omnibiofex 2.8.5 → 4.1.0

package/bin/obx

@@ -6,204 +6,91 @@ const figlet = require('figlet');
 const path = require('path');
 const fs = require('fs');
 
-// Read version dynamically from package.json
-const packageJson = JSON.parse(
-  fs.readFileSync(path.join(__dirname, '../package.json'), 'utf8')
-);
+const packageJson = JSON.parse(fs.readFileSync(path.join(__dirname, '../package.json'), 'utf8'));
 const VERSION = packageJson.version;
 
-// Display banner
-console.log(
-  chalk.hex('#F24E1E')(
-    figlet.textSync('OmniBioFex X', { horizontalLayout: 'full' })
-  )
-);
+console.log(chalk.hex('#F24E1E')(figlet.textSync('OmniBioFex X', { horizontalLayout: 'full' })));
 console.log(chalk.gray(`The Autonomous Research Operating System v${VERSION}\n`));
 console.log(chalk.hex('#F24E1E')('Create Research. Publish It. Earn From It.\n'));
 
-// Global error handler
 process.on('unhandledRejection', (error) => {
   console.error(chalk.red('\n✗ Error:'), error.message);
   process.exit(1);
 });
 
-// Register --version flag
-program
-  .name('obx')
-  .version(VERSION, '-v, --version', 'Show CLI version')
-  .description('OmniBioFex X - The Autonomous Research Operating System');
+program.name('obx').version(VERSION, '-v, --version', 'Show CLI version').description('OmniBioFex X');
 
-// ==================== AUTHENTICATION ====================
 const { login, logout } = require('../src/auth');
+program.command('login').description('Sign in with Google').action(login);
+program.command('logout').description('Sign out').action(logout);
 
-program
-  .command('login')
-  .description('Authenticate with your OmniBioFex X account')
-  .action(login);
-
-program
-  .command('logout')
-  .description('Sign out of your account')
-  .action(logout);
-
-// ==================== MISSION COMMANDS ====================
 const { missionCreate, missionStatus, missionResults, missionList } = require('../src/commands/mission');
-
-program
-  .command('mission')
-  .description('Manage research missions')
-  .argument('<action>', 'create | status | results | list')
+program.command('mission').description('Manage missions').argument('<action>', 'create | status | results | list')
   .action(async (action) => {
     switch (action) {
-      case 'create':
-        await missionCreate();
-        break;
-      case 'status':
-        await missionStatus();
-        break;
-      case 'results':
-        await missionResults();
-        break;
-      case 'list':
-        await missionList();
-        break;
-      default:
-        console.error(chalk.red('Unknown action. Use: create, status, results, or list'));
+      case 'create': await missionCreate(); break;
+      case 'status': await missionStatus(); break;
+      case 'results': await missionResults(); break;
+      case 'list': await missionList(); break;
+      default: console.error(chalk.red('Use: create, status, results, or list')); process.exit(1);
     }
   });
 
-// ==================== RESEARCH COMMANDS ====================
 const { literatureReview, paper, compare, gaps, hypothesis } = require('../src/commands/research');
+program.command('literature').description('Literature review').argument('<topic>').action(literatureReview);
+program.command('paper').description('Analyze paper').argument('<file>').action(paper);
+program.command('compare').description('Compare papers').arguments('<files...>').action(compare);
+program.command('gaps').description('Discover gaps').argument('<topic>').action(gaps);
+program.command('hypothesis').description('Generate hypotheses').argument('<topic>').action(hypothesis);
 
-program
-  .command('literature')
-  .description('Generate literature review')
-  .argument('<topic>', 'Research topic')
-  .action(literatureReview);
-
-program
-  .command('paper')
-  .description('Analyze a research paper')
-  .argument('<file>', 'PDF file path')
-  .action(paper);
-
-program
-  .command('compare')
-  .description('Compare multiple papers')
-  .arguments('<files...>')
-  .action(compare);
-
-program
-  .command('gaps')
-  .description('Discover research gaps')
-  .argument('<topic>', 'Research topic')
-  .action(gaps);
-
-program
-  .command('hypothesis')
-  .description('Generate research hypotheses')
-  .argument('<topic>', 'Research topic')
-  .action(hypothesis);
-
-// ==================== TIMELINE COMMAND ====================
 const { timeline } = require('../src/commands/timeline');
+program.command('timeline').description('Research timeline').argument('<topic>').action(timeline);
+
+// ==================== DIAGRAM COMMAND ====================
+const { diagram } = require('../src/commands/diagram');
 
 program
-  .command('timeline')
-  .description('📅 Generate visual research timeline')
+  .command('diagram')
+  .description('📊 Generate ASCII research ecosystem diagrams')
   .argument('<topic>', 'Research topic')
-  .action(timeline);
+  .option('--style <style>', 'Diagram style: minimal, detailed, flowchart, network', 'detailed')
+  .option('--save', 'Save diagram to file')
+  .option('--publish', 'Save and prepare for publishing')
+  .action(async (topic, options) => {
+    await diagram(topic, options);
+  });
 
 // ==================== DATA COMMANDS ====================
 const { dataset, code } = require('../src/commands/data');
+program.command('dataset').description('Analyze dataset').argument('<file>').action(dataset);
+program.command('code').description('Review code').argument('[directory]', '.').action(code);
 
-program
-  .command('dataset')
-  .description('Analyze dataset')
-  .argument('<file>', 'CSV/Excel file path')
-  .action(dataset);
-
-program
-  .command('code')
-  .description('Review code repository')
-  .argument('[directory]', 'Directory path', '.')
-  .action(code);
-
-// ==================== PUBLISH & EARN COMMANDS ====================
 const { publish } = require('../src/commands/publish');
 const { earnings } = require('../src/commands/earnings');
+program.command('publish').description('Publish research').argument('[mission-id]').action(publish);
+program.command('earnings').description('View earnings').action(earnings);
 
-program
-  .command('publish')
-  .description('📤 Publish research and start earning')
-  .argument('[mission-id]', 'Mission ID to publish')
-  .action(publish);
-
-program
-  .command('earnings')
-  .description('💰 View your earnings dashboard')
-  .action(earnings);
-
-// ==================== MORNING COMMAND ====================
 const { morning } = require('../src/commands/morning');
+program.command('morning').description('Daily briefing').action(morning);
 
-program
-  .command('morning')
-  .description('☀️ Get daily research briefing')
-  .action(morning);
-
-// ==================== OPEN COMMANDS ====================
 const { openPage } = require('../src/commands/open');
+program.command('open').description('Open pages').argument('[page]').action(openPage);
+program.command('dashboard').description('Open dashboard').action(() => openPage('dashboard'));
+program.command('earn').description('Open earn page').action(() => openPage('earn'));
 
-program
-  .command('open')
-  .description('🌐 Open OmniBioFex X pages in browser')
-  .argument('[page]', 'Page to open (dashboard, earn, pricing, agents, etc.)')
-  .action(openPage);
-
-program
-  .command('dashboard')
-  .description('🏠 Open web dashboard')
-  .action(() => openPage('dashboard'));
-
-program
-  .command('earn')
-  .description('💰 Open earn page')
-  .action(() => openPage('earn'));
-
-// ==================== ACCOUNT COMMANDS ====================
 const { credits, usage, buy } = require('../src/commands/account');
+program.command('credits').description('Check balance').action(credits);
+program.command('usage').description('View usage').action(usage);
+program.command('buy').description('Purchase credits').action(buy);
 
-program
-  .command('credits')
-  .description('Check your RCC balance')
-  .action(credits);
-
-program
-  .command('usage')
-  .description('View usage statistics')
-  .action(usage);
-
-program
-  .command('buy')
-  .description('Open browser to purchase credits')
-  .action(buy);
-
-// ==================== DEBUG COMMAND ====================
 const { debug } = require('../src/commands/debug');
+program.command('debug').description('Debug auth').action(debug);
 
-program
-  .command('debug')
-  .description('Debug authentication and token status')
-  .action(debug);
-
-// Parse arguments
 program.parse(process.argv);
 
-// Show help if no command provided
 if (!process.argv.slice(2).length) {
   console.log(chalk.hex('#F24E1E')('\n📚 QUICK START:\n'));
-  console.log(chalk.white('  obx login                    # Authenticate'));
+  console.log(chalk.white('  obx login                    # Sign in with Google'));
   console.log(chalk.white('  obx morning                  # Daily briefing'));
   console.log(chalk.white('  obx mission create           # Create research'));
   console.log(chalk.white('  obx publish <mission-id>     # Publish & earn'));

package/package.json

@@ -1,48 +1,33 @@
 {
   "name": "omnibiofex",
-  "version": "2.8.5",
-  "description": "OmniBioFex X - The Autonomous Research Terminal for AI-powered research missions",
+  "version": "4.1.0",
+  "description": "OmniBioFex X - The Autonomous Research Operating System",
   "main": "bin/obx",
   "bin": {
     "obx": "./bin/obx"
   },
   "scripts": {
-    "start": "node bin/obx",
-    "test": "echo \"No tests yet\" && exit 0"
+    "test": "echo \"Error: no test specified\" && exit 1"
   },
   "keywords": [
+    "omnibiofex",
     "ai",
     "research",
-    "terminal",
     "cli",
-    "autonomous",
-    "omnibiofex"
+    "autonomous"
   ],
-  "author": {
-    "name": "OmniBioFex",
-    "email": "omnibiofexcloud@gmail.com",
-    "url": "https://x.omnibiofex.cloud"
-  },
+  "author": "OmniBioFex X",
   "license": "MIT",
-  "homepage": "https://x.omnibiofex.cloud",
-  "engines": {
-    "node": ">=14.0.0"
-  },
   "dependencies": {
-    "firebase": "^10.7.1",
-    "axios": "^1.6.2",
     "chalk": "^4.1.2",
     "commander": "^11.1.0",
-    "inquirer": "^8.2.6",
-    "open": "^8.4.2",
-    "ora": "^5.4.1",
+    "conf": "^10.2.0",
     "figlet": "^1.7.0",
-    "conf": "^10.2.0"
+    "firebase": "^10.7.1",
+    "inquirer": "^8.2.6",
+    "open": "^8.4.2"
   },
-  "files": [
-    "bin/",
-    "src/",
-    "README.md",
-    "LICENSE"
-  ]
+  "engines": {
+    "node": ">=14.0.0"
+  }
 }