Syn anno tab

.gitignore

@@ -31,7 +31,6 @@ pytorch_connectomics/
 .coverage
 coverage.xml
 dist/
-.env
-.env.*
+
 *.log
 .github/workflows/docker-test.yml

COPILOT.md

@@ -0,0 +1,86 @@
+**Project Summary**
+- **Name:** pytc-client — Desktop client and services for Pytorch Connectomics
+- **Purpose:** Electron + React desktop client that interacts with FastAPI backend services and the `pytorch_connectomics` library for connectomics workflows.
+
+**Top-level Structure**
+- **`client/`**: Electron + React frontend (CRA). Important files:
+  - `client/package.json` — frontend scripts (`start`, `build`, `electron`).
+  - `client/main.js` — Electron entrypoint.
+  - `client/src/` — React source; components in `client/src/components/`.
+- **`server_api/`**: FastAPI application (API server)
+  - `server_api/main.py` — API entrypoint.
+  - `server_api/requirements.txt` — Python deps for API.
+- **`server_pytc/`**: PyTC worker service used for model inference or background tasks
+  - `server_pytc/main.py` — worker entrypoint.
+- **`pytorch_connectomics/`**: Library (local package) with models, configs, and utilities used by the worker.
+  - `pytorch_connectomics/setup.py` — library install entry.
+  - `pytorch_connectomics/configs/` — example YAML config files.
+- **`docker/`**: Docker resources for containerized backend; root `docker-compose.yaml` / `Dockerfile` exist.
+- **`scripts/`**: Helper scripts
+  - `scripts/bootstrap.sh` / `scripts/bootstrap.ps1` — one-time install/bootstrap
+  - `start.sh` / `start.bat` — start the full stack (servers + Electron client)
+- **`docs/`, `notebooks/`, `tests/`**: documentation, Jupyter notebooks, and unit tests respectively.
+
+**Important Root Files**
+- `package.json` (root): convenience npm scripts added to operate on the `client/` folder from repository root.
+- `README.md`: project setup and running instructions.
+
+**Common Developer Commands**
+- Bootstrap (one-time):
+```bash
+./scripts/bootstrap.sh        # macOS / Linux
+scripts\bootstrap.ps1        # Windows PowerShell
+```
+- Start full stack (desktop + services):
+```bash
+./start.sh                    # macOS / Linux
+start.bat                     # Windows CMD
+```
+- Build frontend from repo root (convenience scripts added):
+```bash
+npm run client:install        # install dependencies inside `client/`
+npm run client:build          # build production frontend in `client/build`
+npm run client:dev            # run frontend dev server (react-scripts start)
+npm run client:electron       # run Electron (`electron .`) from `client/`
+```
+- Manual backend run (dev):
+```bash
+python -m venv .venv
+# activate venv
+source .venv/bin/activate     # macOS / Linux
+.\.venv\Scripts\activate    # Windows PowerShell
+pip install -r server_api/requirements.txt
+python server_api/main.py
+python server_pytc/main.py
+```
+- Tests:
+```bash
+pytest -q
+```
+- Docker backend (build & run):
+```bash
+docker compose build backend
+docker compose up backend
+docker compose down
+```
+
+**Where to Make Changes**
+- Frontend UI / components: edit `client/src/` and update `client/package.json` scripts as needed.
+- Electron behavior: edit `client/main.js` and electron-specific code.
+- API endpoints & backend logic: edit `server_api/` (FastAPI) and `server_pytc/` for worker behavior.
+- Models/configs: `pytorch_connectomics/` contains models, configs, and experiment YAMLs.
+
+**CI / Automation Tips**
+- CI jobs can call `npm --prefix client run build` (same as `npm run client:build`) to build frontend from repo root.
+- For parallel dev workflows (backend + frontend concurrently), consider adding `concurrently` or `npm-run-all` as dev dependencies and a `dev` script in root.
+
+**Notes & Recommendations**
+- Root `package.json` now includes `client:*` convenience scripts that use `npm --prefix client` to be cross-platform.
+- `client/package.json` uses `react-scripts` and defines `build` and `electron` scripts; keep those in sync when modifying frontend tooling.
+- Use `start.sh` / `start.bat` for the supported, repository-provided startup flow when possible.
+
+**Contact / Reference**
+- See `README.md` for more detailed setup and video demo link.
+- Use `tests/` for examples of expected behavior and for regression checks.
+
+(Generated by Copilot assistant for developer reference.)

DEVLOG.md

@@ -0,0 +1,95 @@
+# DEVLOG.md — pytc-client Development Log
+
+This file records the major development steps, design decisions, and UI/UX changes made to the pytc-client project. It is formatted for easy reading by humans and AI agents.
+
+---
+
+## Project Context
+- **Repo:** PytorchConnectomics/pytc-client
+- **Frontend:** React + Electron (Ant Design)
+- **Backend:** FastAPI (Python), local user management for prototype
+
+---
+
+## Major Features & Changes
+
+### [2025-11-21] Backend User Management
+*   **Backend Auth**: Integrated FastAPI with `python-jose` (JWT) and `passlib` (bcrypt) for secure authentication.
+*   **Database**: Added SQLite database (`sql_app.db`) with SQLAlchemy models for Users.
+*   **Frontend Integration**: Updated `UserContext` to communicate with backend endpoints (`/register`, `/token`, `/users/me`) instead of local storage.
+*   **Dependencies**: Added `python-jose`, `passlib`, `sqlalchemy` to requirements.
+
+### [2025-11-21] Advanced File Management & UI Polish
+*   **Manual Sign Out**: Added a sign-out button to the header, allowing users to return to the Welcome screen.
+*   **File Previews**: Implemented a preview modal for files (images and text) triggered by double-click or context menu.
+*   **Multi-Select & Drag Selection**: Added drag selection box and keyboard shortcuts (Ctrl/Shift) for selecting multiple files.
+*   **Enhanced Drag & Drop**: Enabled moving multiple selected files/folders at once, including within the same parent directory.
+*   **Context Menu Enhancements**: Updated context menu to handle multiple selections (bulk Copy/Delete) and hide "Preview" for multi-select.
+*   **Bug Fixes**: Resolved issues with drag selection (single item) and Electron path handling on Windows.
+
+### 1. Welcome Page
+- Added a full-screen Welcome page as the app's entry point.
+- Includes project name, intro, and warm message.
+- Two buttons: "Sign in" and "Sign up".
+- Styled to resemble cursor.com (modern, clean, gradient background).
+- Welcome page is always shown on app start (automatic sign out).
+
+### 2. Backend User Management (New)
+- Replaced local storage with production-ready backend auth.
+- Users are stored in `server_api/sql_app.db` (SQLite).
+- Passwords are hashed with bcrypt.
+- JWT tokens used for session management (stored in localStorage).
+
+### 3. Main App Navigation
+- After login, user sees main app view (tabs: Visualization, Model Training, Model Inference, Tensorboard, Files).
+- "Welcome" tab removed from main menu after login.
+- Navigation to Welcome page is blocked after login.
+
+### 4. Files Tab (Google Drive-like)
+- Files tab shows three file slots per user.
+- Each slot displays file info (name, size, type) or "Empty".
+- Upload, rename, and delete actions for each slot (Ant Design components).
+- Upload is local only; rename uses modal; delete clears slot.
+
+### 5. Debugging & Build Process
+- Debug banners/messages added and removed for troubleshooting.
+- Reminder: Electron app uses static build (`client/build/`), so `npm run build` is required after code changes.
+- Hot reload only works in browser dev mode (`npm start`).
+
+---
+
+## Known Issues & Fixes
+- [x] Welcome page not showing: fixed by auto sign out on app start.
+- [x] "Welcome" tab visible after login: removed from menu.
+- [x] Debug messages visible: removed.
+- [x] Modals not working in Electron: fixed after proper build/restart.
+- [x] Drag selection not selecting single items: fixed.
+- [x] Electron "ERR_FILE_NOT_FOUND": fixed path separator in main.js.
+
+---
+
+## Next Steps / TODOs
+- [x] Add multi-file support or previews in Files tab.
+- [x] Add manual sign-out button in main app view.
+- [x] Integrate backend user management (FastAPI, JWT, etc.) for production.
+- [ ] Add user profile editing and avatar upload.
+- [ ] Improve file upload to support actual file storage (not just metadata).
+
+---
+
+## How to Develop & Test
+- Make code changes in `client/src/`.
+- Run `npm --prefix client run build` to update the Electron app.
+- Start the app with `./start.bat`.
+- For live development, use `npm start` (browser only).
+
+---
+
+## AI Agent Notes
+- All major UI/UX changes, context, and user flows are documented here.
+- Use this file to bootstrap further development, onboarding, or automation.
+- For backend integration, see FastAPI endpoints and user model notes above.
+
+---
+
+_Last updated: 2025-11-21_

bash.exe.stackdump

@@ -0,0 +1,29 @@
+Stack trace:
+Frame         Function      Args
+0007FFFFBBB0  00021006118E (00021028DEE8, 000210272B3E, 0007FFFFBBB0, 0007FFFFAAB0) msys-2.0.dll+0x2118E
+0007FFFFBBB0  0002100469BA (000000000000, 000000000000, 000000000000, 0007FFFFBE88) msys-2.0.dll+0x69BA
+0007FFFFBBB0  0002100469F2 (00021028DF99, 0007FFFFBA68, 0007FFFFBBB0, 000000000000) msys-2.0.dll+0x69F2
+0007FFFFBBB0  00021006A41E (000000000000, 000000000000, 000000000000, 000000000000) msys-2.0.dll+0x2A41E
+0007FFFFBBB0  00021006A545 (0007FFFFBBC0, 000000000000, 000000000000, 000000000000) msys-2.0.dll+0x2A545
+0007FFFFBE90  00021006B9A5 (0007FFFFBBC0, 000000000000, 000000000000, 000000000000) msys-2.0.dll+0x2B9A5
+End of stack trace
+Loaded modules:
+000100400000 bash.exe
+7FFA3F430000 ntdll.dll
+7FFA3E6F0000 KERNEL32.DLL
+7FFA3CF90000 KERNELBASE.dll
+7FFA3EDD0000 USER32.dll
+7FFA3D290000 win32u.dll
+000210040000 msys-2.0.dll
+7FFA3D510000 GDI32.dll
+7FFA3CE70000 gdi32full.dll
+7FFA3CAC0000 msvcp_win.dll
+7FFA3CB60000 ucrtbase.dll
+7FFA3D450000 advapi32.dll
+7FFA3D8B0000 msvcrt.dll
+7FFA3D730000 sechost.dll
+7FFA3E4E0000 RPCRT4.dll
+7FFA3CE40000 bcrypt.dll
+7FFA3C2A0000 CRYPTBASE.DLL
+7FFA3D370000 bcryptPrimitives.dll
+7FFA3EC80000 IMM32.DLL

client/.env

@@ -1,2 +1,4 @@
-REACT_APP_API_PROTOCOL=http
-REACT_APP_API_URL=localhost:4242
+SKIP_PREFLIGHT_CHECK=true
+REACT_APP_SERVER_PROTOCOL=http
+REACT_APP_SERVER_URL=localhost:4242
+PORT=3001

client/main.js

@@ -7,18 +7,20 @@ require('electron-reload')(__dirname, {
 
 let mainWindow
 
-function createWindow () {
+function createWindow() {
   mainWindow = new BrowserWindow({
     width: 800,
     height: 600,
     webPreferences: {
       nodeIntegration: true,
-      contextIsolation: false
+      contextIsolation: false,
+      webSecurity: false,  // Allow loading iframes from localhost
+      allowRunningInsecureContent: true
     }
   })
 
   mainWindow.loadURL(url.format({
-    pathname: path.join(__dirname, './build/index.html'),
+    pathname: path.join(__dirname, 'build', 'index.html'),
     protocol: 'file:',
     slashes: true
   }))