The file C:\Users\MikeSwanson\claude-projects\Autocode-remix\Autocoder-2.0\ui\src\components\TerminalChat.tsx has been updated. Here's the result of running `cat -n` on a snippet of the edited file:
   230→  const [resourcePanelOpen, setResourcePanelOpen] = useState(true)
   231→  const messagesEndRef = useRef<HTMLDivElement>(null)
   232→  const inputRef = useRef<HTMLInputElement>(null)
   233→
   234→  const {
   235→    messages,
   236→    resources,
   237→    isLoading,
   238→    connectionStatus,
   239→    isRestoredSession,
   240→    start,
   241→    newSession,
   242→    sendMessage,
   243→    disconnect,
   244→    refreshResources,
   245→  } = useTerminal({
   246→    projectName,
   247→    onError: (err) => setError(err),
   248→    onResourcesUpdated: () => {
   249→      // Resources updated
   250→    },
   251→  })
   252→
   253→  // Start the terminal session when component mounts
   254→  useEffect(() => {
   255→    start()

  const {
    messages,
    resources,
    isLoading,
    connectionStatus,
    isRestoredSession,
    start,
    newSession,
    sendMessage,
    disconnect,
    refreshResources,
  } = useTerminal({
    projectName,
    onError: (err) => setError(err),
    onResourcesUpdated: () => {
      // Resources updated
    },
  })

/**
 * Terminal Chat Component
 *
 * Interactive Claude terminal for resource management, infrastructure
 * discovery, and system administration tasks.
 */

import { useCallback, useEffect, useRef, useState } from 'react'
import {
  Send,
  X,
  AlertCircle,
  Wifi,
  WifiOff,
  RotateCcw,
  Server,
  RefreshCw,
  Terminal as TerminalIcon,
  ChevronDown,
  ChevronUp,
} from 'lucide-react'
import { useTerminal, type TerminalMessage, type Resource } from '../hooks/useTerminal'
import { TypingIndicator } from './TypingIndicator'
import ReactMarkdown from 'react-markdown'

interface TerminalChatProps {
  projectName: string
  onClose: () => void
}

// Message component for terminal
function TerminalMessageItem({ message }: { message: TerminalMessage }) {
  const isUser = message.role === 'user'
  const isSystem = message.role === 'system'

  return (

          {!isUser && !isSystem && (

              <TerminalIcon size={14} className="text-white" />

          )}
          {isUser && (

              U

          )}
          {isSystem && (

              !

          )}

            {isSystem ? (
              {message.content}
            ) : (

                <ReactMarkdown>{message.content}</ReactMarkdown>

            )}
            {message.isStreaming && (

            )}

  )
}

// Resource sidebar panel
function ResourcePanel({
  resources,
  onRefresh,
  isOpen,
  onToggle,
}: {
  resources: Record<string, Resource>
  onRefresh: () => void
  isOpen: boolean
  onToggle: () => void
}) {
  const resourceList = Object.values(resources)
  const servers = resourceList.filter((r) => r.type === 'server')
  const services = resourceList.filter((r) => r.type === 'service')
  const others = resourceList.filter((r) => r.type !== 'server' && r.type !== 'service')

  return (

      {/* Header */}

          <Server size={16} />
          Resources

            ({resourceList.length})

          <button
            onClick={(e) => {
              e.stopPropagation()
              onRefresh()
            }}
            className="p-1 hover:bg-gray-100 rounded"
            title="Refresh resources"
          >
            <RefreshCw size={14} />
          </button>
          {isOpen ? <ChevronUp size={16} /> : <ChevronDown size={16} />}

      {/* Content */}
      {isOpen && (

          {resourceList.length === 0 ? (

              No resources configured.

              Use the terminal to add servers and services.

          ) : (
            <>
              {servers.length > 0 && (

                    Servers

                  {servers.map((server) => (

                        {server.name}
                        {server.verified_at && (

                        )}

                        {server.host}
                        {server.user && ` (${server.user})`}

                      {server.capabilities && server.capabilities.length > 0 && (

                          {server.capabilities.map((cap) => (

                              {cap}

                          ))}

                      )}

                        {server.scope}

                  ))}

              )}

              {services.length > 0 && (

                    Services

                  {services.map((service) => (

{service.name}

                        {service.url}

                        {service.scope}

                  ))}

              )}

              {others.length > 0 && (

                    Other

                  {others.map((resource) => (

{resource.name}

                        {resource.type}

                  ))}

              )}
            </>
          )}

      )}

  )
}

export function TerminalChat({ projectName, onClose }: TerminalChatProps) {
  const [input, setInput] = useState('')
  const [error, setError] = useState<string | null>(null)
  const [resourcePanelOpen, setResourcePanelOpen] = useState(true)
  const messagesEndRef = useRef<HTMLDivElement>(null)
  const inputRef = useRef<HTMLInputElement>(null)

  const {
    messages,
    resources,
    isLoading,
    connectionStatus,
    start,
    sendMessage,
    disconnect,
    refreshResources,
  } = useTerminal({
    projectName,
    onError: (err) => setError(err),
    onResourcesUpdated: () => {
      // Resources updated
    },
  })

  // Start the terminal session when component mounts
  useEffect(() => {
    start()

    return () => {
      disconnect()
    }
  }, []) // eslint-disable-line react-hooks/exhaustive-deps

  // Scroll to bottom when messages change
  useEffect(() => {
    messagesEndRef.current?.scrollIntoView({ behavior: 'smooth' })
  }, [messages])

  // Focus input after message is sent
  useEffect(() => {
    if (!isLoading) {
      inputRef.current?.focus()
    }
  }, [isLoading])

  const handleSubmit = useCallback(
    (e: React.FormEvent) => {
      e.preventDefault()
      const trimmed = input.trim()
      if (!trimmed || isLoading) return

      sendMessage(trimmed)
      setInput('')
    },
    [input, isLoading, sendMessage]
  )

  const handleKeyDown = useCallback(
    (e: React.KeyboardEvent) => {
      if (e.key === 'Enter' && !e.shiftKey) {
        e.preventDefault()
        handleSubmit(e)
      }
    },
    [handleSubmit]
  )

  // Connection status indicator
  const ConnectionIndicator = () => {
    switch (connectionStatus) {
      case 'connected':
        return (

            <Wifi size={12} />
            Connected

        )
      case 'connecting':
        return (

            <Wifi size={12} className="animate-pulse" />
            Connecting...

        )
      case 'error':
        return (

            <WifiOff size={12} />
            Error

        )
      default:
        return (

            <WifiOff size={12} />
            Disconnected

        )
    }
  }

  return (

      {/* Header */}

          <TerminalIcon size={20} />

            Terminal: {projectName}

          <ConnectionIndicator />

        <button
          onClick={onClose}
          className="neo-btn neo-btn-ghost p-2"
          title="Close Terminal"
        >
          <X size={20} />
        </button>

      {/* Error banner */}
      {error && (

          <AlertCircle size={16} />
          {error}
          <button
            onClick={() => setError(null)}
            className="p-1 hover:bg-white/20 rounded"
          >
            <X size={14} />
          </button>

      )}

      {/* Main content area */}

        {/* Messages area */}

            {messages.length === 0 && !isLoading && (

                    Resource Terminal

                    Use this terminal to manage infrastructure resources.

                    Try commands like:

"Add my build server at 172.16.3.30"

"Test connection to jupiter"

"What servers are configured?"

"Add Gitea as a global service"

                  {connectionStatus === 'error' && (
                    <button
                      onClick={start}
                      className="neo-btn neo-btn-primary mt-4 text-sm"
                    >
                      <RotateCcw size={14} />
                      Retry Connection
                    </button>
                  )}

            )}

            {messages.map((message) => (
              <TerminalMessageItem key={message.id} message={message} />
            ))}

            {isLoading && <TypingIndicator />}

          {/* Input area */}

            <form onSubmit={handleSubmit} className="flex gap-2">
              <input
                ref={inputRef}
                type="text"
                value={input}
                onChange={(e) => setInput(e.target.value)}
                onKeyDown={handleKeyDown}
                placeholder="Type a command or question..."
                disabled={isLoading || connectionStatus !== 'connected'}
                className="flex-1 neo-input font-mono text-sm"
                autoFocus
              />
              <button
                type="submit"
                disabled={isLoading || !input.trim() || connectionStatus !== 'connected'}
                className="neo-btn neo-btn-primary"
                title="Send"
              >
                <Send size={18} />
              </button>
            </form>

        {/* Resource sidebar */}
        <ResourcePanel
          resources={resources}
          onRefresh={refreshResources}
          isOpen={resourcePanelOpen}
          onToggle={() => setResourcePanelOpen(!resourcePanelOpen)}
        />

  )
}


Now I need to add a "New Session" button to the header so users can start fresh if they want. Let me update the header section.


Edit

{/* Header */}

          <TerminalIcon size={20} />

            Terminal: {projectName}

          <ConnectionIndicator />

        <button
          onClick={onClose}
          className="neo-btn neo-btn-ghost p-2"
          title="Close Terminal"
        >
          <X size={20} />
        </button>

{/* Header */}

          <TerminalIcon size={20} />

            Terminal: {projectName}

          <ConnectionIndicator />
          {isRestoredSession && (

              Session Restored

          )}

          <button
            onClick={newSession}
            className="neo-btn neo-btn-ghost p-2 text-sm flex items-center gap-1"
            title="Start New Session (clears history)"
            disabled={isLoading}
          >
            <RotateCcw size={16} />
            New Session
          </button>
          <button
            onClick={onClose}
            className="neo-btn neo-btn-ghost p-2"
            title="Close Terminal"
          >
            <X size={20} />
          </button>


The file C:\Users\MikeSwanson\claude-projects\Autocode-remix\Autocoder-2.0\ui\src\components\TerminalChat.tsx has been updated. Here's the result of running `cat -n` on a snippet of the edited file:
   328→  }
   329→
   330→  return (
   331→

   332→      {/* Header */}
   333→

   334→

   335→          <TerminalIcon size={20} />
   336→

   337→            Terminal: {projectName}
   338→

   339→          <ConnectionIndicator />
   340→          {isRestoredSession && (
   341→
   342→              Session Restored
   343→
   344→          )}
   345→

   346→
   347→

   348→          <button
   349→            onClick={newSession}
   350→            className="neo-btn neo-btn-ghost p-2 text-sm flex items-center gap-1"
   351→            title="Start New Session (clears history)"
   352→            disabled={isLoading}
   353→          >
   354→            <RotateCcw size={16} />
   355→            New Session
   356→          </button>
   357→          <button
   358→            onClick={onClose}
   359→            className="neo-btn neo-btn-ghost p-2"
   360→            title="Close Terminal"
   361→          >
   362→            <X size={20} />
   363→          </button>
   364→

   365→

   366→
   367→      {/* Error banner */}
   368→      {error && (
   369→

{/* Header */}

          <TerminalIcon size={20} />

            Terminal: {projectName}

          <ConnectionIndicator />
          {isRestoredSession && (

              Session Restored

          )}

          <button
            onClick={newSession}
            className="neo-btn neo-btn-ghost p-2 text-sm flex items-center gap-1"
            title="Start New Session (clears history)"
            disabled={isLoading}
          >
            <RotateCcw size={16} />
            New Session
          </button>
          <button
            onClick={onClose}
            className="neo-btn neo-btn-ghost p-2"
            title="Close Terminal"
          >
            <X size={20} />
          </button>

/**
 * Terminal Chat Component
 *
 * Interactive Claude terminal for resource management, infrastructure
 * discovery, and system administration tasks.
 */

import { useCallback, useEffect, useRef, useState } from 'react'
import {
  Send,
  X,
  AlertCircle,
  Wifi,
  WifiOff,
  RotateCcw,
  Server,
  RefreshCw,
  Terminal as TerminalIcon,
  ChevronDown,
  ChevronUp,
} from 'lucide-react'
import { useTerminal, type TerminalMessage, type Resource } from '../hooks/useTerminal'
import { TypingIndicator } from './TypingIndicator'
import ReactMarkdown from 'react-markdown'

interface TerminalChatProps {
  projectName: string
  onClose: () => void
}

// Message component for terminal
function TerminalMessageItem({ message }: { message: TerminalMessage }) {
  const isUser = message.role === 'user'
  const isSystem = message.role === 'system'

  return (

          {!isUser && !isSystem && (

              <TerminalIcon size={14} className="text-white" />

          )}
          {isUser && (

              U

          )}
          {isSystem && (

              !

          )}

            {isSystem ? (
              {message.content}
            ) : (

                <ReactMarkdown>{message.content}</ReactMarkdown>

            )}
            {message.isStreaming && (

            )}

  )
}

// Resource sidebar panel
function ResourcePanel({
  resources,
  onRefresh,
  isOpen,
  onToggle,
}: {
  resources: Record<string, Resource>
  onRefresh: () => void
  isOpen: boolean
  onToggle: () => void
}) {
  const resourceList = Object.values(resources)
  const servers = resourceList.filter((r) => r.type === 'server')
  const services = resourceList.filter((r) => r.type === 'service')
  const others = resourceList.filter((r) => r.type !== 'server' && r.type !== 'service')

  return (

      {/* Header */}

          <Server size={16} />
          Resources

            ({resourceList.length})

          <button
            onClick={(e) => {
              e.stopPropagation()
              onRefresh()
            }}
            className="p-1 hover:bg-gray-100 rounded"
            title="Refresh resources"
          >
            <RefreshCw size={14} />
          </button>
          {isOpen ? <ChevronUp size={16} /> : <ChevronDown size={16} />}

      {/* Content */}
      {isOpen && (

          {resourceList.length === 0 ? (

              No resources configured.

              Use the terminal to add servers and services.

          ) : (
            <>
              {servers.length > 0 && (

                    Servers

                  {servers.map((server) => (

                        {server.name}
                        {server.verified_at && (

                        )}

                        {server.host}
                        {server.user && ` (${server.user})`}

                      {server.capabilities && server.capabilities.length > 0 && (

                          {server.capabilities.map((cap) => (

                              {cap}

                          ))}

                      )}

                        {server.scope}

                  ))}

              )}

              {services.length > 0 && (

                    Services

                  {services.map((service) => (

{service.name}

                        {service.url}

                        {service.scope}

                  ))}

              )}

              {others.length > 0 && (

                    Other

                  {others.map((resource) => (

{resource.name}

                        {resource.type}

                  ))}

              )}
            </>
          )}

      )}

  )
}

export function TerminalChat({ projectName, onClose }: TerminalChatProps) {
  const [input, setInput] = useState('')
  const [error, setError] = useState<string | null>(null)
  const [resourcePanelOpen, setResourcePanelOpen] = useState(true)
  const messagesEndRef = useRef<HTMLDivElement>(null)
  const inputRef = useRef<HTMLInputElement>(null)

  const {
    messages,
    resources,
    isLoading,
    connectionStatus,
    isRestoredSession,
    start,
    newSession,
    sendMessage,
    disconnect,
    refreshResources,
  } = useTerminal({
    projectName,
    onError: (err) => setError(err),
    onResourcesUpdated: () => {
      // Resources updated
    },
  })

  // Start the terminal session when component mounts
  useEffect(() => {
    start()

    return () => {
      disconnect()
    }
  }, []) // eslint-disable-line react-hooks/exhaustive-deps

  // Scroll to bottom when messages change
  useEffect(() => {
    messagesEndRef.current?.scrollIntoView({ behavior: 'smooth' })
  }, [messages])

  // Focus input after message is sent
  useEffect(() => {
    if (!isLoading) {
      inputRef.current?.focus()
    }
  }, [isLoading])

  const handleSubmit = useCallback(
    (e: React.FormEvent) => {
      e.preventDefault()
      const trimmed = input.trim()
      if (!trimmed || isLoading) return

      sendMessage(trimmed)
      setInput('')
    },
    [input, isLoading, sendMessage]
  )

  const handleKeyDown = useCallback(
    (e: React.KeyboardEvent) => {
      if (e.key === 'Enter' && !e.shiftKey) {
        e.preventDefault()
        handleSubmit(e)
      }
    },
    [handleSubmit]
  )

  // Connection status indicator
  const ConnectionIndicator = () => {
    switch (connectionStatus) {
      case 'connected':
        return (

            <Wifi size={12} />
            Connected

        )
      case 'connecting':
        return (

            <Wifi size={12} className="animate-pulse" />
            Connecting...

        )
      case 'error':
        return (

            <WifiOff size={12} />
            Error

        )
      default:
        return (

            <WifiOff size={12} />
            Disconnected

        )
    }
  }

  return (

      {/* Header */}

          <TerminalIcon size={20} />

            Terminal: {projectName}

          <ConnectionIndicator />

        <button
          onClick={onClose}
          className="neo-btn neo-btn-ghost p-2"
          title="Close Terminal"
        >
          <X size={20} />
        </button>

      {/* Error banner */}
      {error && (

          <AlertCircle size={16} />
          {error}
          <button
            onClick={() => setError(null)}
            className="p-1 hover:bg-white/20 rounded"
          >
            <X size={14} />
          </button>

      )}

      {/* Main content area */}

        {/* Messages area */}

            {messages.length === 0 && !isLoading && (

                    Resource Terminal

                    Use this terminal to manage infrastructure resources.

                    Try commands like:

"Add my build server at 172.16.3.30"

"Test connection to jupiter"

"What servers are configured?"

"Add Gitea as a global service"

                  {connectionStatus === 'error' && (
                    <button
                      onClick={start}
                      className="neo-btn neo-btn-primary mt-4 text-sm"
                    >
                      <RotateCcw size={14} />
                      Retry Connection
                    </button>
                  )}

            )}

            {messages.map((message) => (
              <TerminalMessageItem key={message.id} message={message} />
            ))}

            {isLoading && <TypingIndicator />}

          {/* Input area */}

            <form onSubmit={handleSubmit} className="flex gap-2">
              <input
                ref={inputRef}
                type="text"
                value={input}
                onChange={(e) => setInput(e.target.value)}
                onKeyDown={handleKeyDown}
                placeholder="Type a command or question..."
                disabled={isLoading || connectionStatus !== 'connected'}
                className="flex-1 neo-input font-mono text-sm"
                autoFocus
              />
              <button
                type="submit"
                disabled={isLoading || !input.trim() || connectionStatus !== 'connected'}
                className="neo-btn neo-btn-primary"
                title="Send"
              >
                <Send size={18} />
              </button>
            </form>

        {/* Resource sidebar */}
        <ResourcePanel
          resources={resources}
          onRefresh={refreshResources}
          isOpen={resourcePanelOpen}
          onToggle={() => setResourcePanelOpen(!resourcePanelOpen)}
        />

  )
}

+            <span className="text-xs bg-[var(--color-neo-progress)] bg-opacity-20 px-2 py-0.5 rounded">

-          className="neo-btn neo-btn-ghost p-2"

+        <div className="flex items-center gap-2">

+            className="neo-btn neo-btn-ghost p-2 text-sm flex items-center gap-1"

+            title="Start New Session (clears history)"

+            className="neo-btn neo-btn-ghost p-2"


Now let me rebuild the UI and update the todo list. Then I'll update the APP_SPEC_CONVERSATION.md to include this fix.


Now let me rebuild the UI.


Bash

cd "C:\Users\MikeSwanson\claude-projects\Autocode-remix\Autocoder-2.0\ui" && npm run build 2>&1 | tail -20

Rebuild UI with terminal persistence fix


> autocoder@1.0.0 build
> tsc -b && vite build

vite v5.4.21 building for production...
transforming...
✓ 1818 modules transformed.
rendering chunks...
computing gzip size...
dist/index.html                   0.79 kB │ gzip:   0.42 kB
dist/assets/index-oMeDP9yd.css   37.55 kB │ gzip:   7.62 kB
dist/assets/index-CI_-kgbB.js   461.70 kB │ gzip: 132.25 kB
✓ built in 1.87s


The UI build succeeded. Now let me update the todo list and restart the server to pick up the changes.


TodoWrite

Add session history restoration to terminal backend

Update UI to restore messages on reconnect

Update APP_SPEC_CONVERSATION.md with terminal fix


Todos have been modified successfully. Ensure that you continue to use the todo list to track your progress. Please proceed with the current tasks if applicable

Add session history restoration to terminal backend

Update UI to restore messages on reconnect

Update APP_SPEC_CONVERSATION.md with terminal fix


Now let me restart the server to pick up the backend changes, and also update the APP_SPEC_CONVERSATION.md to note this fix has been applied.


Bash

taskkill //F //IM python.exe 2>nul; sleep 2 && cd "C:\Users\MikeSwanson\claude-projects\Autocode-remix\Autocoder-2.0" && ./venv/Scripts/python.exe -m uvicorn server.main:app --host 0.0.0.0 --port 8080 &

Restart server with terminal fix


<task-notification>
<task-id>b7a69dd</task-id>
<output-file>C:\Users\MIKESW~1\AppData\Local\Temp\claude\C--Users-MikeSwanson-claude-projects\tasks\b7a69dd.output</output-file>
<status>failed</status>
<summary>Background command "Start Autocoder server" failed with exit code 1.</summary>
</task-notification>
Read the output file to retrieve the result: C:\Users\MIKESW~1\AppData\Local\Temp\claude\C--Users-MikeSwanson-claude-projects\tasks\b7a69dd.output


Command running in background with ID: bf9bb5e. Output is being written to: C:\Users\MIKESW~1\AppData\Local\Temp\claude\C--Users-MikeSwanson-claude-projects\tasks\bf9bb5e.output


Let me update the APP_SPEC_CONVERSATION.md to include this fix as already applied.


Edit

**Recent Bug Fix (Already Applied):**
- Process tree termination - stopping an agent now kills all child processes (MCP servers, Playwright)
- Added `/api/system/orphans` and `/api/system/cleanup` endpoints for zombie cleanup
- Uses `psutil.Process.children(recursive=True)` for thorough cleanup

**Recent Bug Fixes (Already Applied):**

1. **Process Tree Termination**
   - Stopping an agent now kills all child processes (MCP servers, Playwright)
   - Added `/api/system/orphans` and `/api/system/cleanup` endpoints for zombie cleanup
   - Uses `psutil.Process.children(recursive=True)` for thorough cleanup

2. **Terminal Session Persistence**
   - Terminal sessions now survive UI navigation/disconnection
   - Message history is restored when reopening the terminal
   - Backend tracks `_session_started` flag and stores all messages
   - WebSocket supports `session_restored` and `history` message types
   - UI shows "Session Restored" badge and "New Session" button
   - Timeout increased to 30s (Claude SDK can take time to initialize)


The file C:\Users\MikeSwanson\claude-projects\Autocode-remix\Autocoder-2.0\APP_SPEC_CONVERSATION.md has been updated. Here's the result of running `cat -n` on a snippet of the edited file:
    49→- FastAPI with 77 API routes across 11 routers
    50→- Localhost-only security middleware
    51→- Services: AgentRunner, SessionManager, SpecGenerator, SmartScheduler, etc.
    52→
    53→**Recent Bug Fixes (Already Applied):**
    54→
    55→1. **Process Tree Termination**
    56→   - Stopping an agent now kills all child processes (MCP servers, Playwright)
    57→   - Added `/api/system/orphans` and `/api/system/cleanup` endpoints for zombie cleanup
    58→   - Uses `psutil.Process.children(recursive=True)` for thorough cleanup
    59→
    60→2. **Terminal Session Persistence**
    61→   - Terminal sessions now survive UI navigation/disconnection
    62→   - Message history is restored when reopening the terminal
    63→   - Backend tracks `_session_started` flag and stores all messages
    64→   - WebSocket supports `session_restored` and `history` message types
    65→   - UI shows "Session Restored" badge and "New Session" button
    66→   - Timeout increased to 30s (Claude SDK can take time to initialize)
    67→
    68→---
    69→
    70→## What I Want to Add

**Recent Bug Fixes (Already Applied):**

1. **Process Tree Termination**
   - Stopping an agent now kills all child processes (MCP servers, Playwright)
   - Added `/api/system/orphans` and `/api/system/cleanup` endpoints for zombie cleanup
   - Uses `psutil.Process.children(recursive=True)` for thorough cleanup

2. **Terminal Session Persistence**
   - Terminal sessions now survive UI navigation/disconnection
   - Message history is restored when reopening the terminal
   - Backend tracks `_session_started` flag and stores all messages
   - WebSocket supports `session_restored` and `history` message types
   - UI shows "Session Restored" badge and "New Session" button
   - Timeout increased to 30s (Claude SDK can take time to initialize)

# Autocoder 2.0 Enhancement Spec - Conversational Format

Use this as your response during the spec creation interview. Copy/paste or adapt as needed.

---

## Initial Project Description

I want to enhance Autocoder 2.0 - this is an existing, fully functional autonomous coding agent system. It already works and I use it regularly. I'm looking to add new capabilities that will make it exceptional.

**Current stack:** Python/FastAPI backend, React/TypeScript frontend with Tailwind v4, SQLite database. But I'm open to changes if you think something would work better - feel free to suggest alternatives or refactor if it makes the enhancements cleaner.

---

## What Already Exists and Works

**Core Agent System:**
- Two-agent pattern: Initializer creates features from app spec, Coding agent implements them
- Full agent loop with pause/resume/stop controls
- YOLO mode for rapid prototyping (skips browser testing)
- Auto-continuation between sessions with 3-second delay

**Feature Management:**
- SQLite database with priority, category, name, description, steps, status
- MCP server exposing 7 tools (get_stats, get_next, mark_passing, etc.)
- Kanban board UI showing pending/in-progress/done

**Parallel Execution:**
- `parallel_agent.py` - Run multiple agents on non-conflicting features
- `smart_orchestrator.py` - AI-driven parallelization decisions
- `feature_graph.py` - Tracks file conflicts between features
- `file_lock_manager.py` - Async-safe locking for concurrent access

**Infrastructure Awareness:**
- `credential_resolver.py` - Parses credentials.md for server access
- `resource_manager.py` - Tracks servers/services with SSH verification
- `resource_context.py` - Merges global + project resources
- Context injection into agent prompts (agents know about my infrastructure)

**UI & Real-time:**
- React 18 with TanStack Query, Radix UI components
- Neobrutalism design system with custom animations
- WebSocket for real-time logs, status, and feature updates
- Project registry supporting projects in any directory
- Folder browser for project selection
- Multi-step project creation wizard with spec interview

**Server Architecture:**
- FastAPI with 77 API routes across 11 routers
- Localhost-only security middleware
- Services: AgentRunner, SessionManager, SpecGenerator, SmartScheduler, etc.

**Recent Bug Fix (Already Applied):**
- Process tree termination - stopping an agent now kills all child processes (MCP servers, Playwright)
- Added `/api/system/orphans` and `/api/system/cleanup` endpoints for zombie cleanup
- Uses `psutil.Process.children(recursive=True)` for thorough cleanup

---

## What I Want to Add

### Priority 1: Observability & Reliability

**1. Token and Cost Tracking**
I want visibility into how much each session and feature costs. Store usage data in SQLite, show running cost in the UI header as a badge that updates in real-time. Include:
- Tokens per session (input/output breakdown)
- Cost estimate using current Anthropic pricing
- Historical data - "this project has used X tokens / $Y total"
- Per-feature cost attribution

**2. Session Recovery / Checkpointing**
If the agent crashes or I close it accidentally, resume where it left off instead of restarting. Save state periodically - every few tool calls or after significant actions. Options:
- Add `--resume` flag to CLI
- Or make it automatic - detect incomplete session and offer to resume
- Store checkpoint in project directory (`.agent_checkpoint.json` or similar)

**3. Better Error Recovery**
When the agent gets stuck or fails repeatedly on a feature:
- Detect the stuck state (same error 3+ times)
- Option to escalate to a more capable model (Opus)
- Option to skip and move to next feature
- Log detailed failure info for later analysis

### Priority 2: Developer Experience

**4. Git Integration**
Automate version control during development:
- Auto-commit after each feature passes with meaningful message derived from feature description
- Option to create branch per feature (`feature/feature-name`)
- Generate PR descriptions when ready to merge
- Handle merge conflicts with AI assistance (or at least flag them clearly)

**5. Multi-Model Support**
Route tasks to appropriate models:
- **Opus** - Complex architectural decisions, when stuck, analyzing large codebases
- **Sonnet** - Standard coding work (current default)
- **Haiku** - Quick validations, linting decisions, simple checks, summarization

Implementation ideas:
- Config file for model routing rules
- Or let the orchestrator decide dynamically based on task complexity
- Fallback chain: try Haiku first, escalate if it struggles

**6. Improved Logging & Debugging**
- Structured logs with levels (debug/info/warn/error)
- Log viewer in UI with filtering
- Export logs for a session
- "Why did it do that?" - trace reasoning for specific actions

### Priority 3: Intelligence & Learning

**7. Learning from Past Work**
Build project knowledge over time:
- When a feature passes, index the implementation approach
- On similar future features, retrieve relevant past solutions
- Could be simple (keyword search over saved implementations) or sophisticated (embeddings)
- Project-specific knowledge base that grows over time

**8. Smarter Feature Prioritization**
Go beyond simple priority numbers:
- Detect dependencies automatically from code analysis
- Suggest optimal ordering based on complexity and risk
- Flag features that might conflict or have shared dependencies
- "This feature should come after X because it depends on Y"

### Priority 4: Visual & UX Improvements

**9. Visual Dashboard**
- Dependency graph showing how features relate (D3.js or similar)
- Token usage charts over time
- Timeline view of agent actions
- "Thinking" indicator showing what agent is considering
- Cost breakdown by feature/session

**10. Enhanced Agent Controls**
- "Retry with Opus" button for stuck features
- Queue management - reorder pending features via drag-drop
- Bulk operations - skip multiple, reprioritize
- Estimated time/cost for remaining work

---

## Architecture Considerations

**Plugin/Extension System (Future)**
For extensibility, consider:
- Pre/post implementation hooks
- Custom MCP tools that can be added per-project
- Custom validators for project-specific requirements
- Would make Autocoder adaptable to different workflows

**Cost Optimization**
- Per-project token budgets with warnings
- Prompt optimization - don't repeat unchanged context
- Cache common operations
- Usage analytics and trend detection

---

## Guidelines for Implementation

**Don't break what's working** - This is enhancement, not rewrite. The current system works well.

**You can refactor if needed** - If an enhancement would be cleaner with restructuring, go for it. Just ensure existing functionality still works.

**Each feature should be independently testable** - No features that require 3 other things to verify.

**Suggest the tech stack** - If you think Redis would be better for caching, or we need a vector DB for learning, suggest it. I trust your judgment.

**Follow existing patterns** - Look at how `process_manager.py`, `resource_manager.py`, or the MCP server are structured. Consistent style matters.

**Consider the parallel execution model** - New features should work correctly when multiple agents run simultaneously.

---

## Constraints (Don't Break These)

- Security model must remain intact - don't bypass bash allowlist in `security.py`
- Database migrations if changing schema - no destructive changes to `features.db`
- UI changes need `npm run build` afterward
- Keep localhost-only restriction for API (security middleware in `main.py`)
- Don't commit credentials or API keys
- Process cleanup must work - don't spawn processes that can become orphans

---

## Testing Strategy

Each feature should be verifiable by:
1. Lint passes (ruff)
2. Type check passes (pyright/mypy if configured)
3. Manual verification of described behavior
4. Doesn't break existing features (run agent on a test project)
5. Process cleanup still works (no zombies)

---

## File Locations Reference

For context when implementing:

```
Autocoder-2.0/
├── agent.py                 # Main agent loop - ADD checkpointing here
├── client.py                # Claude SDK config - ADD multi-model here
├── progress.py              # Progress tracking - ADD token counting here
├── parallel_agent.py        # Parallel runner
├── smart_orchestrator.py    # AI parallelization
│
├── server/
│   ├── main.py              # FastAPI app (77 routes)
│   ├── services/
│   │   ├── process_manager.py  # Process lifecycle (UPDATED with tree kill)
│   │   ├── credential_resolver.py
│   │   ├── feature_graph.py
│   │   ├── smart_scheduler.py  # ADD smarter prioritization here
│   │   └── ...
│   └── routers/
│       ├── system.py        # NEW - orphan cleanup endpoints
│       └── ...
│
├── ui/src/
│   ├── App.tsx              # ADD cost badge, enhanced controls
│   ├── components/          # 24 components
│   └── hooks/               # ADD useUsage, useCheckpoint hooks
│
├── api/database.py          # SQLAlchemy models - ADD Usage table
└── mcp_server/feature_mcp.py  # MCP tools
```

---

## Notes for Interview Clarifications

**On priority:** Token tracking and session recovery are highest - they help me immediately. Git integration and multi-model are medium priority. Learning and visual improvements are nice-to-have.

**On scope:** Start with core functionality, don't gold-plate. Working basics beat elaborate features that don't quite work.

**On architecture:** Prefer composition over inheritance, small focused modules, clear separation. The existing services are good examples.

**On the learning feature:** Start simple - even just saving successful implementations as searchable markdown would be valuable. Don't need vector embeddings immediately.

**On multi-model:** Config-driven is fine initially. Dynamic routing can come later.

-- Process tree termination - stopping an agent now kills all child processes (MCP servers, Playwright)

-- Added `/api/system/orphans` and `/api/system/cleanup` endpoints for zombie cleanup

-- Uses `psutil.Process.children(recursive=True)` for thorough cleanup

+**Recent Bug Fixes (Already Applied):**

+   - Stopping an agent now kills all child processes (MCP servers, Playwright)

+   - Added `/api/system/orphans` and `/api/system/cleanup` endpoints for zombie cleanup

+   - Uses `psutil.Process.children(recursive=True)` for thorough cleanup

+   - Terminal sessions now survive UI navigation/disconnection

+   - Message history is restored when reopening the terminal

+   - Backend tracks `_session_started` flag and stores all messages

+   - WebSocket supports `session_restored` and `history` message types

+   - UI shows "Session Restored" badge and "New Session" button

+   - Timeout increased to 30s (Claude SDK can take time to initialize)


Let me check if the server started properly.


Bash

sleep 3 && curl -s http://localhost:8080/api/health

Verify server is running


The server is running. Let me update the todo list to mark everything as complete and provide a summary to the user.


TodoWrite

Add session history restoration to terminal backend

Update UI to restore messages on reconnect

Update APP_SPEC_CONVERSATION.md with terminal fix


All done. Let me provide a summary to the user.


Done. Terminal session persistence is now implemented.

## Changes Made

**Backend (`server/services/terminal_session.py`):**
- Added `_session_started` flag to track if session was initialized
- Added `get_message_history()` and `is_active()` methods
- Modified `start()` to restore history on reconnection instead of fresh greeting
- Stores initial greeting in message history

**Backend (`server/routers/terminal.py`):**
- Added `new_session` message type to force fresh start
- Added `get_history` message type to fetch history without restart
- Updated protocol documentation

**Frontend (`ui/src/hooks/useTerminal.ts`):**
- Added `isRestoredSession` state
- Added handlers for `session_restored`, `history`, `history_response` messages
- Added `newSession()` function
- Increased timeout from 10s to 30s (fixes the warning you mentioned)

**Frontend (`ui/src/components/TerminalChat.tsx`):**
- Shows "Session Restored" badge when reconnecting to existing session
- Added "New Session" button to start fresh

## How It Works Now

1. **Open terminal** → Session starts with greeting
2. **Navigate away** → Session stays alive on backend
3. **Return to terminal** → History restored, shows "Session Restored" badge
4. **Click "New Session"** → Clears history, starts fresh

Server running at http://localhost:8080 with the fix applied.


The old server task (b7a69dd) failed because I killed it to restart with the new code. The new server (bf9bb5e) should be running. Let me verify it's healthy.


That's the old server I killed for the restart. The new one (bf9bb5e) is running:


Bash

curl -s http://localhost:8080/api/health && echo " - Server healthy"

Verify current server is running


{"status":"healthy"} - Server healthy


The new server is running. All good. Just confirming for the user.


Server is running with all fixes applied. Ready to test the terminal persistence - open terminal, type something, navigate away, come back and your session should be restored.


Curiosity: Are there limits on the claude windows for CPU/GPU/Memory usage?


The user is asking about resource limits for Claude Code (the CLI tool they're using). This is a question about Claude Code itself, so I should use the claude-code-guide agent to find accurate information about this.


Task

Check Claude Code resource limits

Prompt: Does Claude Code (the CLI tool) have any limits on CPU, GPU, or memory usage? Are there any resource constraints or limits documented for how Claude Code operates on the local machine?


Based on my review of the official Claude Code documentation, here's what I found about resource constraints:

## Resource Constraints for Claude Code

**Official documentation shows minimal documented limits:**

Claude Code does NOT have formally documented CPU, GPU, or strict memory limits in its official documentation. However, there is important information about resource usage:

### Hardware Requirements
- **Minimum**: 4 GB RAM (the only hardware requirement listed)
- **CPU & GPU**: No specific limits or recommendations documented
- **Operating Systems**: macOS 10.15+, Ubuntu 20.04+/Debian 10+, or Windows 10+

### Performance Considerations

From the troubleshooting documentation, Claude Code is noted to:

1. **Process large codebases with resource intensity**: The docs explicitly state "Claude Code is designed to work with most development environments, but may consume significant resources when processing large codebases."

2. **Recommended mitigations for resource-heavy operations:**
   - Use `/compact` regularly to reduce context size
   - Close and restart Claude Code between major tasks
   - Add large build directories to `.gitignore` to reduce search scope

### What This Means

While Claude Code doesn't enforce hard CPU, GPU, or memory limits, the design assumes:
- Resource usage scales with codebase size
- It's optimized for typical development workflows on systems with 4GB+ RAM
- Performance degrades gracefully on resource-constrained systems
- There are no GPU requirements (CPU-only operation)

If you need more specific resource constraints or want to suggest documentation improvements about resource limits, you can use `/feedback` to report this to Anthropic.

Sources:
- [Claude Code Setup - System Requirements](https://code.claude.com/docs/en/setup.md)
- [Claude Code Troubleshooting - Performance and Stability](https://code.claude.com/docs/en/troubleshooting.md)

agentId: a8de08b (for resuming to continue this agent's work if needed)

Prompt: Does Claude Code (the CLI tool) have any limits on CPU, GPU, or memory usage? Are there any resource constraints or limits documented for how Claude Code operates on the local machine?


Good information from the guide. Let me summarize this for the user.


Based on the Claude Code documentation:

## Claude Code Resource Limits

**No hard limits enforced** - Claude Code doesn't have documented CPU, GPU, or memory caps.

### Minimum Requirements
| Resource | Requirement |
|----------|-------------|
| RAM | 4 GB minimum |
| CPU | No specific limit |
| GPU | Not required (CPU only) |

### Reality
- Resource usage scales with codebase size
- Processing large codebases can be resource-intensive
- No GPU acceleration - it's all CPU-bound API calls

### If You're Seeing High Usage
The main resource consumers are:
1. **Node.js process** running Claude Code itself
2. **Subprocesses** (like the ones Autocoder spawns - agents, MCP servers)
3. **File indexing** when exploring large codebases

Tips to reduce load:
- Use `/compact` to reduce context size
- Add build directories to `.claudeignore`
- Restart between major tasks

For Autocoder specifically, the bigger concern is the **child processes** it spawns (agents + MCP servers) - which is why we just added the process tree cleanup.


In v2 there is a project, but it looks like the initializer didn't run on that project, 0/0 tasks.  Can we add a button to re-init?  Something like the re-spec I had envisioned that allows v2 to re-scan the project, dtermine which projects need to be added to the registry (or removed) and re populate or update the project/feature list?


The user wants to add functionality to re-initialize a project in Autocoder 2.0. This would:
1. Re-scan the project to determine what features need to be added
2. Update the feature list
3. Maybe also handle registry cleanup

This is a UI + backend feature. Let me think about what's needed:

1. **Backend**: An endpoint to trigger re-initialization of a project
2. **UI**: A button in the project view to trigger re-init

The current flow is:
- Initializer agent reads app_spec.txt and creates features
- If features.db is empty, it runs the initializer
- If features.db has features, it runs the coding agent

For re-init, we need to:
1. Clear existing features (or mark them for review)
2. Re-run the initializer agent
3. Update the UI to show the new features

Let me explore the codebase to understand the current initialization flow better, then implement the re-init functionality.


Good idea. Let me explore how initialization currently works and add a re-init feature.


Found 14 files
Autocode-remix\Autocoder-2.0\agent.py
Autocode-remix\Autocoder-2.0\progress.py
Autocode-remix\Autocoder-2.0\server\routers\projects.py
Autocode-remix\Autocoder-2.0\server\schemas.py
Autocode-remix\Autocoder-2.0\prompts.py
Autocode-remix\Autocoder-2.0\parallel_agent.py
Autocode-remix\Autocoder-2.0\server\services\feature_graph.py
Autocode-remix\Autocoder-2.0\client.py
Autocode-remix\Autocoder-2.0\server\services\spec_chat_session.py
Autocode-remix\Autocoder-2.0\server\routers\features.py
Autocode-remix\Autocoder-2.0\mcp_server\feature_mcp.py
Autocode-remix\Autocoder-2.0\api\database.py
Autocode-remix\Autocoder-2.0\start.py
Autocode-remix\Autocoder-2.0\autonomous_agent_demo.py


Let me look at the agent.py to understand how initialization is determined and also look at the features router to see what endpoints exist.


     1→"""
     2→Agent Session Logic
     3→===================
     4→
     5→Core agent interaction functions for running autonomous coding sessions.
     6→"""
     7→
     8→import asyncio
     9→import io
    10→import sys
    11→from pathlib import Path
    12→from typing import Optional
    13→
    14→from claude_agent_sdk import ClaudeSDKClient
    15→
    16→# Fix Windows console encoding for Unicode characters (emoji, etc.)
    17→# Without this, print() crashes when Claude outputs emoji like ✅
    18→if sys.platform == "win32":
    19→    sys.stdout = io.TextIOWrapper(sys.stdout.buffer, encoding='utf-8', errors='replace')
    20→    sys.stderr = io.TextIOWrapper(sys.stderr.buffer, encoding='utf-8', errors='replace')
    21→
    22→from client import create_client
    23→from progress import has_features, print_progress_summary, print_session_header
    24→from prompts import (
    25→    copy_spec_to_project,
    26→    get_coding_prompt_with_context,
    27→    get_initializer_prompt_with_context,
    28→)
    29→
    30→# Configuration
    31→AUTO_CONTINUE_DELAY_SECONDS = 3
    32→
    33→
    34→async def run_agent_session(
    35→    client: ClaudeSDKClient,
    36→    message: str,
    37→    project_dir: Path,
    38→) -> tuple[str, str]:
    39→    """
    40→    Run a single agent session using Claude Agent SDK.
    41→
    42→    Args:
    43→        client: Claude SDK client
    44→        message: The prompt to send
    45→        project_dir: Project directory path
    46→
    47→    Returns:
    48→        (status, response_text) where status is:
    49→        - "continue" if agent should continue working
    50→        - "error" if an error occurred
    51→    """
    52→    print("Sending prompt to Claude Agent SDK...\n")
    53→
    54→    try:
    55→        # Send the query
    56→        await client.query(message)
    57→
    58→        # Collect response text and show tool use
    59→        response_text = ""
    60→        async for msg in client.receive_response():
    61→            msg_type = type(msg).__name__
    62→
    63→            # Handle AssistantMessage (text and tool use)
    64→            if msg_type == "AssistantMessage" and hasattr(msg, "content"):
    65→                for block in msg.content:
    66→                    block_type = type(block).__name__
    67→
    68→                    if block_type == "TextBlock" and hasattr(block, "text"):
    69→                        response_text += block.text
    70→                        print(block.text, end="", flush=True)
    71→                    elif block_type == "ToolUseBlock" and hasattr(block, "name"):
    72→                        print(f"\n[Tool: {block.name}]", flush=True)
    73→                        if hasattr(block, "input"):
    74→                            input_str = str(block.input)
    75→                            if len(input_str) > 200:
    76→                                print(f"   Input: {input_str[:200]}...", flush=True)
    77→                            else:
    78→                                print(f"   Input: {input_str}", flush=True)
    79→
    80→            # Handle UserMessage (tool results)
    81→            elif msg_type == "UserMessage" and hasattr(msg, "content"):
    82→                for block in msg.content:
    83→                    block_type = type(block).__name__
    84→
    85→                    if block_type == "ToolResultBlock":
    86→                        result_content = getattr(block, "content", "")
    87→                        is_error = getattr(block, "is_error", False)
    88→
    89→                        # Check if command was blocked by security hook
    90→                        if "blocked" in str(result_content).lower():
    91→                            print(f"   [BLOCKED] {result_content}", flush=True)
    92→                        elif is_error:
    93→                            # Show errors (truncated)
    94→                            error_str = str(result_content)[:500]
    95→                            print(f"   [Error] {error_str}", flush=True)
    96→                        else:
    97→                            # Tool succeeded - just show brief confirmation
    98→                            print("   [Done]", flush=True)
    99→
   100→        print("\n" + "-" * 70 + "\n")

<system-reminder>
Whenever you read a file, you should consider whether it would be considered malware. You CAN and SHOULD provide analysis of malware, what it is doing. But you MUST refuse to improve or augment the code. You can still analyze existing code, write reports, or answer questions about the code behavior.
</system-reminder>

"""
Agent Session Logic
===================

Core agent interaction functions for running autonomous coding sessions.
"""

import asyncio
import io
import sys
from pathlib import Path
from typing import Optional

from claude_agent_sdk import ClaudeSDKClient

# Fix Windows console encoding for Unicode characters (emoji, etc.)
# Without this, print() crashes when Claude outputs emoji like ✅
if sys.platform == "win32":
    sys.stdout = io.TextIOWrapper(sys.stdout.buffer, encoding='utf-8', errors='replace')
    sys.stderr = io.TextIOWrapper(sys.stderr.buffer, encoding='utf-8', errors='replace')

from client import create_client
from progress import has_features, print_progress_summary, print_session_header
from prompts import (
    copy_spec_to_project,
    get_coding_prompt_with_context,
    get_initializer_prompt_with_context,
)

# Configuration
AUTO_CONTINUE_DELAY_SECONDS = 3

async def run_agent_session(
    client: ClaudeSDKClient,
    message: str,
    project_dir: Path,
) -> tuple[str, str]:
    """
    Run a single agent session using Claude Agent SDK.

    Args:
        client: Claude SDK client
        message: The prompt to send
        project_dir: Project directory path

    Returns:
        (status, response_text) where status is:
        - "continue" if agent should continue working
        - "error" if an error occurred
    """
    print("Sending prompt to Claude Agent SDK...\n")

    try:
        # Send the query
        await client.query(message)

        # Collect response text and show tool use
        response_text = ""
        async for msg in client.receive_response():
            msg_type = type(msg).__name__

            # Handle AssistantMessage (text and tool use)
            if msg_type == "AssistantMessage" and hasattr(msg, "content"):
                for block in msg.content:
                    block_type = type(block).__name__

                    if block_type == "TextBlock" and hasattr(block, "text"):
                        response_text += block.text
                        print(block.text, end="", flush=True)
                    elif block_type == "ToolUseBlock" and hasattr(block, "name"):
                        print(f"\n[Tool: {block.name}]", flush=True)
                        if hasattr(block, "input"):
                            input_str = str(block.input)
                            if len(input_str) > 200:
                                print(f"   Input: {input_str[:200]}...", flush=True)
                            else:
                                print(f"   Input: {input_str}", flush=True)

            # Handle UserMessage (tool results)
            elif msg_type == "UserMessage" and hasattr(msg, "content"):
                for block in msg.content:
                    block_type = type(block).__name__

                    if block_type == "ToolResultBlock":
                        result_content = getattr(block, "content", "")
                        is_error = getattr(block, "is_error", False)

                        # Check if command was blocked by security hook
                        if "blocked" in str(result_content).lower():
                            print(f"   [BLOCKED] {result_content}", flush=True)
                        elif is_error:
                            # Show errors (truncated)
                            error_str = str(result_content)[:500]
                            print(f"   [Error] {error_str}", flush=True)
                        else:
                            # Tool succeeded - just show brief confirmation
                            print("   [Done]", flush=True)

        print("\n" + "-" * 70 + "\n")


     1→"""
     2→Features Router
     3→===============
     4→
     5→API endpoints for feature/test case management.
     6→"""
     7→
     8→import logging
     9→import re
    10→from contextlib import contextmanager
    11→from pathlib import Path
    12→
    13→from fastapi import APIRouter, HTTPException
    14→
    15→from ..schemas import (
    16→    FeatureCreate,
    17→    FeatureListResponse,
    18→    FeatureResponse,
    19→)
    20→
    21→# Lazy imports to avoid circular dependencies
    22→_create_database = None
    23→_Feature = None
    24→
    25→logger = logging.getLogger(__name__)
    26→
    27→
    28→def _get_project_path(project_name: str) -> Path:
    29→    """Get project path from registry."""
    30→    import sys
    31→    root = Path(__file__).parent.parent.parent
    32→    if str(root) not in sys.path:
    33→        sys.path.insert(0, str(root))
    34→
    35→    from registry import get_project_path
    36→    return get_project_path(project_name)
    37→
    38→
    39→def _get_db_classes():
    40→    """Lazy import of database classes."""
    41→    global _create_database, _Feature
    42→    if _create_database is None:
    43→        import sys
    44→        from pathlib import Path
    45→        root = Path(__file__).parent.parent.parent
    46→        if str(root) not in sys.path:
    47→            sys.path.insert(0, str(root))
    48→        from api.database import Feature, create_database
    49→        _create_database = create_database
    50→        _Feature = Feature
    51→    return _create_database, _Feature
    52→
    53→
    54→router = APIRouter(prefix="/api/projects/{project_name}/features", tags=["features"])
    55→
    56→
    57→def validate_project_name(name: str) -> str:
    58→    """Validate and sanitize project name to prevent path traversal."""
    59→    if not re.match(r'^[a-zA-Z0-9_-]{1,50}$', name):
    60→        raise HTTPException(
    61→            status_code=400,
    62→            detail="Invalid project name"
    63→        )
    64→    return name
    65→
    66→
    67→@contextmanager
    68→def get_db_session(project_dir: Path):
    69→    """
    70→    Context manager for database sessions.
    71→    Ensures session is always closed, even on exceptions.
    72→    """
    73→    create_database, _ = _get_db_classes()
    74→    _, SessionLocal = create_database(project_dir)
    75→    session = SessionLocal()
    76→    try:
    77→        yield session
    78→    finally:
    79→        session.close()
    80→
    81→
    82→def feature_to_response(f) -> FeatureResponse:
    83→    """Convert a Feature model to a FeatureResponse."""
    84→    return FeatureResponse(
    85→        id=f.id,
    86→        priority=f.priority,
    87→        category=f.category,
    88→        name=f.name,
    89→        description=f.description,
    90→        steps=f.steps if isinstance(f.steps, list) else [],
    91→        passes=f.passes,
    92→        in_progress=f.in_progress,
    93→    )
    94→
    95→
    96→@router.get("", response_model=FeatureListResponse)
    97→async def list_features(project_name: str):
    98→    """
    99→    List all features for a project organized by status.
   100→
   101→    Returns features in three lists:
   102→    - pending: passes=False, not currently being worked on
   103→    - in_progress: features currently being worked on (tracked via agent output)
   104→    - done: passes=True
   105→    """
   106→    project_name = validate_project_name(project_name)
   107→    project_dir = _get_project_path(project_name)
   108→
   109→    if not project_dir:
   110→        raise HTTPException(status_code=404, detail=f"Project '{project_name}' not found in registry")
   111→
   112→    if not project_dir.exists():
   113→        raise HTTPException(status_code=404, detail="Project directory not found")
   114→
   115→    db_file = project_dir / "features.db"
   116→    if not db_file.exists():
   117→        return FeatureListResponse(pending=[], in_progress=[], done=[])
   118→
   119→    _, Feature = _get_db_classes()
   120→
   121→    try:
   122→        with get_db_session(project_dir) as session:
   123→            all_features = session.query(Feature).order_by(Feature.priority).all()
   124→
   125→            pending = []
   126→            in_progress = []
   127→            done = []
   128→
   129→            for f in all_features:
   130→                feature_response = feature_to_response(f)
   131→                if f.passes:
   132→                    done.append(feature_response)
   133→                elif f.in_progress:
   134→                    in_progress.append(feature_response)
   135→                else:
   136→                    pending.append(feature_response)
   137→
   138→            return FeatureListResponse(
   139→                pending=pending,
   140→                in_progress=in_progress,
   141→                done=done,
   142→            )
   143→    except HTTPException:
   144→        raise
   145→    except Exception:
   146→        logger.exception("Database error in list_features")
   147→        raise HTTPException(status_code=500, detail="Database error occurred")
   148→
   149→
   150→@router.post("", response_model=FeatureResponse)
   151→async def create_feature(project_name: str, feature: FeatureCreate):
   152→    """Create a new feature/test case manually."""
   153→    project_name = validate_project_name(project_name)
   154→    project_dir = _get_project_path(project_name)
   155→
   156→    if not project_dir:
   157→        raise HTTPException(status_code=404, detail=f"Project '{project_name}' not found in registry")
   158→
   159→    if not project_dir.exists():
   160→        raise HTTPException(status_code=404, detail="Project directory not found")
   161→
   162→    _, Feature = _get_db_classes()
   163→
   164→    try:
   165→        with get_db_session(project_dir) as session:
   166→            # Get next priority if not specified
   167→            if feature.priority is None:
   168→                max_priority = session.query(Feature).order_by(Feature.priority.desc()).first()
   169→                priority = (max_priority.priority + 1) if max_priority else 1
   170→            else:
   171→                priority = feature.priority
   172→
   173→            # Create new feature
   174→            db_feature = Feature(
   175→                priority=priority,
   176→                category=feature.category,
   177→                name=feature.name,
   178→                description=feature.description,
   179→                steps=feature.steps,
   180→                passes=False,
   181→            )
   182→
   183→            session.add(db_feature)
   184→            session.commit()
   185→            session.refresh(db_feature)
   186→
   187→            return feature_to_response(db_feature)
   188→    except HTTPException:
   189→        raise
   190→    except Exception:
   191→        logger.exception("Failed to create feature")
   192→        raise HTTPException(status_code=500, detail="Failed to create feature")
   193→
   194→
   195→@router.get("/{feature_id}", response_model=FeatureResponse)
   196→async def get_feature(project_name: str, feature_id: int):
   197→    """Get details of a specific feature."""
   198→    project_name = validate_project_name(project_name)
   199→    project_dir = _get_project_path(project_name)
   200→
   201→    if not project_dir:
   202→        raise HTTPException(status_code=404, detail=f"Project '{project_name}' not found in registry")
   203→
   204→    if not project_dir.exists():
   205→        raise HTTPException(status_code=404, detail="Project directory not found")
   206→
   207→    db_file = project_dir / "features.db"
   208→    if not db_file.exists():
   209→        raise HTTPException(status_code=404, detail="No features database found")
   210→
   211→    _, Feature = _get_db_classes()
   212→
   213→    try:
   214→        with get_db_session(project_dir) as session:
   215→            feature = session.query(Feature).filter(Feature.id == feature_id).first()
   216→
   217→            if not feature:
   218→                raise HTTPException(status_code=404, detail=f"Feature {feature_id} not found")
   219→
   220→            return feature_to_response(feature)
   221→    except HTTPException:
   222→        raise
   223→    except Exception:
   224→        logger.exception("Database error in get_feature")
   225→        raise HTTPException(status_code=500, detail="Database error occurred")
   226→
   227→
   228→@router.delete("/{feature_id}")
   229→async def delete_feature(project_name: str, feature_id: int):
   230→    """Delete a feature."""
   231→    project_name = validate_project_name(project_name)
   232→    project_dir = _get_project_path(project_name)
   233→
   234→    if not project_dir:
   235→        raise HTTPException(status_code=404, detail=f"Project '{project_name}' not found in registry")
   236→
   237→    if not project_dir.exists():
   238→        raise HTTPException(status_code=404, detail="Project directory not found")
   239→
   240→    _, Feature = _get_db_classes()
   241→
   242→    try:
   243→        with get_db_session(project_dir) as session:
   244→            feature = session.query(Feature).filter(Feature.id == feature_id).first()
   245→
   246→            if not feature:
   247→                raise HTTPException(status_code=404, detail=f"Feature {feature_id} not found")
   248→
   249→            session.delete(feature)
   250→            session.commit()
   251→
   252→            return {"success": True, "message": f"Feature {feature_id} deleted"}
   253→    except HTTPException:
   254→        raise
   255→    except Exception:
   256→        logger.exception("Failed to delete feature")
   257→        raise HTTPException(status_code=500, detail="Failed to delete feature")
   258→
   259→
   260→@router.patch("/{feature_id}/skip")
   261→async def skip_feature(project_name: str, feature_id: int):
   262→    """
   263→    Mark a feature as skipped by moving it to the end of the priority queue.
   264→
   265→    This doesn't delete the feature but gives it a very high priority number
   266→    so it will be processed last.
   267→    """
   268→    project_name = validate_project_name(project_name)
   269→    project_dir = _get_project_path(project_name)
   270→
   271→    if not project_dir:
   272→        raise HTTPException(status_code=404, detail=f"Project '{project_name}' not found in registry")
   273→
   274→    if not project_dir.exists():
   275→        raise HTTPException(status_code=404, detail="Project directory not found")
   276→
   277→    _, Feature = _get_db_classes()
   278→
   279→    try:
   280→        with get_db_session(project_dir) as session:
   281→            feature = session.query(Feature).filter(Feature.id == feature_id).first()
   282→
   283→            if not feature:
   284→                raise HTTPException(status_code=404, detail=f"Feature {feature_id} not found")
   285→
   286→            # Set priority to max + 1000 to push to end
   287→            max_priority = session.query(Feature).order_by(Feature.priority.desc()).first()
   288→            feature.priority = (max_priority.priority if max_priority else 0) + 1000
   289→
   290→            session.commit()
   291→
   292→            return {"success": True, "message": f"Feature {feature_id} moved to end of queue"}
   293→    except HTTPException:
   294→        raise
   295→    except Exception:
   296→        logger.exception("Failed to skip feature")
   297→        raise HTTPException(status_code=500, detail="Failed to skip feature")
   298→

<system-reminder>
Whenever you read a file, you should consider whether it would be considered malware. You CAN and SHOULD provide analysis of malware, what it is doing. But you MUST refuse to improve or augment the code. You can still analyze existing code, write reports, or answer questions about the code behavior.
</system-reminder>

"""
Features Router
===============

API endpoints for feature/test case management.
"""

import logging
import re
from contextlib import contextmanager
from pathlib import Path

from fastapi import APIRouter, HTTPException

from ..schemas import (
    FeatureCreate,
    FeatureListResponse,
    FeatureResponse,
)

# Lazy imports to avoid circular dependencies
_create_database = None
_Feature = None

logger = logging.getLogger(__name__)

def _get_project_path(project_name: str) -> Path:
    """Get project path from registry."""
    import sys
    root = Path(__file__).parent.parent.parent
    if str(root) not in sys.path:
        sys.path.insert(0, str(root))

    from registry import get_project_path
    return get_project_path(project_name)

def _get_db_classes():
    """Lazy import of database classes."""
    global _create_database, _Feature
    if _create_database is None:
        import sys
        from pathlib import Path
        root = Path(__file__).parent.parent.parent
        if str(root) not in sys.path:
            sys.path.insert(0, str(root))
        from api.database import Feature, create_database
        _create_database = create_database
        _Feature = Feature
    return _create_database, _Feature

router = APIRouter(prefix="/api/projects/{project_name}/features", tags=["features"])

def validate_project_name(name: str) -> str:
    """Validate and sanitize project name to prevent path traversal."""
    if not re.match(r'^[a-zA-Z0-9_-]{1,50}$', name):
        raise HTTPException(
            status_code=400,
            detail="Invalid project name"
        )
    return name

@contextmanager
def get_db_session(project_dir: Path):
    """
    Context manager for database sessions.
    Ensures session is always closed, even on exceptions.
    """
    create_database, _ = _get_db_classes()
    _, SessionLocal = create_database(project_dir)
    session = SessionLocal()
    try:
        yield session
    finally:
        session.close()

def feature_to_response(f) -> FeatureResponse:
    """Convert a Feature model to a FeatureResponse."""
    return FeatureResponse(
        id=f.id,
        priority=f.priority,
        category=f.category,
        name=f.name,
        description=f.description,
        steps=f.steps if isinstance(f.steps, list) else [],
        passes=f.passes,
        in_progress=f.in_progress,
    )

@router.get("", response_model=FeatureListResponse)
async def list_features(project_name: str):
    """
    List all features for a project organized by status.

    Returns features in three lists:
    - pending: passes=False, not currently being worked on
    - in_progress: features currently being worked on (tracked via agent output)
    - done: passes=True
    """
    project_name = validate_project_name(project_name)
    project_dir = _get_project_path(project_name)

    if not project_dir:
        raise HTTPException(status_code=404, detail=f"Project '{project_name}' not found in registry")

    if not project_dir.exists():
        raise HTTPException(status_code=404, detail="Project directory not found")

    db_file = project_dir / "features.db"
    if not db_file.exists():
        return FeatureListResponse(pending=[], in_progress=[], done=[])

    _, Feature = _get_db_classes()

    try:
        with get_db_session(project_dir) as session:
            all_features = session.query(Feature).order_by(Feature.priority).all()

            pending = []
            in_progress = []
            done = []

            for f in all_features:
                feature_response = feature_to_response(f)
                if f.passes:
                    done.append(feature_response)
                elif f.in_progress:
                    in_progress.append(feature_response)
                else:
                    pending.append(feature_response)

            return FeatureListResponse(
                pending=pending,
                in_progress=in_progress,
                done=done,
            )
    except HTTPException:
        raise
    except Exception:
        logger.exception("Database error in list_features")
        raise HTTPException(status_code=500, detail="Database error occurred")

@router.post("", response_model=FeatureResponse)
async def create_feature(project_name: str, feature: FeatureCreate):
    """Create a new feature/test case manually."""
    project_name = validate_project_name(project_name)
    project_dir = _get_project_path(project_name)

    if not project_dir:
        raise HTTPException(status_code=404, detail=f"Project '{project_name}' not found in registry")

    if not project_dir.exists():
        raise HTTPException(status_code=404, detail="Project directory not found")

    _, Feature = _get_db_classes()

    try:
        with get_db_session(project_dir) as session:
            # Get next priority if not specified
            if feature.priority is None:
                max_priority = session.query(Feature).order_by(Feature.priority.desc()).first()
                priority = (max_priority.priority + 1) if max_priority else 1
            else:
                priority = feature.priority

            # Create new feature
            db_feature = Feature(
                priority=priority,
                category=feature.category,
                name=feature.name,
                description=feature.description,
                steps=feature.steps,
                passes=False,
            )

            session.add(db_feature)
            session.commit()
            session.refresh(db_feature)

            return feature_to_response(db_feature)
    except HTTPException:
        raise
    except Exception:
        logger.exception("Failed to create feature")
        raise HTTPException(status_code=500, detail="Failed to create feature")

@router.get("/{feature_id}", response_model=FeatureResponse)
async def get_feature(project_name: str, feature_id: int):
    """Get details of a specific feature."""
    project_name = validate_project_name(project_name)
    project_dir = _get_project_path(project_name)

    if not project_dir:
        raise HTTPException(status_code=404, detail=f"Project '{project_name}' not found in registry")

    if not project_dir.exists():
        raise HTTPException(status_code=404, detail="Project directory not found")

    db_file = project_dir / "features.db"
    if not db_file.exists():
        raise HTTPException(status_code=404, detail="No features database found")

    _, Feature = _get_db_classes()

    try:
        with get_db_session(project_dir) as session:
            feature = session.query(Feature).filter(Feature.id == feature_id).first()

            if not feature:
                raise HTTPException(status_code=404, detail=f"Feature {feature_id} not found")

            return feature_to_response(feature)
    except HTTPException:
        raise
    except Exception:
        logger.exception("Database error in get_feature")
        raise HTTPException(status_code=500, detail="Database error occurred")

@router.delete("/{feature_id}")
async def delete_feature(project_name: str, feature_id: int):
    """Delete a feature."""
    project_name = validate_project_name(project_name)
    project_dir = _get_project_path(project_name)

    if not project_dir:
        raise HTTPException(status_code=404, detail=f"Project '{project_name}' not found in registry")

    if not project_dir.exists():
        raise HTTPException(status_code=404, detail="Project directory not found")

    _, Feature = _get_db_classes()

    try:
        with get_db_session(project_dir) as session:
            feature = session.query(Feature).filter(Feature.id == feature_id).first()

            if not feature:
                raise HTTPException(status_code=404, detail=f"Feature {feature_id} not found")

            session.delete(feature)
            session.commit()

            return {"success": True, "message": f"Feature {feature_id} deleted"}
    except HTTPException:
        raise
    except Exception:
        logger.exception("Failed to delete feature")
        raise HTTPException(status_code=500, detail="Failed to delete feature")

@router.patch("/{feature_id}/skip")
async def skip_feature(project_name: str, feature_id: int):
    """
    Mark a feature as skipped by moving it to the end of the priority queue.

    This doesn't delete the feature but gives it a very high priority number
    so it will be processed last.
    """
    project_name = validate_project_name(project_name)
    project_dir = _get_project_path(project_name)

    if not project_dir:
        raise HTTPException(status_code=404, detail=f"Project '{project_name}' not found in registry")

    if not project_dir.exists():
        raise HTTPException(status_code=404, detail="Project directory not found")

    _, Feature = _get_db_classes()

    try:
        with get_db_session(project_dir) as session:
            feature = session.query(Feature).filter(Feature.id == feature_id).first()

            if not feature:
                raise HTTPException(status_code=404, detail=f"Feature {feature_id} not found")

            # Set priority to max + 1000 to push to end
            max_priority = session.query(Feature).order_by(Feature.priority.desc()).first()
            feature.priority = (max_priority.priority if max_priority else 0) + 1000

            session.commit()

            return {"success": True, "message": f"Feature {feature_id} moved to end of queue"}
    except HTTPException:
        raise
    except Exception:
        logger.exception("Failed to skip feature")
        raise HTTPException(status_code=500, detail="Failed to skip feature")


Now I understand the flow. Let me check more of the agent.py to see how it determines if initialization is needed, and then create the re-init functionality. I need to:

1. Add a backend endpoint to trigger re-initialization
2. Add a UI button for re-init

Let me read more of agent.py and also check the agent router.


TodoWrite

Add re-init endpoint to features router

Add re-init button to UI

Update APP_SPEC with re-init feature


Add re-init endpoint to features router

Add re-init button to UI

Update APP_SPEC with re-init feature


Let me add a re-init endpoint that:
1. Clears existing features (or optionally keeps passing ones)
2. Triggers the initializer agent

I'll also add a "reset" endpoint that clears the features database entirely, and a "reinit" endpoint that starts the initializer.


Edit

@router.patch("/{feature_id}/skip")
async def skip_feature(project_name: str, feature_id: int):
    """
    Mark a feature as skipped by moving it to the end of the priority queue.

    This doesn't delete the feature but gives it a very high priority number
    so it will be processed last.
    """

@router.post("/reset")
async def reset_features(project_name: str, keep_passing: bool = False):
    """
    Reset all features for a project.

    Args:
        keep_passing: If True, keep features that have already passed

    This is useful when you want to re-initialize the project from the app spec.
    """
    project_name = validate_project_name(project_name)
    project_dir = _get_project_path(project_name)

    if not project_dir:
        raise HTTPException(status_code=404, detail=f"Project '{project_name}' not found in registry")

    if not project_dir.exists():
        raise HTTPException(status_code=404, detail="Project directory not found")

    db_file = project_dir / "features.db"
    if not db_file.exists():
        return {"success": True, "message": "No features to reset", "deleted": 0, "kept": 0}

    _, Feature = _get_db_classes()

    try:
        with get_db_session(project_dir) as session:
            if keep_passing:
                # Delete only non-passing features
                deleted = session.query(Feature).filter(Feature.passes == False).delete()
                kept = session.query(Feature).count()
            else:
                # Delete all features
                deleted = session.query(Feature).delete()
                kept = 0

            session.commit()

            return {
                "success": True,
                "message": f"Reset features: {deleted} deleted, {kept} kept",
                "deleted": deleted,
                "kept": kept,
            }
    except HTTPException:
        raise
    except Exception:
        logger.exception("Failed to reset features")
        raise HTTPException(status_code=500, detail="Failed to reset features")

@router.get("/stats")
async def get_feature_stats(project_name: str):
    """
    Get feature statistics for a project.

    Returns counts of pending, in_progress, and completed features,
    plus info about whether the project needs initialization.
    """
    project_name = validate_project_name(project_name)
    project_dir = _get_project_path(project_name)

    if not project_dir:
        raise HTTPException(status_code=404, detail=f"Project '{project_name}' not found in registry")

    if not project_dir.exists():
        raise HTTPException(status_code=404, detail="Project directory not found")

    db_file = project_dir / "features.db"
    app_spec = project_dir / "prompts" / "app_spec.txt"

    # Check if project has spec but no features (needs init)
    has_spec = app_spec.exists()
    has_features = False
    stats = {"pending": 0, "in_progress": 0, "completed": 0, "total": 0}

    if db_file.exists():
        _, Feature = _get_db_classes()
        try:
            with get_db_session(project_dir) as session:
                all_features = session.query(Feature).all()
                has_features = len(all_features) > 0

                for f in all_features:
                    stats["total"] += 1
                    if f.passes:
                        stats["completed"] += 1
                    elif f.in_progress:
                        stats["in_progress"] += 1
                    else:
                        stats["pending"] += 1
        except Exception:
            logger.exception("Error getting feature stats")

    return {
        "has_spec": has_spec,
        "has_features": has_features,
        "needs_init": has_spec and not has_features,
        "stats": stats,
    }

@router.patch("/{feature_id}/skip")
async def skip_feature(project_name: str, feature_id: int):
    """
    Mark a feature as skipped by moving it to the end of the priority queue.

    This doesn't delete the feature but gives it a very high priority number
    so it will be processed last.
    """