes-section" clause)
 */
+/**
+* Negation phrases that mark a paragraph as "the paths in this paragraph
+* are references the dev should NOT deliver/modify". When any of these
+* phrases appears in a paragraph, every path-clause in that paragraph is
+* tagged `negation: true` so the verification emit routes them to the
+* info-severity `source-ac-negation-reference` finding instead of the
+* under-delivery error path.
+*
+* Strata Run 16 (Story 1-16, 2026-04-27): the AC contained
+*
+*   "the existing test scaffolding is documented (NOT replaced):
+*    `packages/memory` already uses vitest (Story 1.8+);
+*    `packages/memory-mcp` already uses pytest (Story 1.10+); ...
+*    1.16 does NOT replace or rewrite existing test infrastructure."
+*
+* Substrate emitted 6 ERROR-level under-delivery findings on the listed
+* paths; the dev had correctly NOT modified them. The flood of
+* false-positive ERRORs masked a real WARN about the missing `## Runtime
+* Probes` section (which itself would have surfaced two real defects in
+* the delivery). Detecting the negation context up-front separates the
+* legitimate "paths the AC mentions but the dev should not modify" case
+* from genuine under-delivery.
+*
+* Patterns are case-sensitive on the keyword (NOT, MUST NOT, gitignored)
+* because lowercased forms are common in non-imperative prose ("not
+* really" / "must not exceed" appear in unrelated contexts and
+* over-trigger). The strata observation enumerates the canonical forms.
+*/
+const NEGATION_PHRASE_PATTERNS = [
+	/\(NOT\s+\w+/,
+	/documented\s*\(NOT/i,
+	/\bMUST\s+NOT\b|\bSHALL\s+NOT\b/,
+	/\bdo(?:es)?\s+NOT\s+\w+/,
+	/\bdeferred\s+to\b/i,
+	/\b(?:is|are)\s+gitignored\b/i
+];
+/**
+* Find all line indices that fall within a negation context. The scope of
+* a single negation context is the line that contains the negation phrase
+* PLUS any markdown indented-continuation lines following it (so a bullet
+* that wraps onto multiple indented lines is treated as one logical unit).
+*
+* The continuation walk stops at the first of: blank line, next markdown
+* bullet (`- `, `* `, numbered list), or any non-indented non-blank line.
+*
+* Coarser scopes (e.g., paragraph-wide aggregation) over-triggered on
+* test fixtures like:
+*
+*   The implementation MUST validate input.
+*   The system MUST NOT skip authentication.
+*   Files SHALL be placed in `src/auth/validator.ts`.
+*
+* — three independent statements wrapped without blank-line separators.
+* The "MUST NOT" on line 2 should not mark the unrelated path on line 3
+* as a negation reference. Only the bullet's CONTINUATION-LINE structure
+* constitutes "the same logical reference unit" as the negation phrase.
+*/
+function detectNegationContextLines(lines) {
+	const result = new Set();
+	for (let i = 0; i < lines.length; i++) {
+		const line = lines[i] ?? "";
+		if (NEGATION_PHRASE_PATTERNS.some((pat) => pat.test(line))) {
+			result.add(i);
+			let j = i + 1;
+			while (j < lines.length) {
+				const next = lines[j] ?? "";
+				if (next.trim() === "") break;
+				if (/^\s*(?:-|\*|\d+\.)\s+/.test(next)) break;
+				if (/^\s+\S/.test(next)) {
+					result.add(j);
+					j++;
+					continue;
+				}
+				break;
+			}
+		}
+	}
+	return result;
+}
 function extractHardClauses(sectionContent) {
 	const clauses = [];
 	const lines = sectionContent.split("\n");
 	const alternativeOptions = detectAlternativeOptions(lines);
+	const negationContextLines = detectNegationContextLines(lines);
 	const mustPattern = /\b(MUST NOT|MUST|SHALL NOT|SHALL)\b/;
 	for (const line of lines) {
 		const match = mustPattern.exec(line);
@@ -4530,10 +4610,12 @@ function extractHardClauses(sectionContent) {
 		let pathMatch;
 		while ((pathMatch = pathPattern.exec(line)) !== null) {
 			const alt = findOptionForLine(lineIdx, alternativeOptions);
+			const inNegation = negationContextLines.has(lineIdx);
 			clauses.push({
 				type: "path",
 				text: `\`${pathMatch[1]}\``,
-				...alt ? { alternative: alt } : {}
+				...alt ? { alternative: alt } : {},
+				...inNegation ? { negation: true } : {}
 			});
 		}
 	}
@@ -4583,15 +4665,24 @@ var SourceAcFidelityCheck = class {
 		for (const clause of hardClauses) if (clause.type === "runtime-probes-section") {
 			if (!storyContent.includes("## Runtime Probes")) {
 				const truncated = clause.text.length > 120 ? clause.text.slice(0, 120) : clause.text;
+				const isEventDrivenAc = detectsEventDrivenAC(context.sourceEpicContent);
 				findings.push({
 					category: "source-ac-drift",
-					severity: "warn",
-					message: `runtime-probes-section: "${truncated}" present in epics source but absent in story artifact`
+					severity: isEventDrivenAc ? "error" : "warn",
+					message: isEventDrivenAc ? `runtime-probes-section: "${truncated}" present in epics source but absent in story artifact AND source AC is event-driven (probes are required for event-driven ACs — runtime-probes check will skip without the section)` : `runtime-probes-section: "${truncated}" present in epics source but absent in story artifact`
 				});
 			}
 		} else if (!storyContent.includes(clause.text)) {
 			const truncated = clause.text.length > 120 ? clause.text.slice(0, 120) : clause.text;
 			if (clause.type === "path") {
+				if (clause.negation === true) {
+					findings.push({
+						category: "source-ac-negation-reference",
+						severity: "info",
+						message: `path: "${truncated}" referenced in source AC inside a negation context (e.g., "(NOT replaced)", "MUST NOT", "deferred to", "documented (NOT", "does NOT replace", "is gitignored") — the AC explicitly directed the dev NOT to deliver/modify this path; treated as reference-only, not a deliverable`
+					});
+					continue;
+				}
 				if (isOperationalPath(clause.text)) {
 					findings.push({
 						category: "source-ac-operational-path-reference",
@@ -6344,4 +6435,4 @@ function registerHealthCommand(program, _version = "0.0.0", projectRoot = proces
 
 //#endregion
 export { BMAD_BASELINE_TOKENS_FULL, DEFAULT_STALL_THRESHOLD_SECONDS, DoltMergeConflict, FileStateStore, FindingsInjector, RunManifest, RuntimeProbeListSchema, STOP_AFTER_VALID_PHASES, STORY_KEY_PATTERN$1 as STORY_KEY_PATTERN, SUBSTRATE_OWNED_SETTINGS_KEYS, SupervisorLock, VALID_PHASES, WorkGraphRepository, ZERO_FINDING_COUNTS, __commonJS, __require, __toESM, applyConfigToGraph, buildPipelineStatusOutput, createDatabaseAdapter$1 as createDatabaseAdapter, createDefaultVerificationPipeline, createGraphOrchestrator, createSdlcCodeReviewHandler, createSdlcCreateStoryHandler, createSdlcDevStoryHandler, createSdlcPhaseHandler, createStateStore, detectCycles, detectsEventDrivenAC, extractTargetFilesFromStoryContent, findPackageRoot, formatOutput, formatPipelineStatusHuman, formatPipelineSummary, formatTokenTelemetry, getAllDescendantPids, getAutoHealthData, getSubstrateDefaultSettings, inspectProcessTree, isOrchestratorProcessLine, parseDbTimestampAsUtc, parseRuntimeProbes, registerHealthCommand, renderFindings, resolveBmadMethodSrcPath, resolveBmadMethodVersion, resolveGraphPath, resolveMainRepoRoot, resolveRunManifest, rollupFindingCounts, runHealthAction, validateStoryKey };
-//# sourceMappingURL=health-R9GiVIiQ.js.map
+//# sourceMappingURL=health-qUCPCz1O.js.map

package/dist/{run-CL1C4M2f.js → run-D2xj574m.js}

@@ -1,8 +1,8 @@
-import "./health-R9GiVIiQ.js";
+import "./health-qUCPCz1O.js";
 import "./logger-KeHncl-f.js";
 import "./helpers-CElYrONe.js";
 import "./dist-VcMmfo2w.js";
-import { normalizeGraphSummaryToStatus, registerRunCommand, resolveMaxReviewCycles, runRunAction, wireNdjsonEmitter } from "./run-Dm70k8bR.js";
+import { normalizeGraphSummaryToStatus, registerRunCommand, resolveMaxReviewCycles, runRunAction, wireNdjsonEmitter } from "./run-Dhxrf7Nj.js";
 import "./routing-CcBOCuC9.js";
 import "./decisions-C0pz9Clx.js";
 

package/dist/{run-Dm70k8bR.js → run-Dhxrf7Nj.js}

@@ -1,4 +1,4 @@
-import { BMAD_BASELINE_TOKENS_FULL, DoltMergeConflict, FileStateStore, FindingsInjector, RunManifest, RuntimeProbeListSchema, STOP_AFTER_VALID_PHASES, STORY_KEY_PATTERN, VALID_PHASES, WorkGraphRepository, __commonJS, __require, __toESM, applyConfigToGraph, buildPipelineStatusOutput, createDatabaseAdapter, createDefaultVerificationPipeline, createGraphOrchestrator, createSdlcCodeReviewHandler, createSdlcCreateStoryHandler, createSdlcDevStoryHandler, createSdlcPhaseHandler, detectCycles, detectsEventDrivenAC, extractTargetFilesFromStoryContent, formatOutput, formatPipelineSummary, formatTokenTelemetry, inspectProcessTree, parseDbTimestampAsUtc, renderFindings, resolveGraphPath, resolveMainRepoRoot, validateStoryKey } from "./health-R9GiVIiQ.js";
+import { BMAD_BASELINE_TOKENS_FULL, DoltMergeConflict, FileStateStore, FindingsInjector, RunManifest, RuntimeProbeListSchema, STOP_AFTER_VALID_PHASES, STORY_KEY_PATTERN, VALID_PHASES, WorkGraphRepository, __commonJS, __require, __toESM, applyConfigToGraph, buildPipelineStatusOutput, createDatabaseAdapter, createDefaultVerificationPipeline, createGraphOrchestrator, createSdlcCodeReviewHandler, createSdlcCreateStoryHandler, createSdlcDevStoryHandler, createSdlcPhaseHandler, detectCycles, detectsEventDrivenAC, extractTargetFilesFromStoryContent, formatOutput, formatPipelineSummary, formatTokenTelemetry, inspectProcessTree, parseDbTimestampAsUtc, renderFindings, resolveGraphPath, resolveMainRepoRoot, validateStoryKey } from "./health-qUCPCz1O.js";
 import { createLogger } from "./logger-KeHncl-f.js";
 import { TypedEventBusImpl, createEventBus, createTuiApp, isTuiCapable, printNonTtyWarning, sleep } from "./helpers-CElYrONe.js";
 import { ADVISORY_NOTES, Categorizer, ConsumerAnalyzer, DEFAULT_GLOBAL_SETTINGS, DispatcherImpl, DoltClient, ESCALATION_DIAGNOSIS, EXPERIMENT_RESULT, EfficiencyScorer, IngestionServer, LogTurnAnalyzer, OPERATIONAL_FINDING, Recommender, RoutingRecommender, RoutingResolver, RoutingTelemetry, RoutingTokenAccumulator, RoutingTuner, STORY_METRICS, STORY_OUTCOME, SubstrateConfigSchema, TEST_EXPANSION_FINDING, TEST_PLAN, TelemetryNormalizer, TelemetryPipeline, TurnAnalyzer, addTokenUsage, aggregateTokenUsageForRun, aggregateTokenUsageForStory, callLLM, createConfigSystem, createDatabaseAdapter$1, createDecision, createPipelineRun, createRequirement, detectInterfaceChanges, getArtifactByTypeForRun, getArtifactsByRun, getDecisionsByCategory, getDecisionsByPhase, getDecisionsByPhaseForRun, getLatestRun, getPipelineRunById, getRunMetrics, getRunningPipelineRuns, getStoryMetricsForRun, getTokenUsageSummary, initSchema, listRequirements, loadModelRoutingConfig, registerArtifact, updatePipelineRun, updatePipelineRunConfig, upsertDecision, writeRunMetrics, writeStoryMetrics } from "./dist-VcMmfo2w.js";
@@ -45151,4 +45151,4 @@ function registerRunCommand(program, _version = "0.0.0", projectRoot = process.c
 
 //#endregion
 export { AdapterTelemetryPersistence, AppError, DoltRepoMapMetaRepository, DoltSymbolRepository, ERR_REPO_MAP_STORAGE_WRITE, EpicIngester, GitClient, GrammarLoader, RepoMapInjector, RepoMapModule, RepoMapQueryEngine, RepoMapStorage, SymbolParser, createContextCompiler, createDispatcher, createEventEmitter, createImplementationOrchestrator, createPackLoader, createPhaseOrchestrator, createStopAfterGate, createTelemetryAdvisor, formatPhaseCompletionSummary, getFactoryRunSummaries, getScenarioResultsForRun, getTwinRunsForRun, listGraphRuns, normalizeGraphSummaryToStatus, registerExportCommand, registerFactoryCommand, registerRunCommand, registerScenariosCommand, resolveMaxReviewCycles, resolveStoryKeys, runAnalysisPhase, runPlanningPhase, runProbeAuthor, runRunAction, runSolutioningPhase, validateStopAfterFromConflict, wireNdjsonEmitter };
-//# sourceMappingURL=run-Dm70k8bR.js.map
+//# sourceMappingURL=run-Dhxrf7Nj.js.map

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "substrate-ai",
-  "version": "0.20.39",
+  "version": "0.20.40",
   "description": "Substrate — multi-agent orchestration daemon for AI coding agents",
   "type": "module",
   "license": "MIT",