npm - @graphite-atlas/mcp-server - Versions diffs - 1.1.0 → 1.2.0 - Mend

@graphite-atlas/mcp-server 1.1.0 → 1.2.0

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Files changed (15) hide show

package/README.md CHANGED Viewed

@@ -4,11 +4,17 @@ A [Model Context Protocol (MCP)](https://modelcontextprotocol.io) server that pr
 ## Features
-- 🗺️ **Atlas Management**: Create, read, update, and delete knowledge graphs
-- 📍 **Point Operations**: Add and manage nodes (entities) in your graphs
-- 🔗 **Path Operations**: Create and manage edges (relationships) between points
-- 🧠 **Brain Dump**: AI-powered graph generation from text
-- 🔍 **Search**: Find points and paths across your atlases
+- 🗺️ **Atlas Management** (5 tools): Create, read, update, and delete knowledge graphs
+- 📍 **Point Operations** (6 tools): Add and manage nodes (entities) in your graphs
+- 🔗 **Path Operations** (6 tools): Create and manage edges (relationships) between points
+- 👁️ **View Management** (10 tools): Organize points into views with folders and visibility controls
+- 📦 **Batch Operations** (1 tool): Create multiple points and paths in a single atomic call
+- 🧠 **Brain Dump** (2 tools): AI-powered graph generation from unstructured text
+- ✅ **Validation & Ontology** (4 tools): Validate types, find duplicates, and browse the ontology
+- 📊 **Analytics** (4 tools): PageRank, betweenness centrality, neighborhoods, isolated nodes
+- 🧮 **MAGE Algorithms** (7 tools): Community detection, shortest path, node similarity, and more
+**48 tools** across 9 categories. The server includes built-in ontology context so Claude knows what Atlas is and how to use it without needing extra prompts.
 ## Installation
@@ -36,40 +42,32 @@ Before using the MCP server, you need a JWT access token from Graphite Atlas:
 2. **Navigate** to Profile → API Apps tab
 3. **Create** a new API app:
    - Click "New App"
-   - Name: "Claude Desktop MCP"
-   - Description: "MCP server for Claude Desktop integration"
+   - Name: "Claude MCP"
+   - Description: "MCP server for Claude integration"
    - Click "Create App"
 4. **Generate a JWT token**:
    - Click "Generate Token" on your new app
-   - Token Name: "Claude Desktop"
+   - Token Name: "Claude"
    - Environment: Production (or Development for testing)
-   - Scopes: Select the permissions you need (see [Scopes](#jwt-scopes) below)
-     - Recommended: Select "*" (Full Access) for easiest setup
-     - Or select specific scopes like `read:points`, `write:points`, `read:paths`, `write:paths`, etc.
+   - Scopes: Select "*" (Full Access) for easiest setup
    - Expires In: 90 days (recommended)
    - Click "Generate Token"
-5. **Copy your JWT token**:
-   - The token will only be shown **once** - copy it immediately!
-   - You can also copy the auto-generated Claude Desktop config snippet
+5. **Copy your JWT token** — it will only be shown **once**!
-### 2. Configure Claude Desktop
+### 2. Configure Your Client
-Add the MCP server to your Claude Desktop configuration:
+#### Claude Code (CLI)
-**macOS**: `~/Library/Application Support/Claude/claude_desktop_config.json`
-**Windows**: `%APPDATA%\Claude\claude_desktop_config.json`
+Add to `~/.claude/claude_code_config.json`:
 ```json
 {
   "mcpServers": {
     "graphite-atlas": {
       "command": "npx",
-      "args": [
-        "@graphite-atlas/mcp-server"
-      ],
+      "args": ["@graphite-atlas/mcp-server"],
       "env": {
-        "GRAPHITE_ACCESS_TOKEN": "your_access_token_here",
+        "GRAPHITE_ACCESS_TOKEN": "your_token_here",
         "GRAPHITE_API_URL": "https://graphiteatlas.com"
       }
     }
@@ -77,18 +75,20 @@ Add the MCP server to your Claude Desktop configuration:
 }
 ```
-Or if running from source:
+#### Claude Desktop
+**macOS**: `~/Library/Application Support/Claude/claude_desktop_config.json`
+**Windows**: `%APPDATA%\Claude\claude_desktop_config.json`
 ```json
 {
   "mcpServers": {
     "graphite-atlas": {
-      "command": "node",
-      "args": [
-        "/path/to/graphite_atlas/mcp/dist/index.js"
-      ],
+      "command": "npx",
+      "args": ["@graphite-atlas/mcp-server"],
       "env": {
-        "GRAPHITE_ACCESS_TOKEN": "your_access_token_here",
+        "GRAPHITE_ACCESS_TOKEN": "your_token_here",
         "GRAPHITE_API_URL": "https://graphiteatlas.com"
       }
     }
@@ -96,218 +96,136 @@ Or if running from source:
 }
 ```
-### 3. Restart Claude Desktop
-Restart Claude Desktop to load the new MCP server.
+### 3. Restart and Test
-### 4. Test It!
+Restart your client, then ask Claude:
-Ask Claude:
 ```
-"List my Graphite Atlas knowledge graphs"
+"List my atlases"
 ```
-Claude should use the `list_atlases` tool to fetch and display your atlases.
+Claude should use the `list_atlases` tool to fetch and display your knowledge graphs.
 ## Available Tools
-### Atlas Management
+### Atlas Management (5 tools)
-#### `list_atlases`
-List all knowledge graphs owned by the user.
+| Tool | Description |
+|------|-------------|
+| `list_atlases` | List all knowledge graphs |
+| `get_atlas` | Get details of a specific atlas |
+| `create_atlas` | Create a new knowledge graph |
+| `update_atlas` | Update atlas name or description |
+| `delete_atlas` | Delete an atlas permanently |
-**Parameters**: None
+### Point Operations (6 tools)
-**Example**:
-```
-"Show me all my atlases"
-```
+Points are nodes in the graph — people, processes, systems, outcomes, etc.
-#### `get_atlas`
-Get details of a specific atlas.
+| Tool | Description |
+|------|-------------|
+| `list_points` | List all points in an atlas |
+| `get_point` | Get a specific point by ID |
+| `create_point` | Create a new point (name, type, properties) |
+| `update_point` | Update a point's name, type, or properties |
+| `delete_point` | Delete a point |
+| `search_points` | Search points by name or type |
-**Parameters**:
-- `atlas_id` (string, required): The atlas ID
+**Valid point types**: Person, Position, Group, Organization, Vendor, Process, Step, Review, Decision, Approval, Handoff, Task, Sequence, StepGroup, And, Or, System, Artifact, API, Equipment, Skill, Transport, Outcome, Metric, Physical Site, Date, TimeRange, Temporal, AbsoluteDate, RelativeOffset
-**Example**:
-```
-"Show me details for atlas abc-123"
-```
-#### `create_atlas`
-Create a new knowledge graph.
-**Parameters**:
-- `name` (string, required): Atlas name
-- `description` (string, optional): Atlas description
-**Example**:
-```
-"Create a new atlas called 'Project Notes' for tracking my project ideas"
-```
+Use `lookup_ontology` to browse types and their descriptions before creating.
-#### `update_atlas`
-Update an atlas name or description.
+### Path Operations (6 tools)
-**Parameters**:
-- `atlas_id` (string, required): The atlas ID
-- `name` (string, optional): New name
-- `description` (string, optional): New description
+Paths are typed relationships between points.
-#### `delete_atlas`
-Delete an atlas permanently.
+| Tool | Description |
+|------|-------------|
+| `list_paths` | List all paths in an atlas |
+| `get_path` | Get a specific path by ID |
+| `create_path` | Create a path between two points |
+| `update_path` | Update a path's type or properties |
+| `delete_path` | Delete a path |
+| `search_paths` | Search paths by type |
-**Parameters**:
-- `atlas_id` (string, required): The atlas ID
+**Valid path types**: has_role, reports_to, member_of, responsible_for, assigned_to, has_skill, has_subsidiary, operates_under, has_interest, performs, has_step, followed_by, followed_by_if, creates_output, from_person, to_person, handoff_of, needs_input, uses_resource, measured_by, impacts, located_in, happens_before, happens_after, simultaneous_with, has_deadline, part_of
-**⚠️ Warning**: This action cannot be undone.
+Use `lookup_ontology` with `paths_for_type` to see which paths are valid for a given point type.
-### Point (Node) Operations
+### View Management (10 tools)
-#### `list_points`
-List all points in an atlas.
+Views organize subsets of points into named collections with layout and visibility controls.
-**Parameters**:
-- `atlas_id` (string, required): The atlas ID
+| Tool | Description |
+|------|-------------|
+| `list_views` | List all views in an atlas |
+| `get_view` | Get view details |
+| `create_view` | Create a new view |
+| `update_view` | Update view settings |
+| `delete_view` | Delete a view |
+| `get_view_points` | Get points in a view with visibility state |
+| `add_points_to_view` | Add points to a view |
+| `remove_point_from_view` | Remove a point from a view |
+| `toggle_point_visibility` | Show/hide a point in a view |
+| `get_view_hierarchy` | Get the folder tree for views |
-**Example**:
-```
-"Show me all points in my Project Notes atlas"
-```
+### Batch Operations (1 tool)
-#### `get_point`
-Get details of a specific point.
+| Tool | Description |
+|------|-------------|
+| `batch_create` | Create multiple points and paths in one atomic call |
-**Parameters**:
-- `atlas_id` (string, required): The atlas ID
-- `point_id` (string, required): The point ID
+Batch create accepts point names (not IDs) for path source/target, resolving them automatically. Useful for building out an entire org structure or process map in one call.
-#### `create_point`
-Create a new point (entity/concept).
+### Brain Dump (2 tools)
-**Parameters**:
-- `atlas_id` (string, required): The atlas ID
-- `name` (string, required): Point name
-- `type` (string, required): Point type (e.g., "Person", "Company", "Concept")
-- `properties` (object, optional): Additional properties
+| Tool | Description |
+|------|-------------|
+| `brain_dump` | Generate a knowledge graph from unstructured text using AI |
+| `get_brain_dump_status` | Check the status of a brain dump operation |
-**Example**:
-```
-"In my Project Notes atlas, create a new point called 'AI Integration' of type 'Feature' with property 'priority' set to 'high'"
-```
-#### `update_point`
-Update a point's name, type, or properties.
-**Parameters**:
-- `atlas_id` (string, required): The atlas ID
-- `point_id` (string, required): The point ID
-- `name` (string, optional): New name
-- `type` (string, optional): New type
-- `properties` (object, optional): Updated properties (merged)
-#### `delete_point`
-Delete a point from an atlas.
-**Parameters**:
-- `atlas_id` (string, required): The atlas ID
-- `point_id` (string, required): The point ID
-#### `search_points`
-Search for points by name or type.
-**Parameters**:
-- `atlas_id` (string, required): The atlas ID
-- `query` (string, required): Search query
-**Example**:
-```
-"Search for all points related to 'AI' in my Project Notes atlas"
-```
-### Path (Relationship) Operations
-#### `list_paths`
-List all paths (relationships) in an atlas.
-**Parameters**:
-- `atlas_id` (string, required): The atlas ID
-#### `get_path`
-Get details of a specific path.
-**Parameters**:
-- `atlas_id` (string, required): The atlas ID
-- `path_id` (string, required): The path ID
-#### `create_path`
-Create a new path between two points.
-**Parameters**:
-- `atlas_id` (string, required): The atlas ID
-- `name` (string, required): Path name
-- `type` (string, required): Path type (e.g., "KNOWS", "WORKS_AT", "DEPENDS_ON")
-- `source_id` (string, required): Source point ID
-- `target_id` (string, required): Target point ID
-- `properties` (object, optional): Additional properties
-**Example**:
-```
-"Create a 'DEPENDS_ON' relationship from 'AI Integration' feature to 'Database Upgrade' feature"
-```
+Pass meeting notes, transcripts, or any narrative text and the AI will extract structured points and paths.
-#### `update_path`
-Update a path's name, type, or properties.
+### Validation & Ontology (4 tools)
-**Parameters**:
-- `atlas_id` (string, required): The atlas ID
-- `path_id` (string, required): The path ID
-- `name` (string, optional): New name
-- `type` (string, optional): New type
-- `properties` (object, optional): Updated properties
+| Tool | Description |
+|------|-------------|
+| `validate_points` | Validate point types against the ontology before creation |
+| `validate_paths` | Validate path types against the ontology before creation |
+| `find_similar_points` | Find existing points similar to a proposed name (duplicate detection) |
+| `lookup_ontology` | Browse valid types, categories, and path constraints |
-#### `delete_path`
-Delete a path from an atlas.
+#### `lookup_ontology` Query Modes
-**Parameters**:
-- `atlas_id` (string, required): The atlas ID
-- `path_id` (string, required): The path ID
+| Mode | Description |
+|------|-------------|
+| `point_types` | List all valid point types, optionally filtered by category |
+| `path_types` | List all valid path types with source/target constraints |
+| `paths_for_type` | Show all valid paths from/to a specific point type |
+| `search` | Case-insensitive search across type names and descriptions |
-#### `search_paths`
-Search for paths by name or type.
+### Analytics (4 tools)
-**Parameters**:
-- `atlas_id` (string, required): The atlas ID
-- `query` (string, required): Search query
+| Tool | Description |
+|------|-------------|
+| `get_page_rank` | Rank nodes by influence/authority |
+| `get_betweenness_centrality` | Find bridge nodes connecting communities |
+| `get_node_neighborhood` | Get a node's immediate connections |
+| `find_isolated_nodes` | Find disconnected nodes with no relationships |
-### Brain Dump (AI Graph Generation)
+### MAGE Graph Algorithms (7 tools)
-#### `brain_dump`
-Use AI to automatically generate a knowledge graph from text.
+Advanced algorithms powered by Memgraph's MAGE library.
-**Parameters**:
-- `atlas_id` (string, required): The atlas ID to add generated graph to
-- `text` (string, required): Text to analyze (notes, articles, transcripts)
-- `process_name` (string, optional): Name for this brain dump process
-**Example**:
-```
-"Take this meeting transcript and create a knowledge graph in my Project Notes atlas:
-[Meeting notes about AI project planning, stakeholders, dependencies...]
-"
-```
-#### `get_brain_dump_status`
-Check the status of a brain dump operation.
-**Parameters**:
-- `operation_id` (string, required): Operation ID from brain_dump
-**Example**:
-```
-"Check the status of brain dump operation op-xyz-789"
-```
+| Tool | Description |
+|------|-------------|
+| `mage_pagerank` | PageRank with configurable damping factor |
+| `mage_betweenness_centrality` | Betweenness centrality (normalized) |
+| `mage_detect_communities` | Community detection via Leiden algorithm |
+| `mage_connected_components` | Find disconnected subgraphs |
+| `mage_node_similarity` | Jaccard similarity between nodes |
+| `mage_shortest_path` | BFS shortest path between two nodes |
+| `mage_degree_centrality` | Most connected nodes (in/out/both) |
 ## JWT Scopes
@@ -315,7 +233,7 @@ When generating your JWT token, select the scopes you need:
 | Scope | Required For | Description |
 |-------|-------------|-------------|
-| `*` | All operations | Full access to all resources (recommended for personal use) |
+| `*` | All operations | Full access to all resources (recommended) |
 | `read:atlases` | List/get atlases | View your knowledge graphs |
 | `write:atlases` | Create/update atlases | Create and modify atlases |
 | `delete:atlases` | Delete atlases | Permanently delete atlases |
@@ -329,70 +247,31 @@ When generating your JWT token, select the scopes you need:
 | `use:llm` | Brain dump | AI-powered graph generation |
 | `use:embeddings` | Semantic search | AI-powered semantic search |
-**Recommended for personal use**:
-```
-* (Full Access)
-```
-**Recommended minimal scopes** for read-only access:
-```
-read:atlases read:points read:paths read:schema
-```
-**Recommended scopes** for full graph editing:
-```
-read:atlases write:atlases delete:atlases read:points write:points delete:points read:paths write:paths delete:paths read:schema use:llm
-```
-Or simply use wildcard patterns:
-```
-read:* write:* delete:*
-```
+**Recommended**: `*` (Full Access)
 ## Environment Variables
 | Variable | Description | Default |
 |----------|-------------|---------|
-| `GRAPHITE_ACCESS_TOKEN` | OAuth access token (required) | - |
+| `GRAPHITE_ACCESS_TOKEN` | JWT access token (required) | - |
 | `GRAPHITE_API_URL` | Graphite Atlas API base URL | `https://graphiteatlas.com` |
 ## Development
-### Build
-```bash
-npm run build
-```
-### Watch Mode
-```bash
-npm run watch
-```
-### Development Mode (with auto-reload)
 ```bash
-npm run dev
-```
-### Linting
-```bash
-npm run lint
-```
-### Type Checking
-```bash
-npm run typecheck
+npm run build        # Compile TypeScript
+npm run watch        # Watch mode
+npm run dev          # Dev mode with tsx
+npm run lint         # ESLint
+npm run typecheck    # TypeScript type check
+npm test             # Run tests
 ```
 ## Troubleshooting
 ### "GRAPHITE_ACCESS_TOKEN environment variable is required"
-You need to provide a valid OAuth access token. See [Quick Start](#quick-start) for instructions on getting one.
+You need to provide a valid JWT access token. See [Quick Start](#quick-start).
 ### "Failed to connect to Graphite Atlas API"
@@ -400,18 +279,16 @@ Check that:
 1. Your access token is valid (not expired)
 2. The API URL is correct
 3. You have network connectivity
-4. The Graphite Atlas API is operational
 ### "API Error (401): Unauthorized"
-Your access token may be expired. Generate a new one using the refresh token flow or by reauthorizing.
+Your access token may be expired. Generate a new one from Profile → API Apps.
-### Tools not appearing in Claude Desktop
+### Tools not appearing in Claude
-1. Check the Claude Desktop logs (Help → View Logs)
+1. Check client logs for errors
 2. Verify your config file syntax is valid JSON
-3. Restart Claude Desktop after config changes
-4. Check that the MCP server is executable (`chmod +x dist/index.js` if needed)
+3. Restart your client after config changes
 ## Security
@@ -419,11 +296,6 @@ Your access token may be expired. Generate a new one using the refresh token flo
 - **Never share** your access token publicly
 - **Rotate tokens** regularly
 - **Use minimal scopes** required for your use case
-- **Revoke unused** OAuth apps from Settings → Developer
-## Contributing
-Contributions welcome! Please open an issue or PR.
 ## License
@@ -432,8 +304,7 @@ MIT
 ## Support
 - **Documentation**: https://docs.graphiteatlas.com
-- **Issues**: https://github.com/graphite-atlas/mcp-server/issues
-- **Email**: support@graphiteatlas.com
+- **Issues**: https://github.com/graphiteatlas/mcp/issues
 ---

package/dist/client.d.ts.map CHANGED Viewed

	@@ -1 +1 @@
1	- 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1	+ 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package/dist/client.js CHANGED Viewed

@@ -12,6 +12,8 @@ export class GraphiteAtlasClient {
             headers: {
                 Authorization: `Bearer ${config.accessToken}`,
                 "Content-Type": "application/json",
+                "User-Agent": "graphite-atlas-mcp/1.2.0",
+                "X-Graphite-Source": "mcp",
             },
             timeout: 30000, // 30 second timeout
         });

package/dist/client.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- 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package/dist/index.js CHANGED Viewed

@@ -69,6 +69,91 @@ VALID PATH TYPES (key relationships):
 - Handoff → Person: to_person
 - Step/Person → Physical Site: located_in
+TERMINOLOGY:
+Atlas uses map metaphors, not graph database jargon. Use the correct terms:
+- Atlas (not "knowledge graph" or "graph database")
+- Points (not "nodes" or "entities" or "vertices")
+- Paths (not "edges" or "relationships" or "links")
+- Views (not "subgraphs" or "filters")
+When presenting results to users, always use these terms.
+MODELING PHILOSOPHY:
+When building or modifying an atlas, favor simplicity over completeness. The goal is minimal primitives through which 90% of business concepts can be expressed.
+- Don't over-model — if something can be a property, don't make it a separate point
+- Don't get bogged down in taxonomy debates — pick a reasonable type and move on
+- Consistency matters more than perfection — use the same patterns across the atlas
+- For shared nodes (systems, people, groups that appear in multiple processes): keep the point description general — what it IS across the business. Put process-specific context on the path descriptions — what it DOES in that process. This ensures explanations are correct regardless of which process is being discussed.
+PROCESS vs STEP:
+A Process is just a Step that has sub-steps. The distinction is structural:
+- Step — an atomic action (no children)
+- Process — a collection of Steps (has children via has_step)
+Processes can contain other Processes (sub-processes). If a Step gains sub-steps, it should become a Process.
+ATLAS QUALITY PRINCIPLES:
+When building atlas structures, follow these patterns:
+- Accountability chain: Person → has_role → Position → responsible_for → Outcome/Process
+- Process structure: Process → has_step → Step → followed_by → Step
+- Outcome measurement: Outcome → measured_by → Metric → impacts → Metric
+Key rules:
+- Outcomes connect to Positions (not People directly)
+- Every Step should have a performer (Position)
+- Handoffs need both sender and receiver
+- Avoid orphan points (everything should connect)
+ALIASES:
+Points can have an aliases property — an array of alternate names, abbreviations, or nicknames. The name field is the canonical/formal name. Aliases are informal references (e.g., "AA" for "Art Authentication", "Tim" for "Timothy"). When users mention an alias, resolve to the formal name. Don't create separate points for aliases.
+PATH METADATA:
+Most paths don't need descriptions or extra properties — the relationship type (reports_to, has_role, etc.) speaks for itself. Only add path properties when the relationship has a meaningful qualifier:
+- Yes: followed_by_if with condition "if budget approved"
+- Yes: responsible_for with scope "primary"
+- No: reports_to with description "Sarah reports to John" (redundant — the path already says that)
+CREATING DATA — Search Before You Write:
+Before creating any point or path:
+1. Search first — use search_points or find_similar_points to check if it already exists
+2. Reference existing entities by name — don't create duplicates
+3. Show what's NEW vs EXISTING — make it clear what you're adding vs what already exists
+4. Use batch_create for multiple entities — one atomic operation instead of many individual calls
+GRAPH-GROUNDED OUTPUT:
+When answering questions about the user's business, every statement must come from the Atlas data. Do not add generic boilerplate, invented qualifications, or corporate fluff. If data is missing, say so explicitly rather than guessing. The atlas is the source of truth.
+QUERY STRATEGY — Read the Map, Don't Memorize It:
+You're a navigator. Zoom into the relevant part of the map, don't unfold every page in the atlas. Always start with the question, not the data. Before pulling anything, ask: what part of the atlas actually answers this?
+The right tool for the job:
+- "Who reports to X?" → search_points for X, then get_node_neighborhood
+- "What systems does this process use?" → get_node_neighborhood on the process
+- "What's most important here?" → get_page_rank or get_betweenness_centrality
+- "Show me all the processes" → search_points filtered by type
+- "How are A and B connected?" → mage_shortest_path between the two points
+- "Are there any gaps in the data?" → find_isolated_nodes
+- "Give me a broad overview" → see below
+- Complex multi-hop traversals or aggregations → query_cypher
+For broad overview questions, build the picture incrementally:
+1. Orient first — use query_cypher to count points by type: MATCH (p:Point {atlasId: $atlasId}) WHERE p.deletedAt IS NULL RETURN p.type as type, count(p) as count ORDER BY count DESC
+2. Start with search_points for Processes — they define what the business does
+3. Use get_page_rank to find the most important points
+4. Traverse outward from those anchors with get_node_neighborhood
+5. Fill in specifics only as needed
+Exception: For small atlases under ~50 points, a full list_points is acceptable for overview questions. But even then, prefer targeted queries for targeted questions.
+NEVER do this:
+- list_points + list_paths as your opening move on a large atlas
+- Loading hundreds of points to answer a question about one person
+- Reading every path to find one relationship type
+ALWAYS do this:
+- Search for what's relevant first
+- Traverse outward from anchor points
+- Use analytics tools to find what matters
+- Use query_cypher for complex traversals, aggregations, and pattern matching
+- Build understanding incrementally — like reading a map, not memorizing a phone book
 RULES:
 - Use lookup_ontology to verify types before creating points or paths
 - Use find_similar_points before creating to avoid duplicates

package/dist/index.js.map CHANGED Viewed

	@@ -1 +1 @@
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package/dist/tools/index.d.ts CHANGED Viewed

@@ -22,6 +22,7 @@ export interface MCPTool {
  * - Batch operations (1 tool)
  * - Brain dump/LLM (2 tools)
  * - Validation & ontology (4 tools)
+ * - Query (1 tool)
  * - Analytics (4 tools)
  * - MAGE algorithms (7 tools)
  */

package/dist/tools/index.d.ts.map CHANGED Viewed

	@@ -1 +1 @@
1	- {"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../../src/tools/index.ts"],"names":[],"mappings":"AAAA;;;;GAIG;AAEH,OAAO,EAAE,IAAI,EAAE,MAAM,oCAAoC,CAAC;AAC1D,OAAO,EAAE,mBAAmB,EAAE,MAAM,cAAc,CAAC;~~AAWnD~~,MAAM,WAAW,OAAO;IACtB,IAAI,EAAE,MAAM,CAAC;IACb,WAAW,EAAE,MAAM,CAAC;IACpB,WAAW,EAAE,IAAI,CAAC,aAAa,CAAC,CAAC;IACjC,OAAO,EAAE,CAAC,IAAI,EAAE,MAAM,CAAC,MAAM,EAAE,OAAO,CAAC,KAAK,OAAO,CAAC,OAAO,CAAC,CAAC;CAC9D;AAED~~;;;;;;;;;;;;;GAaG~~;AACH,wBAAgB,UAAU,CAAC,MAAM,EAAE,mBAAmB,GAAG,OAAO,EAAE,~~CAYjE~~"}
1	+ {"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../../src/tools/index.ts"],"names":[],"mappings":"AAAA;;;;GAIG;AAEH,OAAO,EAAE,IAAI,EAAE,MAAM,oCAAoC,CAAC;AAC1D,OAAO,EAAE,mBAAmB,EAAE,MAAM,cAAc,CAAC;AAYnD,MAAM,WAAW,OAAO;IACtB,IAAI,EAAE,MAAM,CAAC;IACb,WAAW,EAAE,MAAM,CAAC;IACpB,WAAW,EAAE,IAAI,CAAC,aAAa,CAAC,CAAC;IACjC,OAAO,EAAE,CAAC,IAAI,EAAE,MAAM,CAAC,MAAM,EAAE,OAAO,CAAC,KAAK,OAAO,CAAC,OAAO,CAAC,CAAC;CAC9D;AAED;;;;;;;;;;;;;;GAcG;AACH,wBAAgB,UAAU,CAAC,MAAM,EAAE,mBAAmB,GAAG,OAAO,EAAE,CAajE"}

package/dist/tools/index.js CHANGED Viewed

@@ -11,6 +11,7 @@ import { createBrainDumpTools } from "./brain-dump.js";
 import { createValidationTools } from "./validation.js";
 import { createAnalyticsTools } from "./analytics.js";
 import { createMAGETools } from "./mage.js";
+import { createQueryTools } from "./query.js";
 import { createViewTools } from "./views.js";
 /**
  * Set up all tools for the MCP server
@@ -23,6 +24,7 @@ import { createViewTools } from "./views.js";
  * - Batch operations (1 tool)
  * - Brain dump/LLM (2 tools)
  * - Validation & ontology (4 tools)
+ * - Query (1 tool)
  * - Analytics (4 tools)
  * - MAGE algorithms (7 tools)
  */
@@ -34,6 +36,7 @@ export function setupTools(client) {
         ...createViewTools(client),
         ...createBatchTools(client),
         ...createBrainDumpTools(client),
+        ...createQueryTools(client),
         ...createValidationTools(client),
         ...createAnalyticsTools(client),
         ...createMAGETools(client),

package/dist/tools/index.js.map CHANGED Viewed

	@@ -1 +1 @@
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1	+ {"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/tools/index.ts"],"names":[],"mappings":"AAAA;;;;GAIG;AAIH,OAAO,EAAE,gBAAgB,EAAE,MAAM,cAAc,CAAC;AAChD,OAAO,EAAE,gBAAgB,EAAE,MAAM,aAAa,CAAC;AAC/C,OAAO,EAAE,eAAe,EAAE,MAAM,YAAY,CAAC;AAC7C,OAAO,EAAE,gBAAgB,EAAE,MAAM,YAAY,CAAC;AAC9C,OAAO,EAAE,oBAAoB,EAAE,MAAM,iBAAiB,CAAC;AACvD,OAAO,EAAE,qBAAqB,EAAE,MAAM,iBAAiB,CAAC;AACxD,OAAO,EAAE,oBAAoB,EAAE,MAAM,gBAAgB,CAAC;AACtD,OAAO,EAAE,eAAe,EAAE,MAAM,WAAW,CAAC;AAC5C,OAAO,EAAE,gBAAgB,EAAE,MAAM,YAAY,CAAC;AAC9C,OAAO,EAAE,eAAe,EAAE,MAAM,YAAY,CAAC;AAS7C;;;;;;;;;;;;;;GAcG;AACH,MAAM,UAAU,UAAU,CAAC,MAA2B;IACpD,OAAO;QACL,GAAG,gBAAgB,CAAC,MAAM,CAAC;QAC3B,GAAG,gBAAgB,CAAC,MAAM,CAAC;QAC3B,GAAG,eAAe,CAAC,MAAM,CAAC;QAC1B,GAAG,eAAe,CAAC,MAAM,CAAC;QAC1B,GAAG,gBAAgB,CAAC,MAAM,CAAC;QAC3B,GAAG,oBAAoB,CAAC,MAAM,CAAC;QAC/B,GAAG,gBAAgB,CAAC,MAAM,CAAC;QAC3B,GAAG,qBAAqB,CAAC,MAAM,CAAC;QAChC,GAAG,oBAAoB,CAAC,MAAM,CAAC;QAC/B,GAAG,eAAe,CAAC,MAAM,CAAC;KAC3B,CAAC;AACJ,CAAC"}

package/dist/tools/query.d.ts ADDED Viewed

@@ -0,0 +1,9 @@
+/**
+ * Cypher Query Tool
+ *
+ * Exposes read-only Cypher queries for complex graph traversals.
+ */
+import { GraphiteAtlasClient } from '../client.js';
+import { MCPTool } from './index.js';
+export declare function createQueryTools(client: GraphiteAtlasClient): MCPTool[];
+//# sourceMappingURL=query.d.ts.map

package/dist/tools/query.d.ts.map ADDED Viewed

	@@ -0,0 +1 @@
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package/dist/tools/query.js ADDED Viewed

@@ -0,0 +1,111 @@
+/**
+ * Cypher Query Tool
+ *
+ * Exposes read-only Cypher queries for complex graph traversals.
+ */
+import { z } from 'zod';
+/**
+ * Read-only validation: reject any write operations
+ */
+const FORBIDDEN_OPERATIONS = [
+    'CREATE',
+    'MERGE',
+    'DELETE',
+    'DETACH',
+    'SET',
+    'REMOVE',
+    'DROP',
+    'CALL',
+    'LOAD',
+    'FOREACH',
+];
+function validateReadOnly(query) {
+    const upperQuery = query.toUpperCase();
+    for (const op of FORBIDDEN_OPERATIONS) {
+        // Word boundary check to avoid false positives (e.g., "DELETED" as a property)
+        const regex = new RegExp(`\\b${op}\\b`);
+        if (regex.test(upperQuery)) {
+            return {
+                valid: false,
+                reason: `Query contains forbidden operation: ${op}. Only read-only queries (MATCH, RETURN, WITH, WHERE, ORDER BY, LIMIT) are allowed.`,
+            };
+        }
+    }
+    return { valid: true };
+}
+export function createQueryTools(client) {
+    return [
+        {
+            name: 'query_cypher',
+            description: `Execute a read-only Cypher query against the graph database. Useful for complex traversals, aggregations, and pattern matching that go beyond the standard tools.
+The atlas_id is automatically injected as the $atlasId parameter, so use it in your queries to scope to the correct atlas.
+Only read-only queries are allowed (MATCH, RETURN, WITH, WHERE, ORDER BY, LIMIT, UNWIND, OPTIONAL MATCH). Write operations (CREATE, MERGE, DELETE, SET) are blocked.
+Example queries:
+Find all people and their roles:
+MATCH (p:Point {atlasId: $atlasId, type: 'Person'})-[r:PATH]->(pos:Point {type: 'Position'})
+WHERE r.type = 'has_role'
+RETURN p.name as person, pos.name as role
+Count points by type:
+MATCH (p:Point {atlasId: $atlasId})
+WHERE p.deletedAt IS NULL
+RETURN p.type as type, count(p) as count
+ORDER BY count DESC
+Multi-hop traversal (who reports to who):
+MATCH path = (p:Point {atlasId: $atlasId, type: 'Person'})-[:PATH*1..3]->(mgr:Point {type: 'Position'})
+RETURN p.name, [n IN nodes(path) | n.name] as chain
+LIMIT 20
+When to use query_cypher:
+- Multi-hop traversals
+- Aggregations (counts, grouping)
+- Complex filtering
+- Pattern matching across relationship types
+- Any query that would require multiple list/search calls`,
+            inputSchema: {
+                type: 'object',
+                properties: {
+                    atlas_id: {
+                        type: 'string',
+                        description: 'The atlas ID to query',
+                    },
+                    query: {
+                        type: 'string',
+                        description: 'The Cypher query to execute (read-only)',
+                    },
+                },
+                required: ['atlas_id', 'query'],
+            },
+            async execute(args) {
+                const schema = z.object({
+                    atlas_id: z.string(),
+                    query: z.string(),
+                });
+                const { atlas_id, query } = schema.parse(args);
+                // Validate read-only
+                const validation = validateReadOnly(query);
+                if (!validation.valid) {
+                    return {
+                        success: false,
+                        error: validation.reason,
+                    };
+                }
+                const results = await client.queryCypher(atlas_id, {
+                    query,
+                    parameters: { atlasId: atlas_id },
+                });
+                return {
+                    success: true,
+                    results: Array.isArray(results) ? results : [],
+                    count: Array.isArray(results) ? results.length : 0,
+                };
+            },
+        },
+    ];
+}
+//# sourceMappingURL=query.js.map

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package/package.json CHANGED Viewed

@@ -1,6 +1,6 @@
 {
   "name": "@graphite-atlas/mcp-server",
-  "version": "1.1.0",
+  "version": "1.2.0",
   "description": "Model Context Protocol server for Graphite Atlas",
   "type": "module",
   "main": "dist/index.js",