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<h1 id="cli-reference">CLI Reference</h1>
<p>The CodeGraphContext CLI provides a comprehensive command-line interface to manage the server, index your code, search, analyzing and interact with the code graph.</p>
<h2 id="1-project-management">1. Project Management</h2>
<p>Use these commands to manage the repositories in your code graph.</p>
<table>
<thead>
<tr>
<th style="text-align: left;">Command</th>
<th style="text-align: left;">Arguments</th>
<th style="text-align: left;">Description</th>
</tr>
</thead>
<tbody>
<tr>
<td style="text-align: left;"><strong><code>cgc index</code></strong></td>
<td style="text-align: left;"><code>[path]</code> <br> <code>--force</code></td>
<td style="text-align: left;">Adds a repository to the graph. Default path is current directory. Use <code>--force</code> to re-index from scratch. <br> <em>(Alias: <code>cgc i</code>)</em></td>
</tr>
<tr>
<td style="text-align: left;"><strong><code>cgc list</code></strong></td>
<td style="text-align: left;">None</td>
<td style="text-align: left;">Lists all repositories currently indexed in the database. <br> <em>(Alias: <code>cgc ls</code>)</em></td>
</tr>
<tr>
<td style="text-align: left;"><strong><code>cgc delete</code></strong></td>
<td style="text-align: left;"><code>[path]</code> <br> <code>--all</code></td>
<td style="text-align: left;">Removes a repository from the graph. Use <code>--all</code> to wipe everything. <br> <em>(Alias: <code>cgc rm</code>)</em></td>
</tr>
<tr>
<td style="text-align: left;"><strong><code>cgc stats</code></strong></td>
<td style="text-align: left;"><code>[path]</code></td>
<td style="text-align: left;">Shows indexing statistics (node counts) for the DB or a specific repo.</td>
</tr>
<tr>
<td style="text-align: left;"><strong><code>cgc clean</code></strong></td>
<td style="text-align: left;">None</td>
<td style="text-align: left;">Removes orphaned nodes and cleans up the database.</td>
</tr>
<tr>
<td style="text-align: left;"><strong><code>cgc add-package</code></strong></td>
<td style="text-align: left;"><code><name> <lang></code></td>
<td style="text-align: left;">Manually adds an external package node (e.g., <code>cgc add-package requests python</code>).</td>
</tr>
</tbody>
</table>
<h2 id="2-watching-monitoring">2. Watching & Monitoring</h2>
<p>Automatically track changes and keep your code graph up-to-date.</p>
<table>
<thead>
<tr>
<th style="text-align: left;">Command</th>
<th style="text-align: left;">Arguments</th>
<th style="text-align: left;">Description</th>
</tr>
</thead>
<tbody>
<tr>
<td style="text-align: left;"><strong><code>cgc watch</code></strong></td>
<td style="text-align: left;"><code>[path]</code></td>
<td style="text-align: left;">Watches a directory for file changes and automatically re-indexes. Runs in foreground. Default path is current directory. <br> <em>(Alias: <code>cgc w</code>)</em></td>
</tr>
<tr>
<td style="text-align: left;"><strong><code>cgc unwatch</code></strong></td>
<td style="text-align: left;"><code><path></code></td>
<td style="text-align: left;">Stops watching a previously watched directory. (Primarily for MCP mode)</td>
</tr>
<tr>
<td style="text-align: left;"><strong><code>cgc watching</code></strong></td>
<td style="text-align: left;">None</td>
<td style="text-align: left;">Lists all directories currently being watched for changes. (Primarily for MCP mode)</td>
</tr>
</tbody>
</table>
<h2 id="3-code-analysis">3. Code Analysis</h2>
<p>Understand the structure, quality, and relationships of your code.</p>
<table>
<thead>
<tr>
<th style="text-align: left;">Command</th>
<th style="text-align: left;">Arguments</th>
<th style="text-align: left;">Description</th>
</tr>
</thead>
<tbody>
<tr>
<td style="text-align: left;"><strong><code>cgc analyze calls</code></strong></td>
<td style="text-align: left;"><code><func_name></code> <br> <code>--file</code></td>
<td style="text-align: left;">Shows <strong>outgoing</strong> calls: what functions does this function call?</td>
</tr>
<tr>
<td style="text-align: left;"><strong><code>cgc analyze callers</code></strong></td>
<td style="text-align: left;"><code><func_name></code> <br> <code>--file</code></td>
<td style="text-align: left;">Shows <strong>incoming</strong> calls: who calls this function?</td>
</tr>
<tr>
<td style="text-align: left;"><strong><code>cgc analyze chain</code></strong></td>
<td style="text-align: left;"><code><start> <end></code> <br> <code>--depth</code></td>
<td style="text-align: left;">Finds the call path between two functions. Default depth is 5.</td>
</tr>
<tr>
<td style="text-align: left;"><strong><code>cgc analyze deps</code></strong></td>
<td style="text-align: left;"><code><module></code> <br> <code>--no-external</code></td>
<td style="text-align: left;">Inspects dependencies (imports and importers) for a module.</td>
</tr>
<tr>
<td style="text-align: left;"><strong><code>cgc analyze tree</code></strong></td>
<td style="text-align: left;"><code><class_name></code> <br> <code>--file</code></td>
<td style="text-align: left;">Visualizes the Class Inheritance hierarchy for a given class.</td>
</tr>
<tr>
<td style="text-align: left;"><strong><code>cgc analyze complexity</code></strong></td>
<td style="text-align: left;"><code>[path]</code> <br> <code>--threshold</code> <br> <code>--limit</code></td>
<td style="text-align: left;">Lists functions with high Cyclomatic Complexity. Default threshold: 10.</td>
</tr>
<tr>
<td style="text-align: left;"><strong><code>cgc analyze dead-code</code></strong></td>
<td style="text-align: left;"><code>--exclude</code></td>
<td style="text-align: left;">Finds potentially unused functions (0 callers). Use <code>--exclude</code> for decorators.</td>
</tr>
</tbody>
</table>
<h2 id="4-discovery-search">4. Discovery & Search</h2>
<p>Find code elements when you don't know the exact structure.</p>
<table>
<thead>
<tr>
<th style="text-align: left;">Command</th>
<th style="text-align: left;">Arguments</th>
<th style="text-align: left;">Description</th>
</tr>
</thead>
<tbody>
<tr>
<td style="text-align: left;"><strong><code>cgc find name</code></strong></td>
<td style="text-align: left;"><code><name></code> <br> <code>--type</code></td>
<td style="text-align: left;">Finds code elements (Class, Function) by their <strong>exact</strong> name.</td>
</tr>
<tr>
<td style="text-align: left;"><strong><code>cgc find pattern</code></strong></td>
<td style="text-align: left;"><code><pattern></code> <br> <code>--case-sensitive</code></td>
<td style="text-align: left;">Finds elements using fuzzy substring matching (e.g. "User" finds "UserHelper").</td>
</tr>
<tr>
<td style="text-align: left;"><strong><code>cgc find type</code></strong></td>
<td style="text-align: left;"><code><type></code> <br> <code>--limit</code></td>
<td style="text-align: left;">Lists all nodes of a specific type (e.g. <code>function</code>, <code>class</code>, <code>module</code>).</td>
</tr>
</tbody>
</table>
<h2 id="5-configuration-setup">5. Configuration & Setup</h2>
<p>Manage your environment and database connections.</p>
<table>
<thead>
<tr>
<th style="text-align: left;">Command</th>
<th style="text-align: left;">Arguments</th>
<th style="text-align: left;">Description</th>
</tr>
</thead>
<tbody>
<tr>
<td style="text-align: left;"><strong><code>cgc mcp setup</code></strong></td>
<td style="text-align: left;">None</td>
<td style="text-align: left;">Configures your IDE/MCP Client. Creates <code>mcp.json</code>. <br> <em>(Alias: <code>cgc m</code>)</em></td>
</tr>
<tr>
<td style="text-align: left;"><strong><code>cgc neo4j setup</code></strong></td>
<td style="text-align: left;">None</td>
<td style="text-align: left;">Wizard to configure a Neo4j connection. <br> <em>(Alias: <code>cgc n</code>)</em></td>
</tr>
<tr>
<td style="text-align: left;"><strong><code>cgc config show</code></strong></td>
<td style="text-align: left;">None</td>
<td style="text-align: left;">Displays current configuration values.</td>
</tr>
<tr>
<td style="text-align: left;"><strong><code>cgc config set</code></strong></td>
<td style="text-align: left;"><code><key> <value></code></td>
<td style="text-align: left;">Sets a config value (e.g. <code>DEFAULT_DATABASE</code>).</td>
</tr>
<tr>
<td style="text-align: left;"><strong><code>cgc config reset</code></strong></td>
<td style="text-align: left;">None</td>
<td style="text-align: left;">Resets configuration to defaults.</td>
</tr>
<tr>
<td style="text-align: left;"><strong><code>cgc config db</code></strong></td>
<td style="text-align: left;"><code><backend></code></td>
<td style="text-align: left;">Quick switch between <code>neo4j</code> and <code>falkordb</code>.</td>
</tr>
</tbody>
</table>
<h2 id="6-utilities-runtime">6. Utilities & Runtime</h2>
<p>Helper commands for developers and the MCP server.</p>
<table>
<thead>
<tr>
<th style="text-align: left;">Command</th>
<th style="text-align: left;">Arguments</th>
<th style="text-align: left;">Description</th>
</tr>
</thead>
<tbody>
<tr>
<td style="text-align: left;"><strong><code>cgc doctor</code></strong></td>
<td style="text-align: left;">None</td>
<td style="text-align: left;">Runs system diagnostics (DB connection, dependencies, permissions).</td>
</tr>
<tr>
<td style="text-align: left;"><strong><code>cgc visualize</code></strong></td>
<td style="text-align: left;"><code>[query]</code></td>
<td style="text-align: left;">Generates a link to open the Neo4j Browser. <br> <em>(Alias: <code>cgc v</code>)</em></td>
</tr>
<tr>
<td style="text-align: left;"><strong><code>cgc query</code></strong></td>
<td style="text-align: left;"><code><query></code></td>
<td style="text-align: left;">Executes a raw Cypher query directly against the DB.</td>
</tr>
<tr>
<td style="text-align: left;"><strong><code>cgc mcp start</code></strong></td>
<td style="text-align: left;">None</td>
<td style="text-align: left;">Starts the MCP Server (used by IDEs).</td>
</tr>
<tr>
<td style="text-align: left;"><strong><code>cgc mcp tools</code></strong></td>
<td style="text-align: left;">None</td>
<td style="text-align: left;">Lists all available MCP tools supported by the server.</td>
</tr>
<tr>
<td style="text-align: left;"><strong><code>cgc start</code></strong></td>
<td style="text-align: left;">None</td>
<td style="text-align: left;"><strong>Deprecated</strong>. Use <code>cgc mcp start</code> instead.</td>
</tr>
</tbody>
</table>
</article>
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