chore: remove run-metadata.json functionality

Reasoning:
- Pollutes target repo with run-metadata.json
- Redundant with audit system (session.json has all metadata)
- Less useful than comprehensive audit logs
- Target repos should stay clean - only deliverables belong there

All debugging info now lives in audit-logs/{hostname}_{sessionId}/session.json

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude <noreply@anthropic.com>

shannon.mjs

@@ -13,7 +13,6 @@ import { runPhase, getGitCommitHash } from './src/checkpoint-manager.js';
 
 // Setup and Deliverables
 import { setupLocalRepo, cleanupMCP } from './src/setup/environment.js';
-import { saveRunMetadata } from './src/setup/deliverables.js';
 
 // AI and Prompts
 import { runClaudePromptWithRetry } from './src/ai/claude-executor.js';
@@ -178,15 +177,6 @@ async function main(webUrl, repoPath, configPath = null, pipelineTestingMode = f
     );
   }
 
-  // Save run metadata with error handling
-  try {
-    await saveRunMetadata(sourceDir, webUrl, repoPath);
-  } catch (error) {
-    // Non-critical operation, log warning and continue
-    console.log(chalk.yellow(`⚠️ Failed to save run metadata: ${error.message}`));
-    await logError(error, 'Run metadata saving', sourceDir);
-  }
-
   // Check if we should continue from where session left off
   const nextAgent = getNextAgent(session);
   if (!nextAgent) {

src/setup/deliverables.js

@@ -1,67 +0,0 @@
-import { fs, path } from 'zx';
-import chalk from 'chalk';
-import { PentestError, logError } from '../error-handling.js';
-
-// Pure function: Save run metadata for debugging and reproducibility
-export async function saveRunMetadata(sourceDir, webUrl, repoPath) {
-  console.log(chalk.blue('💾 Saving run metadata...'));
-
-  try {
-    // Read package.json to get version info with error handling
-    const packagePath = path.join(import.meta.dirname, '..', '..', 'package.json');
-    let packageJson;
-    try {
-      packageJson = await fs.readJSON(packagePath);
-    } catch (packageError) {
-      throw new PentestError(
-        `Cannot read package.json: ${packageError.message}`,
-        'filesystem',
-        false,
-        { packagePath, originalError: packageError.message }
-      );
-    }
-
-    const metadata = {
-      timestamp: new Date().toISOString(),
-      targets: { webUrl, repoPath },
-      environment: {
-        nodeVersion: process.version,
-        platform: process.platform,
-        arch: process.arch,
-        cwd: process.cwd()
-      },
-      dependencies: {
-        claudeCodeVersion: packageJson.dependencies?.['@anthropic-ai/claude-code'] || 'unknown',
-        zxVersion: packageJson.dependencies?.['zx'] || 'unknown',
-        chalkVersion: packageJson.dependencies?.['chalk'] || 'unknown'
-      },
-      execution: {
-        args: process.argv,
-        env: {
-          PLAYWRIGHT_HEADLESS: process.env.PLAYWRIGHT_HEADLESS || 'true',
-          NODE_ENV: process.env.NODE_ENV
-        }
-      }
-    };
-
-    const metadataPath = path.join(sourceDir, 'run-metadata.json');
-    await fs.writeJSON(metadataPath, metadata, { spaces: 2 });
-
-    console.log(chalk.green(`✅ Run metadata saved to: ${metadataPath}`));
-    return metadata;
-  } catch (error) {
-    if (error instanceof PentestError) {
-      await logError(error, 'Saving run metadata', sourceDir);
-      throw error; // Re-throw PentestError to be handled by caller
-    }
-
-    const metadataError = new PentestError(
-      `Run metadata saving failed: ${error.message}`,
-      'filesystem',
-      false,
-      { sourceDir, originalError: error.message }
-    );
-    await logError(metadataError, 'Saving run metadata', sourceDir);
-    throw metadataError;
-  }
-}