oh-my-second-brain 0.1.8 → 0.2.0

package/dist/engine/wiki/lint.js

@@ -1,186 +0,0 @@
-/**
- * Astro-Han 2-tier lint (MIT — idea absorption only).
- *
- * Auto-fix tier (runs automatically, mutates wiki/ files):
- *   - index consistency: concept present in wiki/ but absent from index.md
- *   - internal-link correctness: broken [[wikilinks]] flagged
- *   - See-Also sections: added if missing
- *
- * Report-only tier (reports to return value; NO autofix without forceHumanGate):
- *   - factual contradictions typed as:
- *     "> **Conflict:** A claims X; B claims Y. Unresolved."
- *   - orphan pages (in ledger as ORPHAN state)
- *   - outdated refs (DIRTY pages in the ledger)
- *
- * Mutation policy: report-only findings are NEVER auto-fixed unless the caller
- * explicitly sets forceHumanGate: true. This is the human-gate flag.
- */
-import { readdir, readFile, writeFile } from "node:fs/promises";
-import path from "node:path";
-import { extractWikilinks } from "./collection.js";
-import { indexPath } from "./navigation.js";
-// ---------------------------------------------------------------------------
-// Auto-fix tier
-// ---------------------------------------------------------------------------
-/**
- * Fix index.md to include all wiki pages present in wikiDir.
- * Appends missing entries — does not reorder existing content.
- */
-async function fixIndexConsistency(wikiDir) {
-    const findings = [];
-    let files = [];
-    try {
-        files = await readdir(wikiDir);
-    }
-    catch {
-        return findings;
-    }
-    const pages = files.filter((f) => f.endsWith(".md") && f !== "index.md" && f !== "log.md");
-    let indexContent = "";
-    try {
-        indexContent = await readFile(indexPath(wikiDir), "utf8");
-    }
-    catch {
-        // index.md missing — regeneration (not lint) handles creation; skip
-        return findings;
-    }
-    const missing = [];
-    for (const page of pages) {
-        const name = path.basename(page, ".md");
-        if (!indexContent.includes(`[[${name}]]`)) {
-            missing.push(name);
-        }
-    }
-    if (missing.length > 0) {
-        const additions = missing.map((name) => `- [[${name}]]`).join("\n");
-        await writeFile(indexPath(wikiDir), indexContent.trimEnd() + "\n" + additions + "\n", "utf8");
-        for (const name of missing) {
-            findings.push({
-                tier: "auto-fix",
-                kind: "index-inconsistency",
-                pageId: `wiki/${name}.md`,
-                message: `Added missing [[${name}]] to index.md`,
-            });
-        }
-    }
-    return findings;
-}
-/**
- * Flag broken [[wikilinks]] in each wiki page; add missing See-Also sections.
- */
-async function fixLinksAndSeeAlso(wikiDir) {
-    const findings = [];
-    let files = [];
-    try {
-        files = await readdir(wikiDir);
-    }
-    catch {
-        return findings;
-    }
-    const pages = files.filter((f) => f.endsWith(".md") && f !== "index.md" && f !== "log.md");
-    const pageNames = new Set(pages.map((f) => path.basename(f, ".md")));
-    for (const file of pages) {
-        const filePath = path.join(wikiDir, file);
-        let content;
-        try {
-            content = await readFile(filePath, "utf8");
-        }
-        catch {
-            continue;
-        }
-        // Broken links — report (auto-fix tier flags them; actual fix is a recompile)
-        for (const link of extractWikilinks(content)) {
-            const name = link.replace(/\.md$/, "");
-            if (!pageNames.has(name)) {
-                findings.push({
-                    tier: "auto-fix",
-                    kind: "broken-link",
-                    pageId: `wiki/${file}`,
-                    message: `Broken link [[${link}]] — target page not found in wiki/`,
-                });
-            }
-        }
-        // Missing See-Also section — auto-add
-        if (!content.includes("## See Also") &&
-            !content.includes("## See-Also")) {
-            const updated = content.trimEnd() + "\n\n## See Also\n\n";
-            await writeFile(filePath, updated, "utf8");
-            findings.push({
-                tier: "auto-fix",
-                kind: "missing-see-also",
-                pageId: `wiki/${file}`,
-                message: `Added missing See-Also section to ${file}`,
-            });
-        }
-    }
-    return findings;
-}
-// ---------------------------------------------------------------------------
-// Report-only tier
-// ---------------------------------------------------------------------------
-function reportConflicts(ledger) {
-    const findings = [];
-    for (const [conceptId, entry] of Object.entries(ledger)) {
-        if (entry.state === "CONFLICT") {
-            const note = entry.conflictNote ?? "conflicting sources detected";
-            findings.push({
-                tier: "report-only",
-                kind: "factual-contradiction",
-                pageId: conceptId,
-                message: `> **Conflict:** ${note}. Unresolved.`,
-            });
-        }
-    }
-    return findings;
-}
-function reportOrphans(ledger) {
-    const findings = [];
-    for (const [conceptId, entry] of Object.entries(ledger)) {
-        if (entry.state === "ORPHAN") {
-            findings.push({
-                tier: "report-only",
-                kind: "orphan-page",
-                pageId: conceptId,
-                message: `Orphan page ${conceptId} has no incoming wikilinks`,
-            });
-        }
-    }
-    return findings;
-}
-function reportOutdatedRefs(ledger) {
-    const findings = [];
-    for (const [conceptId, entry] of Object.entries(ledger)) {
-        if (entry.state === "DIRTY") {
-            findings.push({
-                tier: "report-only",
-                kind: "outdated-ref",
-                pageId: conceptId,
-                message: `Page ${conceptId} is DIRTY — sources changed since last compile`,
-            });
-        }
-    }
-    return findings;
-}
-/**
- * Run all lint checks.
- *
- * Auto-fix tier mutates wiki/ files automatically.
- * Report-only tier returns findings but does NOT mutate anything unless
- * forceHumanGate is true (currently reserved — no report-only autofix implemented).
- */
-export async function runLint(opts) {
-    const { wikiDir, ledger } = opts;
-    // Auto-fix passes
-    const autoFixed = [
-        ...(await fixIndexConsistency(wikiDir)),
-        ...(await fixLinksAndSeeAlso(wikiDir)),
-    ];
-    // Report-only passes
-    const reported = [
-        ...reportConflicts(ledger),
-        ...reportOrphans(ledger),
-        ...reportOutdatedRefs(ledger),
-    ];
-    return { autoFixed, reported };
-}
-//# sourceMappingURL=lint.js.map

package/dist/engine/wiki/lint.js.map

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package/dist/engine/wiki/navigation.d.ts

@@ -1,40 +0,0 @@
-/**
- * Karpathy navigation surfaces.
- *
- * wiki/index.md — global catalog, regenerated from scratch after every compile run.
- * wiki/log.md   — append-only compile log: "## [YYYY-MM-DD] compile | ConceptName"
- *
- * Both files are ALWAYS written before the collection owner returns.
- *
- * Date is an injected/parameter value — pass a NowFn so tests are deterministic.
- * Never call Date.now() or new Date() inline inside these functions.
- *
- * Idea absorption: Karpathy wiki gist (no license declared) — navigation conventions only.
- */
-import type { NowFn } from "./types.js";
-export declare function indexPath(wikiDir: string): string;
-export declare function logPath(wikiDir: string): string;
-/**
- * Regenerate wiki/index.md as a global concept catalog.
- *
- * Replaces the file completely each call — callers pass the full sorted
- * concept list so the index always reflects current wiki state.
- *
- * @param wikiDir    - Absolute path to the wiki/ directory.
- * @param conceptIds - Sorted list of concept IDs to include.
- * @param now        - Injected clock returning ISO-8601 string.
- */
-export declare function regenerateIndex(wikiDir: string, conceptIds: readonly string[], now: NowFn): Promise<void>;
-/**
- * Append an entry to wiki/log.md.
- *
- * Format per line: "## [YYYY-MM-DD] compile | ConceptName"
- *
- * Log is append-only — never overwrites or truncates existing content.
- * Creates the file on first call.
- *
- * @param wikiDir     - Absolute path to the wiki/ directory.
- * @param conceptName - Human-readable concept name.
- * @param now         - Injected clock returning ISO-8601 string.
- */
-export declare function appendLog(wikiDir: string, conceptName: string, now: NowFn): Promise<void>;

package/dist/engine/wiki/navigation.js

@@ -1,83 +0,0 @@
-/**
- * Karpathy navigation surfaces.
- *
- * wiki/index.md — global catalog, regenerated from scratch after every compile run.
- * wiki/log.md   — append-only compile log: "## [YYYY-MM-DD] compile | ConceptName"
- *
- * Both files are ALWAYS written before the collection owner returns.
- *
- * Date is an injected/parameter value — pass a NowFn so tests are deterministic.
- * Never call Date.now() or new Date() inline inside these functions.
- *
- * Idea absorption: Karpathy wiki gist (no license declared) — navigation conventions only.
- */
-import { mkdir, readFile, writeFile } from "node:fs/promises";
-import path from "node:path";
-// ---------------------------------------------------------------------------
-// File paths (exported for use by lint.ts)
-// ---------------------------------------------------------------------------
-export function indexPath(wikiDir) {
-    return path.join(wikiDir, "index.md");
-}
-export function logPath(wikiDir) {
-    return path.join(wikiDir, "log.md");
-}
-// ---------------------------------------------------------------------------
-// Index — regenerated after every compile run
-// ---------------------------------------------------------------------------
-/**
- * Regenerate wiki/index.md as a global concept catalog.
- *
- * Replaces the file completely each call — callers pass the full sorted
- * concept list so the index always reflects current wiki state.
- *
- * @param wikiDir    - Absolute path to the wiki/ directory.
- * @param conceptIds - Sorted list of concept IDs to include.
- * @param now        - Injected clock returning ISO-8601 string.
- */
-export async function regenerateIndex(wikiDir, conceptIds, now) {
-    await mkdir(wikiDir, { recursive: true });
-    const date = now().slice(0, 10); // YYYY-MM-DD
-    const lines = [
-        `# Wiki Index`,
-        ``,
-        `> Generated: ${date}`,
-        ``,
-        `## Concepts`,
-        ``,
-    ];
-    for (const id of conceptIds) {
-        const name = path.basename(id, ".md");
-        lines.push(`- [[${name}]]`);
-    }
-    await writeFile(indexPath(wikiDir), lines.join("\n") + "\n", "utf8");
-}
-// ---------------------------------------------------------------------------
-// Log — append-only
-// ---------------------------------------------------------------------------
-/**
- * Append an entry to wiki/log.md.
- *
- * Format per line: "## [YYYY-MM-DD] compile | ConceptName"
- *
- * Log is append-only — never overwrites or truncates existing content.
- * Creates the file on first call.
- *
- * @param wikiDir     - Absolute path to the wiki/ directory.
- * @param conceptName - Human-readable concept name.
- * @param now         - Injected clock returning ISO-8601 string.
- */
-export async function appendLog(wikiDir, conceptName, now) {
-    await mkdir(wikiDir, { recursive: true });
-    const date = now().slice(0, 10); // YYYY-MM-DD
-    const entry = `## [${date}] compile | ${conceptName}\n`;
-    let existing = "";
-    try {
-        existing = await readFile(logPath(wikiDir), "utf8");
-    }
-    catch {
-        // File doesn't exist yet — start fresh
-    }
-    await writeFile(logPath(wikiDir), existing + entry, "utf8");
-}
-//# sourceMappingURL=navigation.js.map

package/dist/engine/wiki/navigation.js.map

@@ -1 +0,0 @@
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package/dist/engine/wiki/types.d.ts

@@ -1,54 +0,0 @@
-/**
- * Wiki-local types for M3.
- *
- * LOCAL to src/engine/wiki/. Do NOT add to any shared types file.
- */
-/**
- * 5-state staleness FSM for wiki pages.
- *
- * Transitions:
- *   source SHA change  → DIRTY
- *   compile produces page → CLEAN
- *   referenced page has no compile output → STUB
- *   page with no incoming links → ORPHAN
- *   two compile sources produce conflicting content → CONFLICT
- *
- * Full-rebuild escape hatch: delete .llmwiki/staleness.json → every page resets to DIRTY.
- */
-export type StalenessState = "CLEAN" | "DIRTY" | "STUB" | "ORPHAN" | "CONFLICT";
-/** Per-concept ledger entry. */
-export interface LedgerEntry {
-    state: StalenessState;
-    /** ISO-8601 timestamp of the last state transition. */
-    updatedAt: string;
-    /** Conflict description — set only for CONFLICT state. */
-    conflictNote?: string;
-}
-/** The full staleness ledger, persisted as JSON. */
-export type StalenessLedger = Record<string, LedgerEntry>;
-/** Result of processing a cascade's affected backlinks. */
-export interface CascadeFlipResult {
-    /** Concept IDs that were flipped from CLEAN to DIRTY. */
-    flipped: string[];
-}
-/** Result of a link-graph closure check. */
-export interface LinkClosureResult {
-    /** Wikilinks that point to pages without compile output in wiki/. */
-    dangling: string[];
-    /** True if all wikilinks resolve to existing pages. */
-    closed: boolean;
-}
-export type LintTier = "auto-fix" | "report-only";
-export type LintKind = "index-inconsistency" | "broken-link" | "missing-see-also" | "factual-contradiction" | "outdated-ref" | "orphan-page";
-export interface LintFinding {
-    tier: LintTier;
-    kind: LintKind;
-    pageId: string;
-    message: string;
-}
-export interface LintResult {
-    autoFixed: LintFinding[];
-    reported: LintFinding[];
-}
-/** Injected clock function — returns ISO-8601 string. Never call Date.now() directly. */
-export type NowFn = () => string;

package/dist/engine/wiki/types.js

@@ -1,7 +0,0 @@
-/**
- * Wiki-local types for M3.
- *
- * LOCAL to src/engine/wiki/. Do NOT add to any shared types file.
- */
-export {};
-//# sourceMappingURL=types.js.map

package/dist/engine/wiki/types.js.map

@@ -1 +0,0 @@
-{"version":3,"file":"types.js","sourceRoot":"","sources":["../../../src/engine/wiki/types.ts"],"names":[],"mappings":"AAAA;;;;GAIG"}

package/dist/ontology/loader.d.ts

@@ -1,13 +0,0 @@
-import type { Ontology } from "./types.js";
-/**
- * Load an Oh My Second Brain ontology from a directory that contains:
- *   <ontologyDir>/taxonomy.yaml
- *   <ontologyDir>/concepts/*.yaml
- *
- * Lenient:
- * - Missing `taxonomy.version` defaults to 0.
- * - A taxonomy folder that references an unknown concept name is warned and skipped.
- * - Missing optional concept keys default sensibly.
- * - Never throws (barring genuine I/O errors).
- */
-export declare function loadOntology(ontologyDir: string): Promise<Ontology>;

package/dist/ontology/loader.js.map

@@ -1 +0,0 @@
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package/dist/ontology/resolver.d.ts

@@ -1,13 +0,0 @@
-import type { Concept, Ontology } from "./types.js";
-/**
- * Resolve the Concept for a note given its path relative to the vault root.
- *
- * Pure function. Takes the FIRST path segment as the folder key, looks it up
- * in the taxonomy, then resolves the concept by name from the ontology map.
- *
- * Returns `undefined` when:
- * - the folder is not declared in the taxonomy, or
- * - the binding's concept is null, or
- * - no matching concept exists in the ontology.
- */
-export declare function resolveConcept(ontology: Ontology, notePath: string): Concept | undefined;

package/dist/ontology/resolver.js.map

@@ -1 +0,0 @@
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package/dist/ontology/types.d.ts

@@ -1,72 +0,0 @@
-/**
- * Oh My Second Brain convention format — the semantic ontology, adapted from ouroboros.
- *
- * A vault's convention is declarative data the user owns (lives in `vault/.oms/`).
- * Oh My Second Brain ships defaults in `core/ontology/` and enforces whatever the user declares.
- *
- * The format is deliberately semantic, not structural: every concept and folder
- * carries a declared `intent` so a host agent reads *why* knowledge lives somewhere,
- * not just *where*. "The folder itself is information."
- */
-/** Supported scalar/collection kinds for a frontmatter field. */
-export type FieldType = "string" | "url" | "date" | "list" | "number" | "boolean";
-/** Optional normalization applied to a field value before/at validation. */
-export type Normalize = "kebab" | "lower" | "trim";
-/**
- * One frontmatter key, modeled on ouroboros's `OntologyField`.
- * Each field is itself a unit of convention — users grow a convention field-by-field.
- */
-export interface OntologyField {
-    /** The frontmatter key name. */
-    name: string;
-    /** Value kind. */
-    type: FieldType;
-    /** Whether the key must be present and non-empty. Defaults to false. */
-    required?: boolean;
-    /** Semantic intent: what this field is FOR (ouroboros `description`). */
-    intent: string;
-    /** Optional value normalization for list/string fields. */
-    normalize?: Normalize;
-    /** If true, the field must not change once written (advisory in v0). */
-    immutable?: boolean;
-}
-/**
- * A pre-declared, named retrieval view — NOT a query filter.
- * Mirrors ouroboros's `OntologyLens`: a concept declares which fields matter
- * for which retrieval purpose (e.g. `synthesis`, `audit`).
- */
-export interface OntologyLens {
-    name: string;
-    /** When this lens should be activated during retrieval. */
-    intent: string;
-    /** Subset of the concept's field names surfaced by this lens. */
-    fields: string[];
-}
-/** A note-type carrying explicit intent, its fields, lenses, and folder binding. */
-export interface Concept {
-    /** Concept identifier (e.g. `literature`). */
-    concept: string;
-    /** What this knowledge is FOR. */
-    intent: string;
-    /** Folder this concept is bound to (relative to vault root). */
-    folder: string;
-    fields: OntologyField[];
-    lenses?: OntologyLens[];
-}
-/** Per-folder declaration: a folder is information, so it declares its intent. */
-export interface FolderBinding {
-    /** Why this folder exists / what kind of knowledge it holds. */
-    intent: string;
-    /** Concept name(s) bound here, or null when not yet assigned (e.g. `inbox`). */
-    concept: string | string[] | null;
-}
-/** Folder ↔ concept map with per-folder intent. */
-export interface Taxonomy {
-    version: number;
-    folders: Record<string, FolderBinding>;
-}
-/** A fully loaded convention: the taxonomy plus every concept, keyed by name. */
-export interface Ontology {
-    taxonomy: Taxonomy;
-    concepts: Map<string, Concept>;
-}

package/dist/ontology/types.js

@@ -1,12 +0,0 @@
-/**
- * Oh My Second Brain convention format — the semantic ontology, adapted from ouroboros.
- *
- * A vault's convention is declarative data the user owns (lives in `vault/.oms/`).
- * Oh My Second Brain ships defaults in `core/ontology/` and enforces whatever the user declares.
- *
- * The format is deliberately semantic, not structural: every concept and folder
- * carries a declared `intent` so a host agent reads *why* knowledge lives somewhere,
- * not just *where*. "The folder itself is information."
- */
-export {};
-//# sourceMappingURL=types.js.map

package/dist/ontology/types.js.map

@@ -1 +0,0 @@
-{"version":3,"file":"types.js","sourceRoot":"","sources":["../../src/ontology/types.ts"],"names":[],"mappings":"AAAA;;;;;;;;;GASG"}

package/dist/retrieve/embedding-sync.d.ts

@@ -1,3 +0,0 @@
-import { type SemanticEmbeddingSyncResult } from "../search/semantic.js";
-import type { MorningRetrieveOptions } from "./morning.js";
-export declare function syncRetrieveEmbeddings(opts: MorningRetrieveOptions): Promise<SemanticEmbeddingSyncResult | undefined>;

package/dist/retrieve/embedding-sync.js

@@ -1,21 +0,0 @@
-import { syncSemanticEmbeddingStore } from "../search/semantic.js";
-export async function syncRetrieveEmbeddings(opts) {
-    if (opts.semantic?.syncBeforeSearch !== true)
-        return undefined;
-    return syncSemanticEmbeddingStore({
-        vault: opts.vault,
-        collection: opts.semantic.collection,
-        ensureCollection: opts.semantic.syncEnsureCollection,
-        update: opts.semantic.syncUpdate,
-        embed: opts.semantic.syncEmbed,
-        force: opts.semantic.syncForce,
-        pull: opts.semantic.syncPull,
-        index: opts.semantic.index,
-        storage: opts.semantic.syncStorage ?? opts.semantic.storage,
-        modelPath: opts.semantic.syncModelPath ?? opts.semantic.modelPath,
-        chunkStrategy: opts.semantic.chunkStrategy,
-        maxDocsPerBatch: opts.semantic.syncMaxDocsPerBatch,
-        maxBatchMb: opts.semantic.syncMaxBatchMb,
-    });
-}
-//# sourceMappingURL=embedding-sync.js.map

package/dist/retrieve/embedding-sync.js.map

@@ -1 +0,0 @@
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package/dist/runtime/assets.d.ts

@@ -1,7 +0,0 @@
-export interface BundledAssetPaths {
-    readonly packageRoot: string;
-    readonly ontologyDir: string;
-    readonly adapterRoot: string;
-    readonly claudeAdapterDir: string;
-}
-export declare function resolveBundledAssetPaths(moduleUrl?: string): BundledAssetPaths;

package/dist/runtime/assets.js

@@ -1,13 +0,0 @@
-import path from "node:path";
-import { fileURLToPath } from "node:url";
-export function resolveBundledAssetPaths(moduleUrl = import.meta.url) {
-    const modulePath = fileURLToPath(moduleUrl);
-    const packageRoot = path.resolve(path.dirname(modulePath), "../..");
-    return {
-        packageRoot,
-        ontologyDir: path.join(packageRoot, "core", "ontology"),
-        adapterRoot: path.join(packageRoot, "adapters"),
-        claudeAdapterDir: path.join(packageRoot, "adapters", "claude-code"),
-    };
-}
-//# sourceMappingURL=assets.js.map

package/dist/runtime/assets.js.map

@@ -1 +0,0 @@
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package/dist/search/semantic-collections.d.ts

@@ -1,32 +0,0 @@
-import type { SemanticCollectionMutationResult, SemanticCollectionResult, SemanticInitResult, SemanticStorage } from "./semantic-types.js";
-export declare function initSemanticStore(opts: {
-    readonly vault: string;
-    readonly index?: string;
-    readonly storage?: SemanticStorage;
-}): Promise<SemanticInitResult>;
-export declare function listSemanticCollections(opts: {
-    readonly vault: string;
-    readonly index?: string;
-    readonly storage?: SemanticStorage;
-}): Promise<SemanticCollectionResult>;
-export declare function removeSemanticCollection(opts: {
-    readonly vault: string;
-    readonly index?: string;
-    readonly storage?: SemanticStorage;
-    readonly collection: string;
-}): Promise<SemanticCollectionMutationResult>;
-export declare function renameSemanticCollection(opts: {
-    readonly vault: string;
-    readonly index?: string;
-    readonly storage?: SemanticStorage;
-    readonly from: string;
-    readonly to: string;
-}): Promise<SemanticCollectionMutationResult>;
-export declare function updateSemanticCollection(opts: {
-    readonly vault: string;
-    readonly index?: string;
-    readonly storage?: SemanticStorage;
-    readonly collection: string;
-    readonly updateCommand?: string;
-    readonly includeByDefault?: boolean;
-}): Promise<SemanticCollectionMutationResult>;