@aegis-scan/core 0.3.0 → 0.7.1

package/dist/config.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"config.d.ts","sourceRoot":"","sources":["../src/config.ts"],"names":[],"mappings":"AAIA,OAAO,KAAK,EAAE,WAAW,EAAiB,MAAM,YAAY,CAAC;AA8C7D;;;GAGG;AACH,MAAM,MAAM,eAAe,GAAG,OAAO,CAAC,IAAI,CAAC,WAAW,EAAE,aAAa,GAAG,MAAM,CAAC,CAAC,CAAC;AA8BjF,wBAAsB,UAAU,CAC9B,WAAW,EAAE,MAAM,EACnB,IAAI,GAAE,WAAW,CAAC,MAAM,CAAU,GACjC,OAAO,CAAC,WAAW,CAAC,CA0CtB"}
+{"version":3,"file":"config.d.ts","sourceRoot":"","sources":["../src/config.ts"],"names":[],"mappings":"AAIA,OAAO,KAAK,EAAE,WAAW,EAAiB,MAAM,YAAY,CAAC;AAuG7D;;;GAGG;AACH,MAAM,MAAM,eAAe,GAAG,OAAO,CAAC,IAAI,CAAC,WAAW,EAAE,aAAa,GAAG,MAAM,CAAC,CAAC,CAAC;AA0CjF,wBAAsB,UAAU,CAC9B,WAAW,EAAE,MAAM,EACnB,IAAI,GAAE,WAAW,CAAC,MAAM,CAAU,GACjC,OAAO,CAAC,WAAW,CAAC,CA4DtB"}

package/dist/config.js

@@ -2,6 +2,31 @@ import * as fs from 'node:fs';
 import * as path from 'node:path';
 import { z } from 'zod';
 import { detectStack } from './detect.js';
+const CweStringSchema = z.string().regex(/^CWE-\d+$/, { message: 'expected CWE-<digits>' });
+const SeverityEnum = z.enum(['blocker', 'critical', 'high', 'medium', 'low', 'info']);
+const CustomSourceSchema = z.object({
+    pattern: z.string().min(1, { message: 'pattern must not be empty' }),
+}).strict();
+const CustomSinkSchema = z.object({
+    pattern: z.string().min(1, { message: 'pattern must not be empty' }),
+    type: z.enum(['call', 'constructor', 'property']).default('call'),
+    cwe: CweStringSchema,
+    severity: SeverityEnum.default('high'),
+    category: z.string().optional(),
+}).strict();
+const CustomSanitizerSchema = z.object({
+    pattern: z.string().min(1, { message: 'pattern must not be empty' }),
+    cwes: z.array(CweStringSchema).min(1, { message: 'sanitizer must neutralize at least one CWE' }),
+}).strict();
+const SuppressionEntrySchema = z.object({
+    file: z.string().min(1, { message: 'file glob must not be empty' }),
+    rule: z.string().optional(),
+    reason: z.string().min(10, { message: 'reason must be at least 10 characters so future readers understand WHY' }),
+}).strict();
+const SuppressionOptionsSchema = z.object({
+    warnUnused: z.boolean().default(true),
+    warnNaked: z.boolean().default(true),
+}).strict();
 const ConfigFileSchema = z.object({
     stack: z.object({
         framework: z.string().optional(),
@@ -20,6 +45,12 @@ const ConfigFileSchema = z.object({
     rules: z.record(z.string()).optional(),
     ignore: z.array(z.string()).optional(),
     target: z.string().optional(),
+    customSources: z.array(CustomSourceSchema).optional(),
+    customSinks: z.array(CustomSinkSchema).optional(),
+    customSanitizers: z.array(CustomSanitizerSchema).optional(),
+    suppressions: z.array(SuppressionEntrySchema).optional(),
+    suppressionOptions: SuppressionOptionsSchema.optional(),
+    allowOverrides: z.boolean().optional(),
 }).strict();
 const DEFAULT_IGNORE = [
     'node_modules',
@@ -43,6 +74,26 @@ const DEFAULT_IGNORE = [
     '.gradle',
     '.idea',
     '.vscode',
+    '.auto-claude',
+    '.claude',
+    '.cursor',
+    '.windsurf',
+    '.codex',
+    '.aider',
+    // Test + benchmark fixtures (v0.7.1): scanning these is almost always
+    // noise — they contain intentionally-vulnerable code OR mocked data.
+    // Users who DO want to scan their tests can override via
+    // aegis.config.json `ignore` (unions with this list) or explicitly
+    // include paths on the CLI.
+    '__tests__',
+    '__test__',
+    'test',
+    'tests',
+    '__mocks__',
+    '__fixtures__',
+    'fixtures',
+    'benchmark',
+    'benchmarks',
 ];
 /**
  * Attempt to load aegis.config.json from the project directory.
@@ -59,12 +110,22 @@ async function loadConfigFile(projectPath) {
             if (result.success) {
                 return result.data;
             }
-            // Validation failed — log warning but don't crash, fall back to auto-detection
-            console.warn(`[aegis] Config validation warning in ${jsonPath}: ${result.error.issues.map((i) => `${i.path.join('.')}: ${i.message}`).join(', ')}. Falling back to auto-detection.`);
+            // Validation failed — escalate to console.error so it doesn't get lost in
+            // CI output noise. The whole config is discarded and auto-detection runs
+            // (the safer default — better than applying a partial config).
+            const details = result.error.issues
+                .map((i) => `  - ${i.path.length > 0 ? i.path.join('.') : '<root>'}: ${i.message}`)
+                .join('\n');
+            console.error(`[aegis] CONFIG REJECTED — ${jsonPath} failed validation.\n` +
+                `Custom rules, suppressions, and all other fields WILL NOT BE APPLIED.\n` +
+                `Issues:\n${details}\n` +
+                `Fix the config file and re-run. Falling back to auto-detection.`);
             return null;
         }
-        catch {
-            // Malformed JSON — fall through
+        catch (err) {
+            // Malformed JSON — also escalate (same problem: user thinks config is applied but isn't)
+            console.error(`[aegis] CONFIG REJECTED — ${jsonPath} is not valid JSON: ${err instanceof Error ? err.message : String(err)}.\n` +
+                `Falling back to auto-detection.`);
         }
     }
     return null;
@@ -105,6 +166,24 @@ export async function loadConfig(projectPath, mode = 'scan') {
         if (fileConfig.target !== undefined) {
             config.target = fileConfig.target;
         }
+        if (fileConfig.customSources !== undefined) {
+            config.customSources = fileConfig.customSources;
+        }
+        if (fileConfig.customSinks !== undefined) {
+            config.customSinks = fileConfig.customSinks;
+        }
+        if (fileConfig.customSanitizers !== undefined) {
+            config.customSanitizers = fileConfig.customSanitizers;
+        }
+        if (fileConfig.suppressions !== undefined) {
+            config.suppressions = fileConfig.suppressions;
+        }
+        if (fileConfig.suppressionOptions !== undefined) {
+            config.suppressionOptions = fileConfig.suppressionOptions;
+        }
+        if (fileConfig.allowOverrides !== undefined) {
+            config.allowOverrides = fileConfig.allowOverrides;
+        }
     }
     return config;
 }

package/dist/config.js.map

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package/dist/index.d.ts

@@ -5,4 +5,7 @@ export { loadConfig, type ConfigFileShape } from './config.js';
 export { Orchestrator } from './orchestrator.js';
 export { exec, commandExists, walkFiles, readFileSafe, clearWalkFilesCache, getChangedFiles, type ExecResult, type ExecOptions } from './utils.js';
 export { getVersion } from './version.js';
+export { parseSuppressions, isSuppressed, getUnusedSuppressions, getNakedSuppressions, type Suppression, } from './suppressions.js';
+export { globToRegex, configSuppressionMatches, applyPipelineSuppressions, type SuppressionStats, } from './suppression-filter.js';
+export { PRECISION_GATES, SCANNER_TIERS, tierOf, gateFor, passesPrecisionGate, type PrecisionTier, } from './precision-tiers.js';
 //# sourceMappingURL=index.d.ts.map

package/dist/index.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":"AAAA,cAAc,YAAY,CAAC;AAC3B,OAAO,EAAE,WAAW,EAAE,MAAM,aAAa,CAAC;AAC1C,OAAO,EAAE,cAAc,EAAE,QAAQ,EAAE,QAAQ,EAAE,gBAAgB,EAAE,MAAM,cAAc,CAAC;AACpF,OAAO,EAAE,UAAU,EAAE,KAAK,eAAe,EAAE,MAAM,aAAa,CAAC;AAC/D,OAAO,EAAE,YAAY,EAAE,MAAM,mBAAmB,CAAC;AACjD,OAAO,EAAE,IAAI,EAAE,aAAa,EAAE,SAAS,EAAE,YAAY,EAAE,mBAAmB,EAAE,eAAe,EAAE,KAAK,UAAU,EAAE,KAAK,WAAW,EAAE,MAAM,YAAY,CAAC;AACnJ,OAAO,EAAE,UAAU,EAAE,MAAM,cAAc,CAAC;AAC1C,OAAO,EACL,iBAAiB,EACjB,YAAY,EACZ,qBAAqB,EACrB,oBAAoB,EACpB,KAAK,WAAW,GACjB,MAAM,mBAAmB,CAAC;AAC3B,OAAO,EACL,WAAW,EACX,wBAAwB,EACxB,yBAAyB,EACzB,KAAK,gBAAgB,GACtB,MAAM,yBAAyB,CAAC;AACjC,OAAO,EACL,eAAe,EACf,aAAa,EACb,MAAM,EACN,OAAO,EACP,mBAAmB,EACnB,KAAK,aAAa,GACnB,MAAM,sBAAsB,CAAC"}

package/dist/index.js

@@ -5,4 +5,7 @@ export { loadConfig } from './config.js';
 export { Orchestrator } from './orchestrator.js';
 export { exec, commandExists, walkFiles, readFileSafe, clearWalkFilesCache, getChangedFiles } from './utils.js';
 export { getVersion } from './version.js';
+export { parseSuppressions, isSuppressed, getUnusedSuppressions, getNakedSuppressions, } from './suppressions.js';
+export { globToRegex, configSuppressionMatches, applyPipelineSuppressions, } from './suppression-filter.js';
+export { PRECISION_GATES, SCANNER_TIERS, tierOf, gateFor, passesPrecisionGate, } from './precision-tiers.js';
 //# sourceMappingURL=index.js.map

package/dist/index.js.map

@@ -1 +1 @@
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+{"version":3,"file":"index.js","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":"AAAA,cAAc,YAAY,CAAC;AAC3B,OAAO,EAAE,WAAW,EAAE,MAAM,aAAa,CAAC;AAC1C,OAAO,EAAE,cAAc,EAAE,QAAQ,EAAE,QAAQ,EAAE,gBAAgB,EAAE,MAAM,cAAc,CAAC;AACpF,OAAO,EAAE,UAAU,EAAwB,MAAM,aAAa,CAAC;AAC/D,OAAO,EAAE,YAAY,EAAE,MAAM,mBAAmB,CAAC;AACjD,OAAO,EAAE,IAAI,EAAE,aAAa,EAAE,SAAS,EAAE,YAAY,EAAE,mBAAmB,EAAE,eAAe,EAAqC,MAAM,YAAY,CAAC;AACnJ,OAAO,EAAE,UAAU,EAAE,MAAM,cAAc,CAAC;AAC1C,OAAO,EACL,iBAAiB,EACjB,YAAY,EACZ,qBAAqB,EACrB,oBAAoB,GAErB,MAAM,mBAAmB,CAAC;AAC3B,OAAO,EACL,WAAW,EACX,wBAAwB,EACxB,yBAAyB,GAE1B,MAAM,yBAAyB,CAAC;AACjC,OAAO,EACL,eAAe,EACf,aAAa,EACb,MAAM,EACN,OAAO,EACP,mBAAmB,GAEpB,MAAM,sBAAsB,CAAC"}

package/dist/orchestrator.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"orchestrator.d.ts","sourceRoot":"","sources":["../src/orchestrator.ts"],"names":[],"mappings":"AACA,OAAO,KAAK,EAAE,OAAO,EAAE,WAAW,EAAE,WAAW,EAAmC,MAAM,YAAY,CAAC;AAcrG,qBAAa,YAAY;IACvB,OAAO,CAAC,QAAQ,CAAiB;IAEjC,QAAQ,CAAC,OAAO,EAAE,OAAO,GAAG,IAAI;IAI1B,GAAG,CAAC,MAAM,EAAE,WAAW,GAAG,OAAO,CAAC,WAAW,CAAC;CA0GrD"}
+{"version":3,"file":"orchestrator.d.ts","sourceRoot":"","sources":["../src/orchestrator.ts"],"names":[],"mappings":"AACA,OAAO,KAAK,EAAE,OAAO,EAAE,WAAW,EAAE,WAAW,EAAmC,MAAM,YAAY,CAAC;AAgBrG,qBAAa,YAAY;IACvB,OAAO,CAAC,QAAQ,CAAiB;IAEjC,QAAQ,CAAC,OAAO,EAAE,OAAO,GAAG,IAAI;IAI1B,GAAG,CAAC,MAAM,EAAE,WAAW,GAAG,OAAO,CAAC,WAAW,CAAC;CA2HrD"}

package/dist/orchestrator.js

@@ -1,4 +1,6 @@
 import { calculateScore } from './scoring.js';
+import { applyPipelineSuppressions } from './suppression-filter.js';
+import { walkFiles } from './utils.js';
 const SCANNER_TIMEOUT_MS = 120_000; // 2 minutes per scanner
 function withTimeout(promise, ms, label) {
     return new Promise((resolve, reject) => {
@@ -72,6 +74,22 @@ export class Orchestrator {
                 return diffSet.has(f.file);
             });
         }
+        // Pipeline-level suppressions — applies to ALL scanners, not just taint-analyzer.
+        // Inline (// aegis-ignore) + Config-level (aegis.config.json suppressions[]).
+        // When warnUnused is enabled, also walk the project for stale suppressions
+        // in files that produced no findings (cheap — pre-filtered by substring).
+        const warnUnused = config.suppressionOptions?.warnUnused !== false;
+        const scannedFiles = warnUnused
+            ? walkFiles(config.projectPath, config.ignore ?? [], ['ts', 'js', 'tsx', 'jsx'])
+            : undefined;
+        const suppressionResult = applyPipelineSuppressions(allFindings, config, scannedFiles);
+        allFindings = suppressionResult.kept;
+        for (const msg of suppressionResult.stats.nakedWarnings) {
+            process.stderr.write(`${msg}\n`);
+        }
+        for (const msg of suppressionResult.stats.unusedWarnings) {
+            process.stderr.write(`${msg}\n`);
+        }
         // Calculate confidence based on SECURITY-focused external tools.
         // npm-audit, react-doctor, license-checker are always available (built-in node tools)
         // and don't indicate real external security tool installation.

package/dist/orchestrator.js.map

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package/dist/precision-tiers.d.ts

@@ -0,0 +1,48 @@
+/**
+ * Precision-Tier Classification for Scanners.
+ *
+ * Different scanner types have different realistic precision ceilings:
+ *   - Pattern-matching on explicit syntax (CSP headers, cookie flags) can hit 85-95%
+ *   - Taint propagation through AST is 70-85% due to inference limits
+ *   - Heuristic "missing X guard" checks are 50-70% because context is fuzzy
+ *
+ * Flat 70% gates would unfairly punish heuristic scanners and be too lax for
+ * pattern ones. This module defines tiered gates, each scanner classified once
+ * and explicitly — no inline code-review arguments about where a scanner belongs.
+ *
+ * Scanners below their tier's gate on the measurement corpus ship as
+ * `--experimental` only (quarantine tier) and don't count toward the overall
+ * precision score.
+ */
+export type PrecisionTier = 'definitive' | 'pattern' | 'taint' | 'heuristic' | 'quarantine';
+/**
+ * Merge-gate per tier. A scanner whose measured precision on the dogfood
+ * corpus is below its gate cannot ship in the default scan output.
+ */
+export declare const PRECISION_GATES: Record<PrecisionTier, number>;
+/**
+ * Explicit scanner → tier mapping.
+ *
+ * NOT classified here (by design):
+ *   - External tool wrappers (semgrep, gitleaks, trivy, …) inherit the tool's
+ *     own precision; AEGIS doesn't re-assess.
+ *   - Runtime probes (auth-probe, race-probe, …) measure live behavior, not
+ *     static precision.
+ *   - Compliance meta-scanners (gdpr-engine, iso27001-checker, …) aggregate
+ *     findings from underlying scanners; precision inherited.
+ *
+ * New scanners MUST be added here before merge. The `tierOf` function returns
+ * undefined for unclassified scanners, which the precision CLI reports as an
+ * error so merge isn't silently possible.
+ */
+export declare const SCANNER_TIERS: Partial<Record<string, PrecisionTier>>;
+/** Look up a scanner's tier. Returns undefined for unclassified/external/probe. */
+export declare function tierOf(scannerName: string): PrecisionTier | undefined;
+/** Return the precision gate for a scanner, or undefined if unclassified. */
+export declare function gateFor(scannerName: string): number | undefined;
+/**
+ * Check whether a measured precision passes the scanner's tier gate.
+ * Returns false if scanner is unclassified (must be explicit before merge).
+ */
+export declare function passesPrecisionGate(scannerName: string, precision: number): boolean;
+//# sourceMappingURL=precision-tiers.d.ts.map

package/dist/precision-tiers.d.ts.map

@@ -0,0 +1 @@
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package/dist/precision-tiers.js

@@ -0,0 +1,111 @@
+/**
+ * Precision-Tier Classification for Scanners.
+ *
+ * Different scanner types have different realistic precision ceilings:
+ *   - Pattern-matching on explicit syntax (CSP headers, cookie flags) can hit 85-95%
+ *   - Taint propagation through AST is 70-85% due to inference limits
+ *   - Heuristic "missing X guard" checks are 50-70% because context is fuzzy
+ *
+ * Flat 70% gates would unfairly punish heuristic scanners and be too lax for
+ * pattern ones. This module defines tiered gates, each scanner classified once
+ * and explicitly — no inline code-review arguments about where a scanner belongs.
+ *
+ * Scanners below their tier's gate on the measurement corpus ship as
+ * `--experimental` only (quarantine tier) and don't count toward the overall
+ * precision score.
+ */
+/**
+ * Merge-gate per tier. A scanner whose measured precision on the dogfood
+ * corpus is below its gate cannot ship in the default scan output.
+ */
+export const PRECISION_GATES = {
+    /** Definitive signal — entropy, known-bad strings. High confidence expected. */
+    definitive: 0.80,
+    /** Syntax-level pattern matching. Clear, objective signal. */
+    pattern: 0.75,
+    /** Taint propagation — inference limits keep this from pattern-level precision. */
+    taint: 0.70,
+    /** Context-heavy heuristics — accept lower precision for harder signal. */
+    heuristic: 0.60,
+    /** Below any tier's gate — ships `--experimental` only, not default scan. */
+    quarantine: 0.0,
+};
+/**
+ * Explicit scanner → tier mapping.
+ *
+ * NOT classified here (by design):
+ *   - External tool wrappers (semgrep, gitleaks, trivy, …) inherit the tool's
+ *     own precision; AEGIS doesn't re-assess.
+ *   - Runtime probes (auth-probe, race-probe, …) measure live behavior, not
+ *     static precision.
+ *   - Compliance meta-scanners (gdpr-engine, iso27001-checker, …) aggregate
+ *     findings from underlying scanners; precision inherited.
+ *
+ * New scanners MUST be added here before merge. The `tierOf` function returns
+ * undefined for unclassified scanners, which the precision CLI reports as an
+ * error so merge isn't silently possible.
+ */
+export const SCANNER_TIERS = {
+    // Definitive (80% gate) — signal is objective, high-confidence
+    'entropy-scanner': 'definitive',
+    'gitleaks': 'definitive',
+    'trufflehog': 'definitive',
+    // Pattern (75% gate) — syntax-level pattern matching
+    'cookie-checker': 'pattern',
+    'cors-checker': 'pattern',
+    'header-checker': 'pattern',
+    'crypto-auditor': 'pattern',
+    'config-auditor': 'pattern',
+    'console-checker': 'pattern',
+    'http-timeout-checker': 'pattern',
+    'jwt-checker': 'pattern',
+    'open-redirect-checker': 'pattern',
+    'redos-checker': 'pattern',
+    'timing-safe-checker': 'pattern',
+    'xss-checker': 'pattern',
+    'error-leakage-checker': 'pattern',
+    'rls-bypass-checker': 'pattern',
+    'rsc-data-checker': 'pattern',
+    'license-checker': 'pattern',
+    // v0.6 additions:
+    'next-public-leak': 'pattern',
+    // Taint (70% gate) — AST-based dataflow
+    'taint-analyzer': 'taint',
+    'sql-concat-checker': 'taint',
+    'ssrf-checker': 'taint',
+    'path-traversal-checker': 'taint',
+    // Heuristic (60% gate) — context-heavy "missing X guard"-style signals
+    'auth-enforcer': 'heuristic',
+    'rate-limit-checker': 'heuristic',
+    'tenant-isolation-checker': 'heuristic',
+    'mass-assignment-checker': 'heuristic',
+    'pagination-checker': 'heuristic',
+    'zod-enforcer': 'heuristic',
+    'csrf-checker': 'heuristic',
+    'env-validation-checker': 'heuristic',
+    'logging-checker': 'heuristic',
+    'upload-validator': 'heuristic',
+    'prompt-injection-checker': 'heuristic',
+    'supply-chain': 'heuristic',
+    'react-doctor': 'heuristic',
+    'dep-confusion-checker': 'heuristic',
+    'i18n-quality': 'heuristic',
+};
+/** Look up a scanner's tier. Returns undefined for unclassified/external/probe. */
+export function tierOf(scannerName) {
+    return SCANNER_TIERS[scannerName];
+}
+/** Return the precision gate for a scanner, or undefined if unclassified. */
+export function gateFor(scannerName) {
+    const tier = tierOf(scannerName);
+    return tier !== undefined ? PRECISION_GATES[tier] : undefined;
+}
+/**
+ * Check whether a measured precision passes the scanner's tier gate.
+ * Returns false if scanner is unclassified (must be explicit before merge).
+ */
+export function passesPrecisionGate(scannerName, precision) {
+    const gate = gateFor(scannerName);
+    return gate !== undefined && precision >= gate;
+}
+//# sourceMappingURL=precision-tiers.js.map

package/dist/precision-tiers.js.map

@@ -0,0 +1 @@
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package/dist/suppression-filter.d.ts

@@ -0,0 +1,38 @@
+import type { AegisConfig, Finding, SuppressionEntry } from './types.js';
+/**
+ * Convert a user-provided glob to a RegExp.
+ *
+ * Supported tokens:
+ *   - `**`       — zero or more path segments (crosses `/`)
+ *   - `*`        — zero or more characters in a single segment (no `/`)
+ *   - `?`        — exactly one character (no `/`)
+ *   - everything else is literal
+ *
+ * Leading `/` in the glob is treated literally (don't confuse absolute paths
+ * — inputs are always POSIX-normalized relative paths inside the orchestrator).
+ */
+export declare function globToRegex(glob: string): RegExp;
+/**
+ * Check whether a config-level suppression entry covers the given finding.
+ */
+export declare function configSuppressionMatches(entry: SuppressionEntry, relPath: string, scannerName: string, cwe: number | undefined): boolean;
+export interface SuppressionStats {
+    suppressedByInline: number;
+    suppressedByConfig: number;
+    nakedWarnings: string[];
+    unusedWarnings: string[];
+}
+/**
+ * Filter findings by suppressions. Returns kept findings + diagnostic stats.
+ * Caller is responsible for emitting nakedWarnings/unusedWarnings if desired.
+ *
+ * @param scannedFiles  Optional list of all files that scanners visited. When
+ *   provided AND `warnUnused !== false`, suppressions in these files are
+ *   checked even if the file produced zero findings (catches stale
+ *   suppressions left behind after refactors).
+ */
+export declare function applyPipelineSuppressions(findings: Finding[], config: AegisConfig, scannedFiles?: string[]): {
+    kept: Finding[];
+    stats: SuppressionStats;
+};
+//# sourceMappingURL=suppression-filter.d.ts.map

package/dist/suppression-filter.d.ts.map

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package/dist/suppression-filter.js

@@ -0,0 +1,147 @@
+/**
+ * Pipeline-level suppression filter.
+ *
+ * Applied by the Orchestrator AFTER all scanners have produced findings and
+ * AFTER dedup. This makes suppressions cross-cutting: they affect every
+ * scanner (auth-enforcer, csrf-checker, header-checker, taint-analyzer, …),
+ * not only the taint-analyzer that originally spoke this DSL.
+ *
+ * Two layers:
+ *   1. Inline  — `// aegis-ignore` comments in source files (finding.line scoped)
+ *   2. Config  — `suppressions[]` in aegis.config.json (file glob + rule scoped)
+ */
+import { relative } from 'node:path';
+import { readFileSafe } from './utils.js';
+import { parseSuppressions, isSuppressed, getUnusedSuppressions, getNakedSuppressions, } from './suppressions.js';
+/**
+ * Convert a user-provided glob to a RegExp.
+ *
+ * Supported tokens:
+ *   - `**`       — zero or more path segments (crosses `/`)
+ *   - `*`        — zero or more characters in a single segment (no `/`)
+ *   - `?`        — exactly one character (no `/`)
+ *   - everything else is literal
+ *
+ * Leading `/` in the glob is treated literally (don't confuse absolute paths
+ * — inputs are always POSIX-normalized relative paths inside the orchestrator).
+ */
+export function globToRegex(glob) {
+    // All transformations use placeholders so that intermediate regex output
+    // (e.g., `.*` from `**`) is not re-matched by later rules (`*` → `[^/]*`).
+    const escaped = glob
+        .replace(/[.+^${}()|[\]\\]/g, '\\$&')
+        .replace(/\/\*\*\//g, '__AEGIS_MIDSTAR__')
+        .replace(/^\*\*\//g, '__AEGIS_PRESTAR__')
+        .replace(/\/\*\*$/g, '__AEGIS_POSTSTAR__')
+        .replace(/\*\*/g, '__AEGIS_DOUBLESTAR__')
+        .replace(/\*/g, '__AEGIS_STAR__')
+        .replace(/\?/g, '__AEGIS_QMARK__')
+        .replace(/__AEGIS_MIDSTAR__/g, '/(?:.+/)?')
+        .replace(/__AEGIS_PRESTAR__/g, '(?:.+/)?')
+        .replace(/__AEGIS_POSTSTAR__/g, '(?:/.+)?')
+        .replace(/__AEGIS_DOUBLESTAR__/g, '.*')
+        .replace(/__AEGIS_STAR__/g, '[^/]*')
+        .replace(/__AEGIS_QMARK__/g, '[^/]');
+    return new RegExp('^' + escaped + '$');
+}
+/**
+ * Check whether a config-level suppression entry covers the given finding.
+ */
+export function configSuppressionMatches(entry, relPath, scannerName, cwe) {
+    if (!globToRegex(entry.file).test(relPath))
+        return false;
+    if (entry.rule === undefined)
+        return true; // catch-all for this file
+    if (entry.rule === scannerName)
+        return true;
+    if (cwe !== undefined) {
+        const m = entry.rule.match(/^CWE-(\d+)$/);
+        if (m && Number.parseInt(m[1], 10) === cwe)
+            return true;
+    }
+    return false;
+}
+/**
+ * Filter findings by suppressions. Returns kept findings + diagnostic stats.
+ * Caller is responsible for emitting nakedWarnings/unusedWarnings if desired.
+ *
+ * @param scannedFiles  Optional list of all files that scanners visited. When
+ *   provided AND `warnUnused !== false`, suppressions in these files are
+ *   checked even if the file produced zero findings (catches stale
+ *   suppressions left behind after refactors).
+ */
+export function applyPipelineSuppressions(findings, config, scannedFiles) {
+    const diagnostics = config.suppressionOptions ?? {};
+    const warnUnused = diagnostics.warnUnused !== false;
+    const warnNaked = diagnostics.warnNaked !== false;
+    const configSups = config.suppressions ?? [];
+    const fileCache = new Map();
+    const warnedNakedFiles = new Set();
+    const stats = {
+        suppressedByInline: 0,
+        suppressedByConfig: 0,
+        nakedWarnings: [],
+        unusedWarnings: [],
+    };
+    const kept = [];
+    function getSups(file) {
+        let sups = fileCache.get(file);
+        if (sups !== undefined)
+            return sups;
+        const content = readFileSafe(file);
+        sups = content ? parseSuppressions(content) : [];
+        fileCache.set(file, sups);
+        if (warnNaked && !warnedNakedFiles.has(file)) {
+            warnedNakedFiles.add(file);
+            for (const naked of getNakedSuppressions(sups)) {
+                stats.nakedWarnings.push(`[aegis] Naked suppression in ${file}:${naked.startLine} — please add a reason after '—' so future readers understand WHY.`);
+            }
+        }
+        return sups;
+    }
+    for (const f of findings) {
+        // Inline suppression — per-file comment, finest granularity
+        if (f.file && f.line !== undefined) {
+            const sups = getSups(f.file);
+            if (isSuppressed(f.line, f.cwe, sups)) {
+                stats.suppressedByInline++;
+                continue;
+            }
+        }
+        // Config-level suppression — glob + rule
+        if (configSups.length > 0) {
+            const relPath = f.file
+                ? relative(config.projectPath, f.file).split('\\').join('/')
+                : '';
+            const match = configSups.some((s) => configSuppressionMatches(s, relPath, f.scanner, f.cwe));
+            if (match) {
+                stats.suppressedByConfig++;
+                continue;
+            }
+        }
+        kept.push(f);
+    }
+    if (warnUnused) {
+        // Scan files that produced zero findings but may still contain
+        // stale `// aegis-ignore` directives. Cheap pre-filter: quick substring
+        // check skips files that certainly have no suppressions.
+        if (scannedFiles) {
+            for (const file of scannedFiles) {
+                if (fileCache.has(file))
+                    continue;
+                const content = readFileSafe(file);
+                if (!content || !content.includes('aegis-ignore'))
+                    continue;
+                fileCache.set(file, parseSuppressions(content));
+            }
+        }
+        for (const [file, sups] of fileCache) {
+            for (const u of getUnusedSuppressions(sups)) {
+                stats.unusedWarnings.push(`[aegis] Unused suppression in ${file}:${u.startLine} — ` +
+                    `${u.cwe ? `CWE-${u.cwe}` : 'catch-all'} never matched a finding. Consider removing it.`);
+            }
+        }
+    }
+    return { kept, stats };
+}
+//# sourceMappingURL=suppression-filter.js.map

package/dist/suppression-filter.js.map

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package/dist/suppressions.d.ts

@@ -0,0 +1,43 @@
+/**
+ * Inline suppression parsing and matching.
+ *
+ * Syntax:
+ *   // aegis-ignore — reason text                    (applies to NEXT line)
+ *   // aegis-ignore CWE-918 — legitimer proxy call   (CWE-specific, next line)
+ *   /* aegis-ignore-block CWE-78 * /                 (applies until aegis-ignore-end)
+ *   /* aegis-ignore-end * /
+ *
+ * A suppression without a CWE is a catch-all for that line.
+ * A suppression WITH a CWE only matches findings with that exact CWE number.
+ * Reason text is recommended (warned if missing/too short).
+ */
+export interface Suppression {
+    /** 1-indexed line where suppression starts applying. */
+    startLine: number;
+    /** 1-indexed line where suppression stops applying (inclusive). */
+    endLine: number;
+    /** Optional specific CWE; undefined = any CWE on this line. */
+    cwe?: number;
+    /** Free-text reason for the suppression. */
+    reason: string;
+    /** Mutable — flipped to true when a finding matched this suppression. */
+    used: boolean;
+    /** Kind for diagnostics. */
+    kind: 'next-line' | 'block';
+}
+/**
+ * Parse suppression directives from source content.
+ * Returns all suppressions found, including orphan block-starts (which are logged
+ * as warnings later).
+ */
+export declare function parseSuppressions(content: string): Suppression[];
+/**
+ * Return true if the given (line, cwe) is covered by any suppression.
+ * Mutates matching suppression's `used` flag.
+ */
+export declare function isSuppressed(findingLine: number | undefined, findingCwe: number | undefined, suppressions: Suppression[]): boolean;
+/** Return the list of suppressions that were never triggered by a finding. */
+export declare function getUnusedSuppressions(suppressions: Suppression[]): Suppression[];
+/** Return suppressions missing a meaningful reason (fewer than 3 non-space chars). */
+export declare function getNakedSuppressions(suppressions: Suppression[]): Suppression[];
+//# sourceMappingURL=suppressions.d.ts.map

package/dist/suppressions.d.ts.map

@@ -0,0 +1 @@
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package/dist/suppressions.js

@@ -0,0 +1,115 @@
+/**
+ * Inline suppression parsing and matching.
+ *
+ * Syntax:
+ *   // aegis-ignore — reason text                    (applies to NEXT line)
+ *   // aegis-ignore CWE-918 — legitimer proxy call   (CWE-specific, next line)
+ *   /* aegis-ignore-block CWE-78 * /                 (applies until aegis-ignore-end)
+ *   /* aegis-ignore-end * /
+ *
+ * A suppression without a CWE is a catch-all for that line.
+ * A suppression WITH a CWE only matches findings with that exact CWE number.
+ * Reason text is recommended (warned if missing/too short).
+ */
+// Accept em-dash (—), en-dash (–), double-dash (--), or single-dash separator.
+// Negative lookahead `(?!-)` prevents `aegis-ignore-block` from matching as a
+// single-line directive with reason="block" (that's what BLOCK_START_RE is for).
+const SINGLE_LINE_RE = /\/\/\s*aegis-ignore(?!-)(?:\s+CWE-(\d+))?\s*(?:[\u2014\u2013]|--|-)?\s*(.*)$/;
+// Block start: /* aegis-ignore-block [CWE-nnn] [— reason] */
+const BLOCK_START_RE = /\/\*\s*aegis-ignore-block(?:\s+CWE-(\d+))?\s*(?:[\u2014\u2013]|--|-)?\s*([^*]*?)\s*\*\//;
+// Block end: /* aegis-ignore-end */
+const BLOCK_END_RE = /\/\*\s*aegis-ignore-end\s*\*\//;
+// Known limitation (v1): these regexes run on raw line text, not TS comment ranges.
+// String literals containing suppression syntax (e.g., `const doc = "// aegis-ignore"`)
+// WILL be matched. Documented — ts.getLeadingCommentRanges migration planned for v2.
+/**
+ * Parse suppression directives from source content.
+ * Returns all suppressions found, including orphan block-starts (which are logged
+ * as warnings later).
+ */
+export function parseSuppressions(content) {
+    const lines = content.split('\n');
+    const suppressions = [];
+    let openBlock = null;
+    for (let i = 0; i < lines.length; i++) {
+        const line = lines[i];
+        const lineNumber = i + 1;
+        if (openBlock) {
+            if (BLOCK_END_RE.test(line)) {
+                suppressions.push({
+                    startLine: openBlock.startLine,
+                    endLine: lineNumber,
+                    cwe: openBlock.cwe,
+                    reason: openBlock.reason,
+                    used: false,
+                    kind: 'block',
+                });
+                openBlock = null;
+            }
+            continue;
+        }
+        const blockMatch = line.match(BLOCK_START_RE);
+        if (blockMatch) {
+            const cwe = blockMatch[1] ? Number.parseInt(blockMatch[1], 10) : undefined;
+            const reason = (blockMatch[2] ?? '').trim();
+            // Same-line close? `/* aegis-ignore-block */ exec(x); /* aegis-ignore-end */`
+            // Search for BLOCK_END_RE in the text AFTER the block-start match.
+            const afterBlockStart = line.slice(blockMatch.index + blockMatch[0].length);
+            if (BLOCK_END_RE.test(afterBlockStart)) {
+                suppressions.push({
+                    startLine: lineNumber,
+                    endLine: lineNumber,
+                    cwe,
+                    reason,
+                    used: false,
+                    kind: 'block',
+                });
+                continue;
+            }
+            openBlock = { startLine: lineNumber, cwe, reason };
+            continue;
+        }
+        const singleMatch = line.match(SINGLE_LINE_RE);
+        if (singleMatch) {
+            const cwe = singleMatch[1] ? Number.parseInt(singleMatch[1], 10) : undefined;
+            const reason = (singleMatch[2] ?? '').trim();
+            // Applies to the NEXT line (common convention — same as eslint-disable-next-line)
+            suppressions.push({
+                startLine: lineNumber + 1,
+                endLine: lineNumber + 1,
+                cwe,
+                reason,
+                used: false,
+                kind: 'next-line',
+            });
+        }
+    }
+    // Orphan block-start (no end) — leave openBlock discarded; caller can check via logs
+    return suppressions;
+}
+/**
+ * Return true if the given (line, cwe) is covered by any suppression.
+ * Mutates matching suppression's `used` flag.
+ */
+export function isSuppressed(findingLine, findingCwe, suppressions) {
+    if (findingLine === undefined)
+        return false;
+    for (const s of suppressions) {
+        if (findingLine < s.startLine || findingLine > s.endLine)
+            continue;
+        if (s.cwe !== undefined && s.cwe !== findingCwe)
+            continue;
+        s.used = true;
+        return true;
+    }
+    return false;
+}
+/** Return the list of suppressions that were never triggered by a finding. */
+export function getUnusedSuppressions(suppressions) {
+    return suppressions.filter((s) => !s.used);
+}
+/** Return suppressions missing a meaningful reason (fewer than 3 non-space chars). */
+export function getNakedSuppressions(suppressions) {
+    return suppressions.filter((s) => s.reason.replace(/\s/g, '').length < 3);
+}
+//# sourceMappingURL=suppressions.js.map

package/dist/suppressions.js.map

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package/dist/types.d.ts

@@ -14,6 +14,49 @@ export interface Finding {
     owasp?: string;
     cwe?: number;
     reference?: string;
+    /**
+     * True when the finding is about the file AS A WHOLE, not a specific line
+     * (e.g., "this route file lacks an auth guard", "this config lacks a CSP").
+     * Scanners that emit such findings conventionally set `line: 1`, but the
+     * precision-CLI fingerprint must not depend on source context near line 1 —
+     * that context shifts when unrelated edits are made above.
+     *
+     * Set this to `true` on file-level emit sites. The precision CLI uses it to
+     * short-circuit context-window hashing in favor of a stable
+     * `scanner|file|title` identity that survives arbitrary line-drift.
+     *
+     * Optional (backward-compat). Undefined / false means "per-line finding" —
+     * the default behavior remains unchanged.
+     */
+    fileLevel?: boolean;
+    /**
+     * v0.7 Phase 2: true when the finding spans a cross-module call — the
+     * sink was reached via a summary of an exported function declared in a
+     * different file from the one containing the taint source. Consumers
+     * (SARIF reporter, precision CLI) treat this as a signal to emit
+     * `relatedLocations` pointing at {@link crossFileOrigin}.
+     */
+    crossFile?: boolean;
+    /**
+     * v0.7 Phase 2: absolute path of the file declaring the cross-file
+     * function that triggered the finding. Present only when `crossFile:
+     * true`. The SARIF reporter emits this as a `relatedLocations` entry
+     * so GitHub Code Scanning, Azure DevOps, and other SARIF consumers can
+     * jump to the cross-module origin of the vulnerability.
+     */
+    crossFileOrigin?: string;
+    /**
+     * v0.7 Phase 5 calibration lever: per-finding confidence tier,
+     * distinct from the scan-level `AuditResult.confidence`. Scanners
+     * opt in when a finding class has measurement uncertainty that isn't
+     * captured by severity alone. Cross-file findings in v0.7 set
+     * `confidence: 'medium'` pending the n≥20 dogfood measurement that
+     * v0.8 targets — the sample size in the v0.7 pre-tag dogfood (n=2)
+     * was below the plan §3 TBD-3 threshold, so the FP-rate zone is
+     * unmeasurable, not failed. Default (undefined / absent) continues
+     * to mean "scanner's default confidence tier (typically high)".
+     */
+    confidence?: Confidence;
 }
 export interface ScanResult {
     scanner: string;
@@ -42,6 +85,55 @@ export interface DetectedStack {
     hasI18n: boolean;
     hasTests: boolean;
 }
+/**
+ * User-defined taint source (extends built-in TAINT_SOURCES).
+ * Pattern is the exact expression prefix — e.g., `internalCtx.userInput`.
+ */
+export interface CustomSource {
+    pattern: string;
+}
+/**
+ * User-defined sink.
+ * `type` selects which sink registry to extend (call / constructor / property).
+ * `cwe` is required — without it the scanner cannot report a meaningful finding.
+ */
+export interface CustomSink {
+    pattern: string;
+    type?: 'call' | 'constructor' | 'property';
+    cwe: string;
+    severity?: Severity;
+    category?: string;
+}
+/**
+ * User-defined sanitizer — neutralizes taint for the listed CWEs.
+ * If `cwes` is empty, the sanitizer is treated as blocking ALL taint classes.
+ */
+export interface CustomSanitizer {
+    pattern: string;
+    cwes: string[];
+}
+/**
+ * Config-level suppression — glob-matched file filter.
+ * Applies before inline `// aegis-ignore` runs, so this is the coarser layer.
+ */
+export interface SuppressionEntry {
+    /** Glob pattern, relative to projectPath (e.g., `src/legacy/**`). */
+    file: string;
+    /** Optional CWE (`CWE-918`) or scanner-id (`taint-analyzer`) filter. */
+    rule?: string;
+    /** Required — why this suppression exists. */
+    reason: string;
+}
+/**
+ * Options for the inline suppression diagnostic layer.
+ * Controls whether unused/naked suppressions warn on stderr.
+ */
+export interface SuppressionOptions {
+    /** Default true — log a warning for each suppression that never matched. */
+    warnUnused?: boolean;
+    /** Default true — log a warning for suppressions without a reason. */
+    warnNaked?: boolean;
+}
 export interface AegisConfig {
     projectPath: string;
     stack: DetectedStack;
@@ -54,6 +146,18 @@ export interface AegisConfig {
     mode: 'scan' | 'audit' | 'pentest' | 'siege' | 'fortress';
     /** When set, only report findings for files in this list (diff mode). Absolute paths. */
     diffFiles?: string[];
+    /** User-defined taint sources extending built-in TAINT_SOURCES. */
+    customSources?: CustomSource[];
+    /** User-defined sinks extending built-in TAINT_SINKS/CONSTRUCTOR_SINKS/PROPERTY_SINKS. */
+    customSinks?: CustomSink[];
+    /** User-defined sanitizers extending built-in TAINT_SANITIZER_DEFS. */
+    customSanitizers?: CustomSanitizer[];
+    /** Config-level file/rule suppressions (coarse layer; complements inline `// aegis-ignore`). */
+    suppressions?: SuppressionEntry[];
+    /** Controls stderr diagnostic output for inline suppressions. */
+    suppressionOptions?: SuppressionOptions;
+    /** Opt-in override of built-in security defaults (e.g., PARSE_NOT_SANITIZER). Default false. */
+    allowOverrides?: boolean;
 }
 export type Grade = 'S' | 'A' | 'B' | 'C' | 'D' | 'F';
 export type Badge = 'FORTRESS' | 'HARDENED' | 'SOLID' | 'NEEDS_WORK' | 'AT_RISK' | 'CRITICAL';

package/dist/types.d.ts.map

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package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@aegis-scan/core",
-  "version": "0.3.0",
+  "version": "0.7.1",
   "license": "MIT",
   "repository": {
     "type": "git",