@animus-labs/cortex 0.2.0

package/dist/tools/shared/edit-matcher.js.map

@@ -0,0 +1 @@
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package/dist/tools/shared/file-mutation-lock.d.ts

@@ -0,0 +1,22 @@
+/**
+ * Per-file async mutation lock.
+ *
+ * Serializes concurrent mutations (Edit, Write) that target the same file
+ * while allowing mutations on different files to proceed in parallel.
+ *
+ * Uses promise chaining rather than OS mutexes: each `acquire()` appends
+ * a new link to the per-path chain. The caller awaits the previous link
+ * (serialization) and receives a `release` callback that resolves the
+ * current link so the next waiter can proceed.
+ */
+export declare class FileMutationLock {
+    private chains;
+    /**
+     * Acquire exclusive mutation access for a file path.
+     * Returns a release function that MUST be called when done (use try/finally).
+     */
+    acquire(filePath: string): Promise<() => void>;
+    /** Clear all chains. Safe to call between agentic loops. */
+    clear(): void;
+}
+//# sourceMappingURL=file-mutation-lock.d.ts.map

package/dist/tools/shared/file-mutation-lock.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"file-mutation-lock.d.ts","sourceRoot":"","sources":["../../../src/tools/shared/file-mutation-lock.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;GAUG;AAIH,qBAAa,gBAAgB;IAC3B,OAAO,CAAC,MAAM,CAAoC;IAElD;;;OAGG;IACG,OAAO,CAAC,QAAQ,EAAE,MAAM,GAAG,OAAO,CAAC,MAAM,IAAI,CAAC;IAcpD,4DAA4D;IAC5D,KAAK,IAAI,IAAI;CAGd"}

package/dist/tools/shared/file-mutation-lock.js

@@ -0,0 +1,35 @@
+/**
+ * Per-file async mutation lock.
+ *
+ * Serializes concurrent mutations (Edit, Write) that target the same file
+ * while allowing mutations on different files to proceed in parallel.
+ *
+ * Uses promise chaining rather than OS mutexes: each `acquire()` appends
+ * a new link to the per-path chain. The caller awaits the previous link
+ * (serialization) and receives a `release` callback that resolves the
+ * current link so the next waiter can proceed.
+ */
+import * as path from 'node:path';
+export class FileMutationLock {
+    chains = new Map();
+    /**
+     * Acquire exclusive mutation access for a file path.
+     * Returns a release function that MUST be called when done (use try/finally).
+     */
+    async acquire(filePath) {
+        const key = path.resolve(filePath);
+        const previous = this.chains.get(key) ?? Promise.resolve();
+        let release;
+        const current = new Promise(resolve => {
+            release = resolve;
+        });
+        this.chains.set(key, current);
+        await previous;
+        return release;
+    }
+    /** Clear all chains. Safe to call between agentic loops. */
+    clear() {
+        this.chains.clear();
+    }
+}
+//# sourceMappingURL=file-mutation-lock.js.map

package/dist/tools/shared/file-mutation-lock.js.map

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package/dist/tools/shared/gitignore.d.ts

@@ -0,0 +1,17 @@
+/**
+ * Shared .gitignore reading utility.
+ *
+ * Walks up the directory tree collecting .gitignore patterns.
+ * Used by both Glob and Grep tools to respect .gitignore rules.
+ */
+/**
+ * Default ignore patterns used when no .gitignore is present,
+ * or merged with .gitignore patterns.
+ */
+export declare const DEFAULT_IGNORE_PATTERNS: string[];
+/**
+ * Read and parse .gitignore files by walking up from `dir` to the filesystem root.
+ * Returns an array of gitignore patterns (comments and empty lines stripped).
+ */
+export declare function readGitignorePatterns(dir: string): Promise<string[]>;
+//# sourceMappingURL=gitignore.d.ts.map

package/dist/tools/shared/gitignore.d.ts.map

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package/dist/tools/shared/gitignore.js

@@ -0,0 +1,59 @@
+/**
+ * Shared .gitignore reading utility.
+ *
+ * Walks up the directory tree collecting .gitignore patterns.
+ * Used by both Glob and Grep tools to respect .gitignore rules.
+ */
+import * as fs from 'node:fs';
+import * as path from 'node:path';
+/**
+ * Default ignore patterns used when no .gitignore is present,
+ * or merged with .gitignore patterns.
+ */
+export const DEFAULT_IGNORE_PATTERNS = [
+    'node_modules',
+    '.git',
+    'dist',
+    'build',
+    '__pycache__',
+    '.DS_Store',
+    '.next',
+    '.nuxt',
+    'coverage',
+    '.cache',
+    '.parcel-cache',
+    '.vite',
+];
+/**
+ * Read and parse .gitignore files by walking up from `dir` to the filesystem root.
+ * Returns an array of gitignore patterns (comments and empty lines stripped).
+ */
+export async function readGitignorePatterns(dir) {
+    const patterns = [];
+    let current = dir;
+    const visited = new Set();
+    while (!visited.has(current)) {
+        visited.add(current);
+        const gitignorePath = path.join(current, '.gitignore');
+        try {
+            const content = await fs.promises.readFile(gitignorePath, 'utf8');
+            const lines = content.split('\n');
+            for (const line of lines) {
+                const trimmed = line.trim();
+                // Skip comments and empty lines
+                if (trimmed && !trimmed.startsWith('#')) {
+                    patterns.push(trimmed);
+                }
+            }
+        }
+        catch {
+            // No .gitignore at this level, continue
+        }
+        const parent = path.dirname(current);
+        if (parent === current)
+            break;
+        current = parent;
+    }
+    return patterns;
+}
+//# sourceMappingURL=gitignore.js.map

package/dist/tools/shared/gitignore.js.map

@@ -0,0 +1 @@
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package/dist/tools/shared/pdf-extractor.d.ts

@@ -0,0 +1,96 @@
+/**
+ * PDF text extraction.
+ *
+ * Wraps `unpdf` (pure-ESM, zero native deps) behind a narrow, well-typed
+ * boundary so the Read tool never touches pdfjs directly. Swapping the
+ * backend later is a one-file change.
+ *
+ * Responsibilities:
+ *   - Parse the caller's `pages` spec and clamp it to the document and
+ *     the per-call page cap.
+ *   - Extract per-page text.
+ *   - Detect "no extractable text" (scanned / image-only PDFs) and
+ *     return a structured signal rather than silently-empty output.
+ *   - Render the extracted text with `[Page N]` markers so the caller
+ *     can line-number it exactly like any other file content.
+ *
+ * Pure-ish: does no filesystem I/O. Callers are expected to have
+ * already loaded the PDF bytes.
+ */
+export interface PdfExtractionRequest {
+    /** PDF bytes. Accepts a Node Buffer or any Uint8Array. */
+    data: Buffer | Uint8Array;
+    /**
+     * Page spec: `"N"`, `"N-M"`, or undefined. When undefined, extracts
+     * the first `maxPages` pages starting at page 1.
+     */
+    pagesSpec?: string | undefined;
+    /** Upper bound on how many pages may be extracted in one call. */
+    maxPages?: number;
+}
+export interface PdfExtractionOk {
+    kind: 'ok';
+    totalPages: number;
+    /** First page extracted (1-based, inclusive). */
+    firstPage: number;
+    /** Last page extracted (1-based, inclusive). */
+    lastPage: number;
+    /** Per-page text. `pages[i].pageNumber` is 1-based. */
+    pages: Array<{
+        pageNumber: number;
+        text: string;
+    }>;
+    /**
+     * Full rendered text with `[Page N]` markers separating pages, ready
+     * to be handed to the same line-numbering pipeline Read uses for
+     * plain text files.
+     */
+    rendered: string;
+}
+export interface PdfExtractionEmpty {
+    kind: 'empty';
+    totalPages: number;
+    firstPage: number;
+    lastPage: number;
+    message: string;
+}
+export interface PdfExtractionInvalidRange {
+    kind: 'invalid-range';
+    totalPages: number;
+    message: string;
+}
+export interface PdfExtractionError {
+    kind: 'error';
+    message: string;
+}
+export type PdfExtractionResult = PdfExtractionOk | PdfExtractionEmpty | PdfExtractionInvalidRange | PdfExtractionError;
+/**
+ * Default cap on pages extracted per call. Matches the advertised
+ * schema default for Read's `pages` param ("max 20 pages per request").
+ */
+export declare const DEFAULT_MAX_PAGES = 20;
+export type PagesSpecResult = {
+    ok: true;
+    first: number;
+    last: number;
+} | {
+    ok: false;
+    message: string;
+};
+/**
+ * Parse a pages-spec string against a document's page count and the
+ * per-call cap. Enforces:
+ *   - Format: `"N"` or `"N-M"` (base 10, whitespace tolerant)
+ *   - 1 <= first <= last <= totalPages
+ *   - (last - first + 1) <= maxPages
+ *
+ * Returns `{ ok: false }` with an actionable message on any failure.
+ */
+export declare function parsePagesSpec(spec: string, totalPages: number, maxPages: number): PagesSpecResult;
+/**
+ * Extract text from a PDF buffer. Never throws — all failure modes are
+ * returned as structured results so the caller can render them as
+ * tool-content messages.
+ */
+export declare function extractPdfText(req: PdfExtractionRequest): Promise<PdfExtractionResult>;
+//# sourceMappingURL=pdf-extractor.d.ts.map

package/dist/tools/shared/pdf-extractor.d.ts.map

@@ -0,0 +1 @@
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package/dist/tools/shared/pdf-extractor.js

@@ -0,0 +1,196 @@
+/**
+ * PDF text extraction.
+ *
+ * Wraps `unpdf` (pure-ESM, zero native deps) behind a narrow, well-typed
+ * boundary so the Read tool never touches pdfjs directly. Swapping the
+ * backend later is a one-file change.
+ *
+ * Responsibilities:
+ *   - Parse the caller's `pages` spec and clamp it to the document and
+ *     the per-call page cap.
+ *   - Extract per-page text.
+ *   - Detect "no extractable text" (scanned / image-only PDFs) and
+ *     return a structured signal rather than silently-empty output.
+ *   - Render the extracted text with `[Page N]` markers so the caller
+ *     can line-number it exactly like any other file content.
+ *
+ * Pure-ish: does no filesystem I/O. Callers are expected to have
+ * already loaded the PDF bytes.
+ */
+// ---------------------------------------------------------------------------
+// Constants
+// ---------------------------------------------------------------------------
+/**
+ * Default cap on pages extracted per call. Matches the advertised
+ * schema default for Read's `pages` param ("max 20 pages per request").
+ */
+export const DEFAULT_MAX_PAGES = 20;
+/**
+ * Total-text length below which we treat the document as image-based.
+ * 20 characters allows for a stray page number or watermark without
+ * pretending we extracted meaningful content.
+ */
+const EMPTY_TEXT_THRESHOLD = 20;
+/**
+ * Parse a pages-spec string against a document's page count and the
+ * per-call cap. Enforces:
+ *   - Format: `"N"` or `"N-M"` (base 10, whitespace tolerant)
+ *   - 1 <= first <= last <= totalPages
+ *   - (last - first + 1) <= maxPages
+ *
+ * Returns `{ ok: false }` with an actionable message on any failure.
+ */
+export function parsePagesSpec(spec, totalPages, maxPages) {
+    const trimmed = spec.trim();
+    const rangeMatch = /^(\d+)-(\d+)$/u.exec(trimmed);
+    const singleMatch = /^(\d+)$/u.exec(trimmed);
+    let first;
+    let last;
+    if (rangeMatch) {
+        first = Number.parseInt(rangeMatch[1], 10);
+        last = Number.parseInt(rangeMatch[2], 10);
+    }
+    else if (singleMatch) {
+        first = Number.parseInt(singleMatch[1], 10);
+        last = first;
+    }
+    else {
+        return {
+            ok: false,
+            message: `Invalid pages spec "${spec}". Use "N" or "N-M" (e.g. "1-5", "3").`,
+        };
+    }
+    if (first < 1) {
+        return { ok: false, message: `Page numbers are 1-based; got first page ${first}.` };
+    }
+    if (last < first) {
+        return {
+            ok: false,
+            message: `Invalid pages spec "${spec}": last page (${last}) is before first page (${first}).`,
+        };
+    }
+    if (last > totalPages) {
+        return {
+            ok: false,
+            message: `Pages spec "${spec}" exceeds document (has ${totalPages} page${totalPages === 1 ? '' : 's'}).`,
+        };
+    }
+    const count = last - first + 1;
+    if (count > maxPages) {
+        return {
+            ok: false,
+            message: `Pages spec "${spec}" requests ${count} pages; the per-call limit is ${maxPages}. Narrow the range.`,
+        };
+    }
+    return { ok: true, first, last };
+}
+// ---------------------------------------------------------------------------
+// Buffer normalization
+// ---------------------------------------------------------------------------
+/**
+ * Convert input bytes to a fresh, owned `Uint8Array`.
+ *
+ * `unpdf` rejects `Buffer` inputs outright ("Please provide binary data
+ * as `Uint8Array`, rather than `Buffer`"), and its PDF.js worker path
+ * may transfer the backing buffer during postMessage — leaving a shared
+ * view detached for subsequent calls. Making a full copy here keeps
+ * the caller's buffer usable and makes repeat extractions on the same
+ * bytes safe across tests and sessions.
+ */
+function toUint8Array(data) {
+    return new Uint8Array(data);
+}
+// ---------------------------------------------------------------------------
+// Extraction
+// ---------------------------------------------------------------------------
+/**
+ * Extract text from a PDF buffer. Never throws — all failure modes are
+ * returned as structured results so the caller can render them as
+ * tool-content messages.
+ */
+export async function extractPdfText(req) {
+    const maxPages = req.maxPages ?? DEFAULT_MAX_PAGES;
+    const bytes = toUint8Array(req.data);
+    let extractResult;
+    try {
+        const { extractText } = await import('unpdf');
+        const raw = await extractText(bytes, { mergePages: false });
+        extractResult = {
+            totalPages: raw.totalPages,
+            text: Array.isArray(raw.text) ? raw.text : [raw.text],
+        };
+    }
+    catch (err) {
+        const msg = err instanceof Error ? err.message : String(err);
+        return {
+            kind: 'error',
+            message: `Failed to parse PDF: ${msg}`,
+        };
+    }
+    const { totalPages, text: allPages } = extractResult;
+    if (totalPages === 0) {
+        return {
+            kind: 'empty',
+            totalPages: 0,
+            firstPage: 0,
+            lastPage: 0,
+            message: 'PDF contains no pages.',
+        };
+    }
+    // Resolve the page range.
+    let first;
+    let last;
+    if (req.pagesSpec !== undefined) {
+        const parsed = parsePagesSpec(req.pagesSpec, totalPages, maxPages);
+        if (!parsed.ok) {
+            return { kind: 'invalid-range', totalPages, message: parsed.message };
+        }
+        first = parsed.first;
+        last = parsed.last;
+    }
+    else {
+        first = 1;
+        last = Math.min(maxPages, totalPages);
+    }
+    const pages = [];
+    for (let pageNumber = first; pageNumber <= last; pageNumber++) {
+        const raw = allPages[pageNumber - 1] ?? '';
+        pages.push({ pageNumber, text: raw });
+    }
+    const totalLen = pages.reduce((n, p) => n + p.text.trim().length, 0);
+    if (totalLen < EMPTY_TEXT_THRESHOLD) {
+        return {
+            kind: 'empty',
+            totalPages,
+            firstPage: first,
+            lastPage: last,
+            message: totalPages > 0 && totalLen === 0
+                ? 'PDF has no extractable text (likely scanned or image-only). Use an OCR tool to process it.'
+                : 'PDF yielded almost no extractable text (likely scanned or image-heavy). Use an OCR tool for full content.',
+        };
+    }
+    const rendered = renderPages(pages, first, last, totalPages);
+    return {
+        kind: 'ok',
+        totalPages,
+        firstPage: first,
+        lastPage: last,
+        pages,
+        rendered,
+    };
+}
+/**
+ * Render the per-page text into a single string with `[Page N]`
+ * markers. A leading summary line is included so the model knows how
+ * many pages the document has and which subset it's seeing.
+ */
+function renderPages(pages, firstPage, lastPage, totalPages) {
+    const header = firstPage === 1 && lastPage === totalPages
+        ? `[PDF: ${totalPages} page${totalPages === 1 ? '' : 's'}]`
+        : `[PDF: showing pages ${firstPage}-${lastPage} of ${totalPages}]`;
+    const body = pages
+        .map((p) => `[Page ${p.pageNumber}]\n${p.text.trim()}`)
+        .join('\n\n');
+    return `${header}\n\n${body}\n`;
+}
+//# sourceMappingURL=pdf-extractor.js.map

package/dist/tools/shared/pdf-extractor.js.map

@@ -0,0 +1 @@
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package/dist/tools/shared/read-registry.d.ts

@@ -0,0 +1,66 @@
+/**
+ * Loop-scoped file read tracking.
+ *
+ * Shared by the Read, Write, and Edit tools to enforce
+ * the read-before-write/edit contract. Tracks which files
+ * have been read during the current agentic loop, along with
+ * metadata (mtime, offset, limit) for file-unchanged dedup.
+ *
+ * Created once per CortexAgent and cleared at the start
+ * of each agentic loop via clear().
+ */
+export interface ReadState {
+    /** File mtime at time of read (ms since epoch). */
+    timestamp: number;
+    /** 1-based offset used for the read (undefined = full read). */
+    offset?: number;
+    /** Line limit used for the read (undefined = default/full). */
+    limit?: number;
+    /**
+     * SHA-256 hex digest of the raw file bytes at the time of read.
+     * Populated only for non-truncated, full reads; used as a fallback
+     * on mtime mismatch to allow writes when the on-disk bytes are
+     * actually unchanged (e.g. a formatter or cloud-sync tool touched
+     * the mtime without modifying content).
+     */
+    contentHash?: string;
+}
+export declare class ReadRegistry {
+    private readonly entries;
+    /**
+     * Mark a file as read with metadata for dedup.
+     * The path is normalized to an absolute, platform-canonical form.
+     */
+    markRead(filePath: string, state?: ReadState): void;
+    /**
+     * Check whether a file has been read in the current agentic loop.
+     */
+    hasBeenRead(filePath: string): boolean;
+    /**
+     * Get the read state for a file, or undefined if not read.
+     */
+    getState(filePath: string): ReadState | undefined;
+    /**
+     * Invalidate a single file's read state.
+     * Called when the on-disk mtime diverges from the recorded read
+     * state (external modification), forcing a fresh Read before
+     * the next mutation. Successful Edit/Write calls instead call
+     * markRead() with the new mtime, since the agent's own mutation
+     * is authoritative knowledge of current file contents.
+     */
+    invalidate(filePath: string): void;
+    /**
+     * Clear all read tracking. Called at the start of each agentic loop.
+     */
+    clear(): void;
+    /**
+     * Get the number of tracked files (for diagnostics).
+     */
+    get size(): number;
+    /**
+     * Normalize a file path for consistent comparison.
+     * Resolves to absolute and normalizes separators.
+     */
+    private normalize;
+}
+//# sourceMappingURL=read-registry.d.ts.map

package/dist/tools/shared/read-registry.d.ts.map

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package/dist/tools/shared/read-registry.js

@@ -0,0 +1,65 @@
+/**
+ * Loop-scoped file read tracking.
+ *
+ * Shared by the Read, Write, and Edit tools to enforce
+ * the read-before-write/edit contract. Tracks which files
+ * have been read during the current agentic loop, along with
+ * metadata (mtime, offset, limit) for file-unchanged dedup.
+ *
+ * Created once per CortexAgent and cleared at the start
+ * of each agentic loop via clear().
+ */
+import * as path from 'node:path';
+export class ReadRegistry {
+    entries = new Map();
+    /**
+     * Mark a file as read with metadata for dedup.
+     * The path is normalized to an absolute, platform-canonical form.
+     */
+    markRead(filePath, state) {
+        this.entries.set(this.normalize(filePath), state ?? { timestamp: Date.now() });
+    }
+    /**
+     * Check whether a file has been read in the current agentic loop.
+     */
+    hasBeenRead(filePath) {
+        return this.entries.has(this.normalize(filePath));
+    }
+    /**
+     * Get the read state for a file, or undefined if not read.
+     */
+    getState(filePath) {
+        return this.entries.get(this.normalize(filePath));
+    }
+    /**
+     * Invalidate a single file's read state.
+     * Called when the on-disk mtime diverges from the recorded read
+     * state (external modification), forcing a fresh Read before
+     * the next mutation. Successful Edit/Write calls instead call
+     * markRead() with the new mtime, since the agent's own mutation
+     * is authoritative knowledge of current file contents.
+     */
+    invalidate(filePath) {
+        this.entries.delete(this.normalize(filePath));
+    }
+    /**
+     * Clear all read tracking. Called at the start of each agentic loop.
+     */
+    clear() {
+        this.entries.clear();
+    }
+    /**
+     * Get the number of tracked files (for diagnostics).
+     */
+    get size() {
+        return this.entries.size;
+    }
+    /**
+     * Normalize a file path for consistent comparison.
+     * Resolves to absolute and normalizes separators.
+     */
+    normalize(filePath) {
+        return path.resolve(filePath);
+    }
+}
+//# sourceMappingURL=read-registry.js.map

package/dist/tools/shared/read-registry.js.map

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package/dist/tools/shared/safe-env.d.ts

@@ -0,0 +1,18 @@
+/**
+ * Shared environment sanitization for child processes.
+ *
+ * Used by both the Bash tool (safety.ts) and MCP client (mcp-client.ts)
+ * to strip dangerous environment variables before spawning subprocesses.
+ */
+/**
+ * Build a safe environment for child processes by stripping dangerous variables.
+ *
+ * @param parentEnv - The source environment (typically process.env or a consumer-supplied map)
+ * @param marker - Optional context marker added as CORTEX_SHELL. Pass undefined to skip.
+ * @param overrides - Optional key-value pairs merged ON TOP of the sanitized env, bypassing
+ *   the blocklist. Used for consumer-set variables that must propagate (e.g., macOS dock
+ *   icon suppression vars like DYLD_INSERT_LIBRARIES).
+ * @returns A new object with dangerous variables removed and overrides applied
+ */
+export declare function buildSafeEnv(parentEnv: NodeJS.ProcessEnv | Record<string, string>, marker?: string | undefined, overrides?: Record<string, string> | undefined): Record<string, string>;
+//# sourceMappingURL=safe-env.d.ts.map

package/dist/tools/shared/safe-env.d.ts.map

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