mcp-local-rag 0.14.1 → 0.14.2

package/README.md

@@ -33,7 +33,7 @@ Semantic search with keyword boost for exact technical terms — fully private,
 
 ## Quick Start
 
-Set `BASE_DIR` to the folder you want to search. Documents must live under it.
+Set `BASE_DIR` to the folder you want to search (or `BASE_DIRS` for multiple roots — see [Configuration](#configuration)). Documents must live under one of the configured roots.
 
 Add the MCP server to your AI coding tool:
 
@@ -206,7 +206,7 @@ Pass the `filePath` and `chunkIndex` from the search result. The response includ
 #### Managing Files
 
 ```
-"List all files in BASE_DIR and their ingested status"   # See what's indexed
+"List all files in configured base directories and their ingested status"   # See what's indexed
 "Delete old-spec.pdf from RAG"     # Remove a file
 "Show RAG server status"           # Check system health
 ```
@@ -237,6 +237,15 @@ npx mcp-local-rag delete --source "https://..."  # Remove by source URL
 npx mcp-local-rag --db-path ./my-db query "auth" --base-dir ./docs
 ```
 
+The `--base-dir` flag is repeatable on `ingest` and `list`; pass it once per root:
+
+```bash
+npx mcp-local-rag ingest --base-dir ./docs --base-dir ./specs ./docs/readme.md
+npx mcp-local-rag list --base-dir ./docs --base-dir ./specs
+```
+
+The positional path to `ingest` must sit inside one of the configured roots. When at least one `--base-dir` is supplied, CLI roots replace any env-var roots (no merge).
+
 **Environment variables** — set in your shell:
 
 ```bash
@@ -245,6 +254,13 @@ export BASE_DIR=./docs
 npx mcp-local-rag query "auth"
 ```
 
+For multiple roots, use `BASE_DIRS` (JSON array of non-empty path strings):
+
+```bash
+export BASE_DIRS='["/Users/me/Documents/work","/Users/me/Projects/specs"]'
+npx mcp-local-rag list
+```
+
 **Sharing config between MCP and CLI** — if your MCP client inherits shell environment variables, you can set them in your shell profile (e.g., `~/.zshrc`) so both use the same values. Otherwise, set them explicitly in your MCP config as well.
 
 ```bash
@@ -359,7 +375,8 @@ The MCP server is configured by environment variables only — pass them through
 
 | Environment Variable | CLI Flag | Default | Description |
 |---------------------|----------|---------|-------------|
-| `BASE_DIR` | `--base-dir` | Current directory | Document root directory (security boundary) |
+| `BASE_DIR` | `--base-dir` (repeatable) | Current directory | Single document root directory (security boundary). See [Document Roots](#document-roots-base_dir-and-base_dirs) for multi-root setup. |
+| `BASE_DIRS` | — | (unset) | JSON array of document roots (security boundary). Takes precedence over `BASE_DIR`. See [Document Roots](#document-roots-base_dir-and-base_dirs). |
 | `DB_PATH` | `--db-path` | `./lancedb/` | Vector database location |
 | `CACHE_DIR` | `--cache-dir` | `./models/` | Model cache directory |
 | `MODEL_NAME` | `--model-name` | `Xenova/all-MiniLM-L6-v2` | HuggingFace model ID ([available models](https://huggingface.co/models?library=transformers.js&pipeline_tag=feature-extraction)) |
@@ -374,6 +391,89 @@ The MCP server is configured by environment variables only — pass them through
 
 ⚠️ Changing `MODEL_NAME` changes embedding dimensions. Delete `DB_PATH` and re-ingest after switching models.
 
+### Document Roots (`BASE_DIR` and `BASE_DIRS`)
+
+mcp-local-rag enforces a security boundary: only files under a configured root are accessible to ingest, list, delete, or read-neighbor operations.
+
+**Single root** — use `BASE_DIR`:
+
+```bash
+export BASE_DIR=/Users/me/Documents/work
+```
+
+**Multiple roots** — use `BASE_DIRS` with a JSON array:
+
+```bash
+export BASE_DIRS='["/Users/me/Documents/work","/Users/me/Projects/specs"]'
+```
+
+Only JSON-array syntax is supported. Delimiter syntax such as `BASE_DIRS=/a:/b` is intentionally **not** supported (avoids ambiguity with spaces, colons, commas, and Windows paths).
+
+**Resolution order** (highest precedence first):
+
+1. CLI `--base-dir <path>` flags (repeatable on `ingest` and `list`)
+2. `BASE_DIRS` environment variable
+3. `BASE_DIR` environment variable
+4. `process.cwd()` (current working directory)
+
+CLI roots **replace** env roots — they are never merged. `BASE_DIRS` and `BASE_DIR` are never merged either: `BASE_DIRS` wins when both are set.
+
+**Precedence warning** — when `BASE_DIRS` and `BASE_DIR` are both set (and no CLI `--base-dir` is supplied), `BASE_DIR` is ignored and a warning is surfaced. The warning is visible:
+
+- In MCP tool responses (as an additional content block, on every tool — including `status`, `query_documents`, `ingest_file`, `ingest_data`, `list_files`, `delete_file`, `read_chunk_neighbors`).
+- On CLI `stderr`.
+
+Unset `BASE_DIR` (or remove `BASE_DIRS`) to silence the warning.
+
+**Nested-root pruning** — if one configured root sits inside another after realpath resolution, the nested child is dropped to avoid duplicate scan results. A pruning warning is surfaced the same way as the precedence warning. The surviving parent root still defines the security boundary.
+
+**Invalid `BASE_DIRS`** — when `BASE_DIRS` is not a valid JSON array of non-empty strings (malformed JSON, empty array, non-string elements, ...), root-dependent MCP tools return a structured error and CLI subcommands exit non-zero. There is **no silent fallback** to `BASE_DIR` or `cwd`. The MCP `status` tool remains callable so you can diagnose the config error through your MCP client.
+
+**MCP client examples** — multi-root setup:
+
+Cursor (`~/.cursor/mcp.json`):
+```json
+{
+  "mcpServers": {
+    "local-rag": {
+      "command": "npx",
+      "args": ["-y", "mcp-local-rag"],
+      "env": {
+        "BASE_DIRS": "[\"/Users/me/Documents/work\",\"/Users/me/Projects/specs\"]"
+      }
+    }
+  }
+}
+```
+
+Codex (`~/.codex/config.toml`):
+```toml
+[mcp_servers.local-rag]
+command = "npx"
+args = ["-y", "mcp-local-rag"]
+
+[mcp_servers.local-rag.env]
+BASE_DIRS = "[\"/Users/me/Documents/work\",\"/Users/me/Projects/specs\"]"
+```
+
+Claude Code:
+```bash
+claude mcp add local-rag --scope user \
+  --env BASE_DIRS='["/Users/me/Documents/work","/Users/me/Projects/specs"]' \
+  -- npx -y mcp-local-rag
+```
+
+**CLI examples** — multi-root invocations:
+
+```bash
+# Repeatable --base-dir
+npx mcp-local-rag ingest --base-dir /Users/me/work --base-dir /Users/me/specs /Users/me/work/readme.md
+npx mcp-local-rag list --base-dir /Users/me/work --base-dir /Users/me/specs
+
+# Or via BASE_DIRS env
+BASE_DIRS='["/Users/me/work","/Users/me/specs"]' npx mcp-local-rag list
+```
+
 ### Client-Specific Setup
 
 **Cursor** — Global: `~/.cursor/mcp.json`, Project: `.cursor/mcp.json`
@@ -417,7 +517,7 @@ The embedding model (~90MB) downloads on first use. Takes 1-2 minutes, then work
 
 ### Security
 
-- **Path restriction**: Only files within `BASE_DIR` are accessible
+- **Path restriction**: Only files within a configured root (`BASE_DIR` or any `BASE_DIRS` / `--base-dir` entry) are accessible. Symlinks resolving outside all configured roots, and sibling-prefix paths (e.g. `/foo/barista` for root `/foo/bar`), are rejected.
 - **Local only**: No network requests after model download
 - **Model sources** (all official HuggingFace repositories):
   - Embedder: [`Xenova/all-MiniLM-L6-v2`](https://huggingface.co/Xenova/all-MiniLM-L6-v2)
@@ -465,7 +565,18 @@ Check chunk count with `status`. Large documents with many chunks may slow queri
 
 ### "Path outside BASE_DIR"
 
-Ensure file paths are within `BASE_DIR`. Use absolute paths.
+Ensure file paths are within one of the configured roots (`BASE_DIR`, any `BASE_DIRS` entry, or any CLI `--base-dir`). Use absolute paths.
+
+### "BASE_DIRS must be a JSON array..."
+
+`BASE_DIRS` accepts only a JSON array of one or more non-empty path strings. Examples:
+
+- Valid: `BASE_DIRS='["/Users/me/work","/Users/me/specs"]'`
+- Invalid: `BASE_DIRS=/a:/b` (delimiter syntax not supported)
+- Invalid: `BASE_DIRS='[]'` (empty array)
+- Invalid: `BASE_DIRS='["",""]'` (empty string element)
+
+When invalid, root-dependent operations fail with a clear error rather than silently falling back. The MCP `status` tool remains callable so you can inspect the diagnostic.
 
 ### MCP client doesn't see tools
 

package/dist/cli/common.d.ts

@@ -1,4 +1,5 @@
 import { Embedder } from '../embedder/index.js';
+import { type BaseDirsConfig, type BaseDirsConfigWarning } from '../utils/base-dirs.js';
 import { VectorStore } from '../vectordb/index.js';
 import { type ResolvedGlobalConfig } from './options.js';
 /**
@@ -11,4 +12,40 @@ export declare function createVectorStore(config: ResolvedGlobalConfig): VectorS
  * Callers are responsible for managing the Embedder lifecycle.
  */
 export declare function createEmbedder(config: ResolvedGlobalConfig): Embedder;
+/**
+ * Result of {@link resolveCliBaseDirsOrExit}. Resolution warnings travel with
+ * the config so subcommands can render them per their own UI contract (CLI
+ * subcommands generally write them to stderr).
+ */
+export interface CliBaseDirsResolution {
+    config: BaseDirsConfig;
+    warnings: BaseDirsConfigWarning[];
+}
+/**
+ * Resolve effective base directories for a CLI subcommand using the shared
+ * resolver, surfacing any configuration error as a process-level failure.
+ *
+ * Inputs (single source of truth for CLI precedence — kept here so per-
+ * subcommand entry points don't each replicate the env-fallback chain):
+ *  - `cliRoots`: repeated `--base-dir` flag values in CLI order. When non-
+ *    empty, REPLACES env roots — no merge.
+ *  - `process.env['BASE_DIRS']`: JSON array, used only when CLI roots are
+ *    absent.
+ *  - `process.env['BASE_DIR']`: single path, used only when CLI roots and
+ *    `BASE_DIRS` are absent.
+ *  - `process.cwd()`: final fallback.
+ *
+ * Failure mode: a `BaseDirsConfigError` (invalid `BASE_DIRS` JSON, missing
+ * directory, not-a-directory, ...) is reported to stderr and exits with
+ * code 1. This is intentional: the resolver explicitly does NOT fall back
+ * (see §Technical Decisions → Resolution order in the multi-base-dirs
+ * plan), so CLI consumers should fail fast rather than silently degrading
+ * to `cwd`.
+ *
+ * Warnings (`base-dirs-overrides-base-dir`, `nested-root-pruned`) are
+ * returned to the caller rather than written here, so each subcommand can
+ * decide its own rendering (JSON-output subcommands like `list` may need
+ * to keep stderr clean even when warnings are present).
+ */
+export declare function resolveCliBaseDirsOrExit(cliRoots: string[]): Promise<CliBaseDirsResolution>;
 //# sourceMappingURL=common.d.ts.map

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package/dist/cli/common.js

@@ -1,7 +1,10 @@
 // Shared CLI component helpers — factory functions for VectorStore and Embedder
+// plus base-directory resolution shared by every subcommand that scans files.
 import { Embedder } from '../embedder/index.js';
+import { parseBaseDirsEnv, resolveBaseDirs, } from '../utils/base-dirs.js';
+import { checkSensitivePath } from '../utils/sensitive-path.js';
 import { VectorStore } from '../vectordb/index.js';
-import { resolveDevice } from './options.js';
+import { resolveDevice, validatePath } from './options.js';
 /**
  * Create an uninitialized VectorStore from resolved global config.
  * Callers are responsible for calling initialize() before use.
@@ -24,4 +27,81 @@ export function createEmbedder(config) {
         device: resolveDevice(process.env['RAG_DEVICE']),
     });
 }
+/**
+ * Resolve effective base directories for a CLI subcommand using the shared
+ * resolver, surfacing any configuration error as a process-level failure.
+ *
+ * Inputs (single source of truth for CLI precedence — kept here so per-
+ * subcommand entry points don't each replicate the env-fallback chain):
+ *  - `cliRoots`: repeated `--base-dir` flag values in CLI order. When non-
+ *    empty, REPLACES env roots — no merge.
+ *  - `process.env['BASE_DIRS']`: JSON array, used only when CLI roots are
+ *    absent.
+ *  - `process.env['BASE_DIR']`: single path, used only when CLI roots and
+ *    `BASE_DIRS` are absent.
+ *  - `process.cwd()`: final fallback.
+ *
+ * Failure mode: a `BaseDirsConfigError` (invalid `BASE_DIRS` JSON, missing
+ * directory, not-a-directory, ...) is reported to stderr and exits with
+ * code 1. This is intentional: the resolver explicitly does NOT fall back
+ * (see §Technical Decisions → Resolution order in the multi-base-dirs
+ * plan), so CLI consumers should fail fast rather than silently degrading
+ * to `cwd`.
+ *
+ * Warnings (`base-dirs-overrides-base-dir`, `nested-root-pruned`) are
+ * returned to the caller rather than written here, so each subcommand can
+ * decide its own rendering (JSON-output subcommands like `list` may need
+ * to keep stderr clean even when warnings are present).
+ */
+export async function resolveCliBaseDirsOrExit(cliRoots) {
+    // Screen the raw env-supplied paths before the resolver realpath-
+    // normalizes them, so a literal `BASE_DIR=/etc` is rejected with the
+    // env var as the attribution surface.
+    if (cliRoots.length === 0) {
+        if (process.env['BASE_DIRS'] !== undefined && process.env['BASE_DIRS'].length > 0) {
+            const parsed = parseBaseDirsEnv(process.env['BASE_DIRS']);
+            if (parsed.ok) {
+                for (const raw of parsed.value) {
+                    const sensitive = checkSensitivePath(raw, 'BASE_DIRS');
+                    if (sensitive) {
+                        console.error(sensitive);
+                        process.exit(1);
+                    }
+                }
+            }
+            // Malformed BASE_DIRS surfaces below via resolveBaseDirs.
+        }
+        else if (process.env['BASE_DIR'] !== undefined && process.env['BASE_DIR'].trim().length > 0) {
+            const sensitive = checkSensitivePath(process.env['BASE_DIR'], 'BASE_DIR');
+            if (sensitive) {
+                console.error(sensitive);
+                process.exit(1);
+            }
+        }
+    }
+    const result = await resolveBaseDirs({
+        cliRoots,
+        envBaseDirs: process.env['BASE_DIRS'],
+        envBaseDir: process.env['BASE_DIR'],
+        cwd: process.cwd(),
+    });
+    if (!result.ok) {
+        console.error(result.error.message);
+        process.exit(1);
+    }
+    // Apply the sensitive-path policy uniformly to every effective root
+    // (CLI, env, or cwd). Pre-multi-root code validated `BASE_DIR` here; the
+    // same policy must continue to apply to `BASE_DIRS` entries and to CLI
+    // roots that pre-validation in the subcommand may have missed (e.g.
+    // realpath-resolved targets of symlinks). Reported under `--base-dir`
+    // because that is the flag the user most directly controls.
+    for (const root of result.config.baseDirs) {
+        const sensitive = validatePath(root, '--base-dir');
+        if (sensitive) {
+            console.error(sensitive);
+            process.exit(1);
+        }
+    }
+    return { config: result.config, warnings: result.warnings };
+}
 //# sourceMappingURL=common.js.map

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package/dist/cli/delete.js

@@ -1,7 +1,7 @@
 // CLI delete subcommand — delete ingested content by file path or source URL
 import { unlink } from 'node:fs/promises';
 import { resolve } from 'node:path';
-import { generateMetaJsonPath, generateRawDataPath, isRawDataPath, } from '../utils/raw-data-utils.js';
+import { generateMetaJsonPath, generateRawDataPath, isPathInRawDataDirLexical, } from '../utils/raw-data-utils.js';
 import { createVectorStore } from './common.js';
 import { resolveGlobalConfig, validatePath } from './options.js';
 // ============================================
@@ -120,8 +120,8 @@ export async function runDelete(args, globalOptions = {}) {
         }
         // Delete chunks from VectorStore
         await vectorStore.deleteChunks(targetPath);
-        // Clean up physical raw-data files if applicable
-        if (isRawDataPath(targetPath)) {
+        // Clean up physical raw-data files if applicable.
+        if (isPathInRawDataDirLexical(targetPath, globalConfig.dbPath)) {
             try {
                 await unlink(targetPath);
             }

package/dist/cli/delete.js.map

@@ -1 +1 @@
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+{"version":3,"file":"delete.js","sourceRoot":"","sources":["../../src/cli/delete.ts"],"names":[],"mappings":"AAAA,6EAA6E;AAE7E,OAAO,EAAE,MAAM,EAAE,MAAM,kBAAkB,CAAA;AACzC,OAAO,EAAE,OAAO,EAAE,MAAM,WAAW,CAAA;AACnC,OAAO,EACL,oBAAoB,EACpB,mBAAmB,EACnB,yBAAyB,GAC1B,MAAM,4BAA4B,CAAA;AACnC,OAAO,EAAE,iBAAiB,EAAE,MAAM,aAAa,CAAA;AAE/C,OAAO,EAAE,mBAAmB,EAAE,YAAY,EAAE,MAAM,cAAc,CAAA;AAEhE,+CAA+C;AAC/C,OAAO;AACP,+CAA+C;AAE/C,MAAM,SAAS,GAAG;;;;;;;;;;;;;;;;yCAgBuB,CAAA;AAYzC;;;;GAIG;AACH,SAAS,SAAS,CAAC,IAAc;IAC/B,IAAI,IAAI,GAAG,KAAK,CAAA;IAChB,IAAI,MAA0B,CAAA;IAC9B,IAAI,QAA4B,CAAA;IAEhC,IAAI,CAAC,GAAG,CAAC,CAAA;IACT,OAAO,CAAC,GAAG,IAAI,CAAC,MAAM,EAAE,CAAC;QACvB,MAAM,GAAG,GAAG,IAAI,CAAC,CAAC,CAAE,CAAA;QAEpB,IAAI,GAAG,KAAK,IAAI,IAAI,GAAG,KAAK,QAAQ,EAAE,CAAC;YACrC,IAAI,GAAG,IAAI,CAAA;YACX,CAAC,EAAE,CAAA;QACL,CAAC;aAAM,IAAI,GAAG,KAAK,UAAU,EAAE,CAAC;YAC9B,MAAM,KAAK,GAAG,IAAI,CAAC,EAAE,CAAC,CAAC,CAAA;YACvB,IAAI,KAAK,KAAK,SAAS,IAAI,KAAK,CAAC,UAAU,CAAC,GAAG,CAAC,EAAE,CAAC;gBACjD,OAAO,CAAC,KAAK,CAAC,4BAA4B,CAAC,CAAA;gBAC3C,OAAO,CAAC,KAAK,CAAC,SAAS,CAAC,CAAA;gBACxB,OAAO,CAAC,IAAI,CAAC,CAAC,CAAC,CAAA;YACjB,CAAC;YACD,MAAM,GAAG,KAAK,CAAA;YACd,CAAC,EAAE,CAAA;QACL,CAAC;aAAM,IAAI,GAAG,CAAC,UAAU,CAAC,GAAG,CAAC,EAAE,CAAC;YAC/B,OAAO,CAAC,KAAK,CAAC,mBAAmB,GAAG,EAAE,CAAC,CAAA;YACvC,OAAO,CAAC,KAAK,CAAC,SAAS,CAAC,CAAA;YACxB,OAAO,CAAC,IAAI,CAAC,CAAC,CAAC,CAAA;QACjB,CAAC;aAAM,CAAC;YACN,iCAAiC;YACjC,QAAQ,GAAG,GAAG,CAAA;YACd,CAAC,EAAE,CAAA;QACL,CAAC;IACH,CAAC;IAED,MAAM,MAAM,GAAe,EAAE,IAAI,EAAE,CAAA;IACnC,IAAI,MAAM,KAAK,SAAS;QAAE,MAAM,CAAC,MAAM,GAAG,MAAM,CAAA;IAChD,IAAI,QAAQ,KAAK,SAAS;QAAE,MAAM,CAAC,QAAQ,GAAG,QAAQ,CAAA;IACtD,OAAO,MAAM,CAAA;AACf,CAAC;AAED,+CAA+C;AAC/C,mBAAmB;AACnB,+CAA+C;AAE/C;;;;GAIG;AACH,MAAM,CAAC,KAAK,UAAU,SAAS,CAAC,IAAc,EAAE,gBAA+B,EAAE;IAC/E,oBAAoB;IACpB,MAAM,MAAM,GAAG,SAAS,CAAC,IAAI,CAAC,CAAA;IAE9B,gBAAgB;IAChB,IAAI,MAAM,CAAC,IAAI,EAAE,CAAC;QAChB,OAAO,CAAC,KAAK,CAAC,SAAS,CAAC,CAAA;QACxB,OAAO,CAAC,IAAI,CAAC,CAAC,CAAC,CAAA;IACjB,CAAC;IAED,4DAA4D;IAC5D,IAAI,CAAC,MAAM,CAAC,QAAQ,IAAI,CAAC,MAAM,CAAC,MAAM,EAAE,CAAC;QACvC,OAAO,CAAC,KAAK,CAAC,4CAA4C,CAAC,CAAA;QAC3D,OAAO,CAAC,KAAK,CAAC,SAAS,CAAC,CAAA;QACxB,OAAO,CAAC,IAAI,CAAC,CAAC,CAAC,CAAA;IACjB,CAAC;IAED,IAAI,MAAM,CAAC,QAAQ,IAAI,MAAM,CAAC,MAAM,EAAE,CAAC;QACrC,OAAO,CAAC,KAAK,CAAC,8CAA8C,CAAC,CAAA;QAC7D,OAAO,CAAC,KAAK,CAAC,SAAS,CAAC,CAAA;QACxB,OAAO,CAAC,IAAI,CAAC,CAAC,CAAC,CAAA;IACjB,CAAC;IAED,wBAAwB;IACxB,MAAM,YAAY,GAAG,mBAAmB,CAAC,aAAa,CAAC,CAAA;IAEvD,IAAI,CAAC;QACH,oEAAoE;QACpE,MAAM,WAAW,GAAG,iBAAiB,CAAC,YAAY,CAAC,CAAA;QACnD,MAAM,WAAW,CAAC,UAAU,EAAE,CAAA;QAE9B,6BAA6B;QAC7B,IAAI,UAAkB,CAAA;QAEtB,IAAI,MAAM,CAAC,MAAM,EAAE,CAAC;YAClB,yCAAyC;YACzC,UAAU,GAAG,mBAAmB,CAAC,YAAY,CAAC,MAAM,EAAE,MAAM,CAAC,MAAM,EAAE,UAAU,CAAC,CAAA;QAClF,CAAC;aAAM,CAAC;YACN,8CAA8C;YAC9C,UAAU,GAAG,OAAO,CAAC,MAAM,CAAC,QAAS,CAAC,CAAA;YAEtC,sDAAsD;YACtD,MAAM,SAAS,GAAG,YAAY,CAAC,UAAU,EAAE,aAAa,CAAC,CAAA;YACzD,IAAI,SAAS,EAAE,CAAC;gBACd,OAAO,CAAC,KAAK,CAAC,SAAS,CAAC,CAAA;gBACxB,OAAO,CAAC,QAAQ,GAAG,CAAC,CAAA;gBACpB,OAAM;YACR,CAAC;QACH,CAAC;QAED,iCAAiC;QACjC,MAAM,WAAW,CAAC,YAAY,CAAC,UAAU,CAAC,CAAA;QAE1C,kDAAkD;QAClD,IAAI,yBAAyB,CAAC,UAAU,EAAE,YAAY,CAAC,MAAM,CAAC,EAAE,CAAC;YAC/D,IAAI,CAAC;gBACH,MAAM,MAAM,CAAC,UAAU,CAAC,CAAA;YAC1B,CAAC;YAAC,OAAO,KAAc,EAAE,CAAC;gBACxB,uDAAuD;gBACvD,IACE,CAAC,CAAC,KAAK,YAAY,KAAK,CAAC;oBACzB,CAAC,CAAC,MAAM,IAAI,KAAK,CAAC;oBACjB,KAA+B,CAAC,IAAI,KAAK,QAAQ,EAClD,CAAC;oBACD,MAAM,KAAK,CAAA;gBACb,CAAC;YACH,CAAC;YAED,IAAI,CAAC;gBACH,MAAM,MAAM,CAAC,oBAAoB,CAAC,UAAU,CAAC,CAAC,CAAA;YAChD,CAAC;YAAC,OAAO,KAAc,EAAE,CAAC;gBACxB,gBAAgB;gBAChB,IACE,CAAC,CAAC,KAAK,YAAY,KAAK,CAAC;oBACzB,CAAC,CAAC,MAAM,IAAI,KAAK,CAAC;oBACjB,KAA+B,CAAC,IAAI,KAAK,QAAQ,EAClD,CAAC;oBACD,MAAM,KAAK,CAAA;gBACb,CAAC;YACH,CAAC;QACH,CAAC;QAED,sCAAsC;QACtC,MAAM,WAAW,CAAC,QAAQ,EAAE,CAAA;QAE5B,+BAA+B;QAC/B,MAAM,MAAM,GAAG;YACb,QAAQ,EAAE,UAAU;YACpB,OAAO,EAAE,IAAI;YACb,SAAS,EAAE,IAAI,IAAI,EAAE,CAAC,WAAW,EAAE;SACpC,CAAA;QACD,OAAO,CAAC,MAAM,CAAC,KAAK,CAAC,IAAI,CAAC,SAAS,CAAC,MAAM,CAAC,CAAC,CAAA;IAC9C,CAAC;IAAC,OAAO,KAAK,EAAE,CAAC;QACf,MAAM,MAAM,GAAG,KAAK,YAAY,KAAK,CAAC,CAAC,CAAC,KAAK,CAAC,OAAO,CAAC,CAAC,CAAC,MAAM,CAAC,KAAK,CAAC,CAAA;QACrE,OAAO,CAAC,KAAK,CAAC,UAAU,MAAM,EAAE,CAAC,CAAA;QACjC,OAAO,CAAC,IAAI,CAAC,CAAC,CAAC,CAAA;IACjB,CAAC;AACH,CAAC"}

package/dist/cli/ingest.d.ts

@@ -2,10 +2,12 @@ import { SemanticChunker } from '../chunker/index.js';
 import type { Embedder } from '../embedder/index.js';
 import { DocumentParser } from '../parser/index.js';
 import type { QualityProfile } from '../pdf-visual/types.js';
+import type { BaseDirsConfig, BaseDirsConfigWarning } from '../utils/base-dirs.js';
 import type { VectorStore } from '../vectordb/index.js';
 import type { GlobalOptions, ResolvedGlobalConfig } from './options.js';
 interface IngestConfig {
-    baseDir: string;
+    baseDirs: BaseDirsConfig;
+    baseDirsWarnings: BaseDirsConfigWarning[];
     dbPath: string;
     cacheDir: string;
     modelName: string;
@@ -13,7 +15,12 @@ interface IngestConfig {
     chunkMinLength?: number;
 }
 interface IngestCliOptions {
-    baseDir?: string | undefined;
+    /**
+     * Collected `--base-dir` values in CLI order. Repeatable: each flag
+     * occurrence appends one entry. An empty array means the flag was not
+     * provided (resolver then falls through to env / cwd).
+     */
+    baseDirs?: string[] | undefined;
     maxFileSize?: number | undefined;
     chunkMinLength?: number | undefined;
     visual?: boolean | undefined;
@@ -37,10 +44,20 @@ interface ParsedArgs {
 export declare function parseArgs(args: string[]): ParsedArgs;
 /**
  * Resolve ingest config by merging global config with ingest-specific options.
- * Ingest-specific: baseDir, maxFileSize (CLI flags > env vars > defaults).
- * Validates all resolved values before returning.
+ *
+ * Base directories are resolved via the shared CLI resolver
+ * ({@link resolveCliBaseDirsOrExit}) which applies the documented precedence
+ * (CLI roots > `BASE_DIRS` > `BASE_DIR` > `cwd`), realpath-normalizes every
+ * effective root, dedupes exact duplicates, and prunes nested roots. CLI
+ * roots are pre-validated against the sensitive-path policy here so the
+ * user sees `--base-dir`-attributed errors before the resolver touches the
+ * filesystem.
+ *
+ * Other ingest-specific values (maxFileSize, chunkMinLength) follow the
+ * existing CLI > env > defaults order and are validated against the same
+ * ranges as before.
  */
-export declare function resolveConfig(globalConfig: ResolvedGlobalConfig, ingestOptions?: IngestCliOptions): IngestConfig;
+export declare function resolveConfig(globalConfig: ResolvedGlobalConfig, ingestOptions?: IngestCliOptions): Promise<IngestConfig>;
 /**
  * Options for `ingestSingleFile`. Discriminated on `visual` so the visual
  * path is type-only callable with the VLM config it actually needs:

package/dist/cli/ingest.d.ts.map

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