@jcode.labs/ragmir 2.6.0 → 2.8.0

package/dist/types.d.ts

@@ -2,6 +2,9 @@ import type { PathLike } from "node:fs";
 import type { PackageManager } from "./package-manager.js";
 export interface Config {
     projectRoot: string;
+    privacyProfile: PrivacyProfile;
+    retrievalProfile: RetrievalProfile;
+    acceptedRisks: string[];
     rawDir: string;
     storageDir: string;
     sourcesFile: string;
@@ -11,6 +14,7 @@ export interface Config {
     tableName: string;
     embeddingProvider: EmbeddingProvider;
     embeddingModel: string;
+    embeddingModelRevision: string;
     transformersAllowRemoteModels: boolean;
     redaction: RedactionConfig;
     accessLog: boolean;
@@ -30,6 +34,8 @@ export interface Config {
     legacyWordCommand: string[];
     legacyWordTimeoutMs: number;
 }
+export type PrivacyProfile = "strict" | "private" | "trusted" | "custom";
+export type RetrievalProfile = "fast" | "balanced" | "quality" | "custom";
 export type AccessLogAction = "ingest" | "search" | "ask" | "research" | "evaluate" | "destroy-index";
 export interface AccessLogUsageOptions {
     cwd?: PathLike;
@@ -44,8 +50,21 @@ export interface AccessLogUsageReport {
     eventsByAction: Record<AccessLogAction, number>;
     uniqueQueryHashes: number;
     averageResultCount: number | null;
+    averageResultCountByAction: Record<AccessLogAction, number | null>;
     lastEventAt: string | null;
 }
+export interface IngestionLimitsReport {
+    maxFileBytes: number;
+    maxFiles: null;
+    maxCorpusBytes: null;
+    maxPdfPages: number;
+    maxPdfTextCharacters: number;
+    maxOfficeTextEntries: number;
+    maxOfficeEntryBytes: number;
+    maxOfficeTotalTextBytes: number;
+    maxExternalTextOutputBytes: number;
+    notes: string[];
+}
 export type EmbeddingProvider = "local-hash" | "transformers";
 /**
  * Manifest written next to the LanceDB table at each ingest. It captures the
@@ -59,10 +78,21 @@ export interface IndexManifest {
     ragmirVersion: string;
     embeddingProvider: EmbeddingProvider;
     embeddingModel: string;
+    indexPolicyFingerprint?: string;
+    vectorDimension?: number;
+    vectorDistanceMetric?: string;
     chunkSize: number;
     chunkOverlap: number;
     fileCount: number;
     chunkCount: number;
+    indexedFiles?: IndexManifestFile[];
+}
+export interface IndexManifestFile {
+    relativePath: string;
+    checksum: string;
+    chunkCount: number;
+    bytes?: number;
+    mtimeMs?: number;
 }
 export interface RedactionConfig {
     enabled: boolean;
@@ -107,6 +137,12 @@ export interface SourceInventory {
 export interface ParsedDocument {
     file: SourceFile;
     text: string;
+    pages?: ParsedPage[];
+}
+export interface ParsedPage {
+    pageNumber: number;
+    charStart: number;
+    charEnd: number;
 }
 export interface TextChunk {
     id: string;
@@ -114,6 +150,12 @@ export interface TextChunk {
     relativePath: string;
     chunkIndex: number;
     text: string;
+    charStart: number;
+    charEnd: number;
+    lineStart: number;
+    lineEnd: number;
+    pageStart?: number;
+    pageEnd?: number;
     checksum: string;
     bytes: number;
     mtimeMs: number;
@@ -130,9 +172,12 @@ export interface IngestOptions {
 export interface IngestResult {
     discoveredFiles: number;
     supportedFiles: number;
+    supportedBytes: number;
+    largestFileBytes: number;
     indexedFiles: number;
     rebuiltFiles: number;
     reusedFiles: number;
+    policyRebuild: boolean;
     chunks: number;
     skippedFiles: number;
     unsupportedFiles: number;
@@ -145,6 +190,7 @@ export interface IngestResult {
     }>;
     redactions: number;
     vectorIndexWarning: string | null;
+    lexicalIndexWarning: string | null;
     errors: Array<{
         path: string;
         message: string;
@@ -153,20 +199,47 @@ export interface IngestResult {
 export interface SearchOptions {
     cwd?: PathLike;
     topK?: number;
+    contextRadius?: number;
+    includePaths?: string[];
+    excludePaths?: string[];
+}
+export interface SearchContextChunk {
+    chunkIndex: number;
+    text: string;
+    charStart: number | null;
+    charEnd: number | null;
+    lineStart: number | null;
+    lineEnd: number | null;
+    pageStart: number | null;
+    pageEnd: number | null;
+    citation: string;
 }
 export interface SearchResult {
     source: string;
     relativePath: string;
     chunkIndex: number;
+    citation: string;
     text: string;
     distance: number | null;
+    charStart: number | null;
+    charEnd: number | null;
+    lineStart: number | null;
+    lineEnd: number | null;
+    pageStart: number | null;
+    pageEnd: number | null;
+    context: SearchContextChunk[];
 }
 export interface CompactSearchResult {
     source: string;
     relativePath: string;
     chunkIndex: number;
+    citation: string;
     snippet: string;
     distance: number | null;
+    lineStart: number | null;
+    lineEnd: number | null;
+    pageStart: number | null;
+    pageEnd: number | null;
 }
 export interface SourceDuplicateCandidate {
     key: string;
@@ -185,13 +258,20 @@ export interface ResearchOptions {
     cwd?: PathLike;
     topK?: number;
     includeCode?: boolean;
+    includePaths?: string[];
+    excludePaths?: string[];
 }
 export interface ResearchEvidence {
     source: string;
     relativePath: string;
     chunkIndex: number;
+    citation: string;
     text: string;
     distance: number | null;
+    lineStart: number | null;
+    lineEnd: number | null;
+    pageStart: number | null;
+    pageEnd: number | null;
     queries: string[];
 }
 export interface CodeEvidence {
@@ -206,8 +286,11 @@ export interface ResearchReport {
     ready: boolean;
     audit: {
         supportedFiles: number;
+        supportedBytes: number;
+        largestFileBytes: number;
         skippedFiles: number;
         unsupportedFiles: number;
+        oversizedFiles: number;
         indexedFiles: number;
         totalChunks: number;
         missingFromIndex: number;
@@ -225,6 +308,9 @@ export interface GoldenQuery {
     id?: string;
     query: string;
     expectedPaths: string[];
+    expectedCitations?: string[];
+    includePaths?: string[];
+    excludePaths?: string[];
     topK?: number;
 }
 export interface EvaluationOptions {
@@ -237,11 +323,21 @@ export interface EvaluationCaseResult {
     id?: string;
     query: string;
     expectedPaths: string[];
+    includePaths?: string[];
+    excludePaths?: string[];
     topK: number;
     returnedPaths: string[];
+    returnedCitations: string[];
     matchedPaths: string[];
+    matchedCitations: string[];
+    expectedCitations?: string[];
     hit: boolean;
     bestRank: number | null;
+    reciprocalRank: number;
+    recall: number;
+    precision: number;
+    ndcg: number;
+    latencyMs: number;
 }
 export interface EvaluationResult {
     goldenPath: string;
@@ -251,7 +347,13 @@ export interface EvaluationResult {
     total: number;
     hits: number;
     misses: number;
+    hitRate: number;
     recall: number;
+    precision: number;
+    meanReciprocalRank: number;
+    ndcg: number;
+    p50LatencyMs: number;
+    p95LatencyMs: number;
     cases: EvaluationCaseResult[];
 }
 export interface AskResult {
@@ -260,6 +362,9 @@ export interface AskResult {
     staleWarning: string | null;
 }
 export interface AuditReport {
+    discoveredFiles: number;
+    supportedBytes: number;
+    largestFileBytes: number;
     indexedFiles: Array<{
         source: string;
         chunks: number;
@@ -293,9 +398,17 @@ export interface DoctorReport {
     transformersAllowRemoteModels: boolean;
     redactionEnabled: boolean;
     accessLog: boolean;
+    privacyProfile: PrivacyProfile;
+    retrievalProfile: RetrievalProfile;
     supportedFiles: number;
+    supportedBytes: number;
+    largestFileBytes: number;
+    maxFileBytes: number;
     skippedFiles: number;
     unsupportedFiles: number;
+    oversizedFiles: number;
+    sensitiveFiles: number;
+    emptyTextFiles: number;
     indexedFiles: number;
     chunksIndexed: number;
     missingFromIndex: number;
@@ -306,14 +419,25 @@ export interface DoctorReport {
         warning: string | null;
     };
     ready: boolean;
+    readiness: {
+        operationalReady: boolean;
+        coverageComplete: boolean;
+        indexPolicyCurrent: boolean;
+        privacyCompliant: boolean;
+        retrievalQualityVerified: boolean;
+        acceptedRisks: string[];
+    };
     nextSteps: string[];
 }
 export interface SecurityAuditReport {
     projectRoot: string;
     zeroTelemetry: true;
+    privacyProfile: PrivacyProfile;
+    retrievalProfile: RetrievalProfile;
     providers: {
         embedding: EmbeddingProvider;
         embeddingModel: string;
+        embeddingModelRevision: string;
         embeddingModelPath: string;
         transformersAllowRemoteModels: boolean;
         llmGeneration: false;
@@ -333,6 +457,13 @@ export interface SecurityAuditReport {
         gitIgnored: boolean;
         encryptedAtRest: "external-required";
     };
+    permissions: {
+        checked: boolean;
+        configPrivate: boolean | null;
+        rawDirPrivate: boolean | null;
+        storageDirPrivate: boolean | null;
+        accessLogPrivate: boolean | null;
+    };
     mcp: {
         maxTopK: number;
         destructiveToolsExposed: false;

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package/dist/version.d.ts

@@ -1,2 +1,2 @@
-export declare const VERSION = "2.6.0";
+export declare const VERSION = "2.8.0";
 //# sourceMappingURL=version.d.ts.map

package/dist/version.js

@@ -1,2 +1,2 @@
-export const VERSION = "2.6.0";
+export const VERSION = "2.8.0";
 //# sourceMappingURL=version.js.map

package/examples/document-evidence-benchmark/.ragmir/config.json

@@ -0,0 +1,22 @@
+{
+  "rawDir": "raw",
+  "storageDir": ".ragmir/storage",
+  "sourcesFile": ".ragmir/sources.txt",
+  "accessLogPath": ".ragmir/access.log",
+  "embeddingModelPath": ".ragmir/models",
+  "tableName": "chunks",
+  "embeddingProvider": "local-hash",
+  "embeddingModel": "intfloat/multilingual-e5-small",
+  "embeddingModelRevision": "main",
+  "transformersAllowRemoteModels": false,
+  "redaction": {
+    "enabled": true,
+    "builtIn": true,
+    "patterns": []
+  },
+  "accessLog": true,
+  "mcpMaxTopK": 10,
+  "topK": 5,
+  "chunkSize": 1800,
+  "chunkOverlap": 120
+}

package/examples/document-evidence-benchmark/README.md

@@ -0,0 +1,36 @@
+# Document Evidence Benchmark
+
+Synthetic document benchmark for Ragmir retrieval. It is intentionally safe to commit: the contract,
+RFP, runbook, spec, and legal/tax notes are fictional and contain no customer data.
+
+This benchmark checks three things:
+
+- `Recall@K`: each query retrieves the expected source file or passage.
+- exact citations: each query retrieves the expected `relative/path:Lx-Ly#chunkIndex` citation.
+- embedded PDF text: the synthetic PDF is extracted and retrieved with an exact
+  `relative/path:p1:Lx-Ly#chunkIndex` page citation.
+
+The corpus is small on purpose so every source file fits in a single chunk. That keeps the expected
+citations deterministic while exercising the same CLI path used for private dogfooding.
+
+## Run From This Repository Checkout
+
+Build Ragmir once from the repository root:
+
+```bash
+pnpm build
+```
+
+Then run the benchmark from this folder:
+
+```bash
+cd packages/ragmir-core/examples/document-evidence-benchmark
+node ../../dist/cli.js init
+node ../../dist/cli.js ingest
+node ../../dist/cli.js evaluate --golden golden-queries.json --json
+node ../../dist/cli.js evaluate --golden golden-queries.json --fail-under 1
+```
+
+Use this example as a public-safe template for private document evaluations. Keep real contracts,
+RFPs, runbooks, tax notes, golden queries, and generated JSON reports outside Git or under ignored
+local Ragmir state.

package/examples/document-evidence-benchmark/golden-queries.json

@@ -0,0 +1,41 @@
+{
+  "topK": 3,
+  "queries": [
+    {
+      "id": "contract-data-export-residency",
+      "query": "MSA client data export residency renewal notice DOCBENCH-MSA-001",
+      "expectedPaths": ["raw/contracts/master-services-agreement.md"],
+      "expectedCitations": ["raw/contracts/master-services-agreement.md:L1-L11#0"]
+    },
+    {
+      "id": "rfp-no-hosted-account",
+      "query": "security questionnaire no hosted account no telemetry read focused MCP",
+      "expectedPaths": ["raw/rfp/security-questionnaire.md"],
+      "expectedCitations": ["raw/rfp/security-questionnaire.md:L1-L12#0"]
+    },
+    {
+      "id": "runbook-evidence-pack",
+      "query": "What runbook evidence must be collected after a payment incident?",
+      "expectedPaths": ["raw/runbooks/incident-response-runbook.md"],
+      "expectedCitations": ["raw/runbooks/incident-response-runbook.md:L1-L11#0"]
+    },
+    {
+      "id": "spec-complements-agent-memory",
+      "query": "agent integration spec complements agent memory conversation state",
+      "expectedPaths": ["raw/specs/agent-integration-spec.md"],
+      "expectedCitations": ["raw/specs/agent-integration-spec.md:L1-L11#0"]
+    },
+    {
+      "id": "legal-tax-professional-review",
+      "query": "legal tax residency review professional review filing positions",
+      "expectedPaths": ["raw/legal-tax/residency-review-note.md"],
+      "expectedCitations": ["raw/legal-tax/residency-review-note.md:L1-L10#0"]
+    },
+    {
+      "id": "pdf-embedded-text-page-citation",
+      "query": "Synthetic confidential PDF",
+      "expectedPaths": ["raw/contracts/pdf-control-evidence.pdf"],
+      "expectedCitations": ["raw/contracts/pdf-control-evidence.pdf:p1:L1-L1#0"]
+    }
+  ]
+}

package/examples/document-evidence-benchmark/raw/contracts/master-services-agreement.md

@@ -0,0 +1,11 @@
+# Synthetic Master Services Agreement
+
+Agreement ID: DOCBENCH-MSA-001. This fictional contract is for retrieval testing only.
+
+The supplier may process implementation notes, support tickets, and project specifications only from
+the customer-designated workstation. Client data exports must remain in the agreed local evidence
+folder and may not be copied to a hosted account without written approval from the customer owner.
+
+Renewal notice window: either party may stop automatic renewal by sending written notice at least
+60 days before the renewal date. The contract owner must attach the local export residency evidence
+to the renewal review.

package/examples/document-evidence-benchmark/raw/contracts/pdf-control-evidence.pdf

@@ -0,0 +1,32 @@
+%PDF-1.4
+1 0 obj
+<< /Type /Catalog /Pages 2 0 R >>
+endobj
+2 0 obj
+<< /Type /Pages /Kids [3 0 R] /Count 1 >>
+endobj
+3 0 obj
+<< /Type /Page /Parent 2 0 R /MediaBox [0 0 612 792] /Resources << /Font << /F1 4 0 R >> >> /Contents 5 0 R >>
+endobj
+4 0 obj
+<< /Type /Font /Subtype /Type1 /BaseFont /Helvetica >>
+endobj
+5 0 obj
+<< /Length 56 >>
+stream
+BT /F1 18 Tf 72 720 Td (Synthetic confidential PDF) Tj ET
+endstream
+endobj
+xref
+0 6
+0000000000 65535 f
+0000000009 00000 n
+0000000058 00000 n
+0000000115 00000 n
+0000000241 00000 n
+0000000311 00000 n
+trailer
+<< /Size 6 /Root 1 0 R >>
+startxref
+418
+%%EOF

package/examples/document-evidence-benchmark/raw/legal-tax/residency-review-note.md

@@ -0,0 +1,10 @@
+# Synthetic Legal And Tax Review Note
+
+Matter: fictional cross-border founder residency review for benchmark testing.
+
+The note compares board minutes, travel calendars, service contracts, and tax residency assumptions.
+It is not legal advice. Professional review is required before relying on residency analysis,
+changing filing positions, or sending a client-facing recommendation.
+
+The cited evidence package must separate facts, assumptions, and uncertainty. Missing documents
+should be listed explicitly instead of filled with model guesses.

package/examples/document-evidence-benchmark/raw/rfp/security-questionnaire.md

@@ -0,0 +1,12 @@
+# Synthetic RFP Security Questionnaire
+
+Question: Does the proposed retrieval layer require a hosted account, product telemetry, or broad
+write access to the repository?
+
+Answer: No hosted account is required. The default mode runs locally with no telemetry. MCP access is
+read-focused: the agent can ask for status, prompt-routing advice, search results, cited answers,
+audits, evaluation results, usage summaries, and security posture, but it does not receive a
+destructive repository tool from Ragmir.
+
+Follow-up: customer-specific evidence stays on disk and is reviewed by a human before an RFP response
+is sent.

package/examples/document-evidence-benchmark/raw/runbooks/incident-response-runbook.md

@@ -0,0 +1,11 @@
+# Synthetic Payment Incident Runbook
+
+Trigger: payment queue latency above the internal threshold for ten minutes.
+
+The on-call engineer opens the local incident template and collects a payment incident evidence pack:
+timeline, customer impact summary, rollback decision, command transcript, and links to cited runbook
+sections. The evidence pack remains under the local Ragmir reports folder until the incident lead
+approves external sharing.
+
+Do not paste raw customer records into an agent prompt. Use cited retrieval snippets and summarize
+uncertainty separately from confirmed evidence.

package/examples/document-evidence-benchmark/raw/specs/agent-integration-spec.md

@@ -0,0 +1,11 @@
+# Synthetic Agent Integration Spec
+
+Goal: let external coding agents use local project evidence without turning Ragmir into another chat
+memory system.
+
+Ragmir complements agent memory. It does not replace the agent conversation state, task plan, or
+native code index. The agent keeps its normal reasoning loop, then calls Ragmir when it needs cited
+evidence from local documents such as contracts, RFPs, runbooks, or specs.
+
+The MCP surface stays read-focused and bounded by topK. This is a security advantage: agents receive
+verifiable passages and audit data without gaining a broad document mutation channel.

package/examples/sovereign-rag-demo/.ragmir/config.json

@@ -6,7 +6,8 @@
   "embeddingModelPath": ".ragmir/models",
   "tableName": "chunks",
   "embeddingProvider": "local-hash",
-  "embeddingModel": "mixedbread-ai/mxbai-embed-xsmall-v1",
+  "embeddingModel": "intfloat/multilingual-e5-small",
+  "embeddingModelRevision": "main",
   "transformersAllowRemoteModels": false,
   "redaction": {
     "enabled": true,

package/examples/sovereign-rag-demo/README.md

@@ -27,6 +27,9 @@ Then run the CLI from this folder:
 
 ```bash
 cd packages/ragmir-core/examples/sovereign-rag-demo
+node ../../dist/cli.js init
+# POSIX only: this example deliberately uses a custom tracked rawDir.
+chmod 700 raw
 node ../../dist/cli.js security-audit
 node ../../dist/cli.js ingest
 node ../../dist/cli.js search "offline retrieval approval"
@@ -39,6 +42,10 @@ node ../../dist/cli.js audit --unsupported
 node ../../dist/cli.js status
 ```
 
+`init` is idempotent here and applies owner-only permissions to the copied `.ragmir` config. The
+example deliberately keeps documents under the custom tracked `raw/` path, so secure that directory
+explicitly on POSIX before a strict audit. Git and package archives cannot encode its `0700` mode.
+
 This example uses `embeddingProvider: "local-hash"`, so it does not require a model runtime.
 Retrieval is lexical/hash-based rather than model-semantic.
 
@@ -68,7 +75,8 @@ To compare no-model retrieval with semantic local retrieval, change `.ragmir/con
 ```json
 {
   "embeddingProvider": "transformers",
-  "embeddingModel": "mixedbread-ai/mxbai-embed-xsmall-v1",
+  "embeddingModel": "intfloat/multilingual-e5-small",
+  "embeddingModelRevision": "main",
   "embeddingModelPath": ".ragmir/models",
   "transformersAllowRemoteModels": false
 }

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@jcode.labs/ragmir",
-  "version": "2.6.0",
+  "version": "2.8.0",
   "description": "Ragmir Core: open-source sovereign local RAG for confidential datasets and AI agents.",
   "type": "module",
   "license": "MIT",
@@ -69,8 +69,8 @@
     "unpdf": "^1.4.0",
     "yaml": "^2.9.0",
     "zod": "^4.1.13",
-    "@jcode.labs/ragmir-chat": "2.6.0",
-    "@jcode.labs/ragmir-tts": "2.6.0"
+    "@jcode.labs/ragmir-tts": "2.8.0",
+    "@jcode.labs/ragmir-chat": "2.8.0"
   },
   "devDependencies": {
     "@types/html-to-text": "^9.0.4",

package/skills/ragmir/SKILL.md

@@ -111,7 +111,8 @@ Optional semantic embedding mode:
 ```json
 {
   "embeddingProvider": "transformers",
-  "embeddingModel": "mixedbread-ai/mxbai-embed-xsmall-v1",
+  "embeddingModel": "intfloat/multilingual-e5-small",
+  "embeddingModelRevision": "main",
   "embeddingModelPath": ".ragmir/models",
   "transformersAllowRemoteModels": false
 }
@@ -149,8 +150,11 @@ pnpm exec rgr status
 has no warnings. Normal `rgr ingest` reuses unchanged rows; use `rgr ingest --rebuild` after changing
 embedding provider/model or chunking settings. `rgr ingest --json` reports `emptyTextFiles` when
 supported files, typically scanned PDFs, produce no indexable text. `rgr doctor` should show
-`ready=true` before relying on the index. The audit must show no missing or stale supported files, and
-the security audit should not show warnings before relying on Ragmir for sensitive work.
+`ready=true` before relying on the index. Empty-text, oversized, missing, or stale coverage keeps it
+false. Run `rgr limits` to inspect the active per-file and parser bounds. There is no fixed file-count
+or total-corpus-byte ceiling, so benchmark large corpora on their target machine. The audit must show
+no missing or stale supported files, and the security audit should not show warnings before relying
+on Ragmir for sensitive work.
 
 Default retrieval is tuned for broader recall (`topK: 8`, `chunkOverlap: 200`). Keep MCP retrieval
 bounded by `mcpMaxTopK`, and raise `--top-k` only when the first results are too narrow.
@@ -181,6 +185,10 @@ Use search when you need exact source passages:
 pnpm exec rgr search "your query"
 ```
 
+Use repeatable `--include-path` and `--exclude-path` filters when primary evidence, research notes,
+or mirror/archive directories must be evaluated separately. The same `includePaths` and
+`excludePaths` arrays are available through MCP and per query in golden evaluation files.
+
 Use research when the user asks for broad context, implementation planning, review preparation, or a
 cross-document audit: