Update license and readme

Author: Linked-Liszt

LICENSE

@@ -0,0 +1,42 @@
+Copyright (c), UChicago Argonne, LLC. All rights reserved.
+
+Copyright. UChicago Argonne, LLC. This software was produced 
+under U.S. Government contract DE-AC02-06CH11357 for Argonne National 
+Laboratory (ANL), which is operated by UChicago Argonne, LLC for the 
+U.S. Department of Energy. The U.S. Government has rights to use, 
+reproduce, and distribute this software.  NEITHER THE GOVERNMENT NOR 
+UChicago Argonne, LLC MAKES ANY WARRANTY, EXPRESS OR IMPLIED, OR 
+ASSUMES ANY LIABILITY FOR THE USE OF THIS SOFTWARE.  If software is 
+modified to produce derivative works, such modified software should 
+be clearly marked, so as not to confuse it with the version available 
+from ANL.
+
+Additionally, redistribution and use in source and binary forms, with 
+or without modification, are permitted provided that the following 
+conditions are met:
+
+    * Redistributions of source code must retain the above copyright 
+      notice, this list of conditions and the following disclaimer. 
+
+    * Redistributions in binary form must reproduce the above copyright 
+      notice, this list of conditions and the following disclaimer in 
+      the documentation and/or other materials provided with the 
+      distribution. 
+
+    * Neither the name of UChicago Argonne, LLC, Argonne National 
+      Laboratory, ANL, the U.S. Government, nor the names of its 
+      contributors may be used to endorse or promote products derived 
+      from this software without specific prior written permission. 
+
+THIS SOFTWARE IS PROVIDED BY UChicago Argonne, LLC AND CONTRIBUTORS 
+"AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT 
+LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS 
+FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL UChicago 
+Argonne, LLC OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, 
+INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, 
+BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; 
+LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER 
+CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT 
+LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN 
+ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE 
+POSSIBILITY OF SUCH DAMAGE.

README.md

@@ -1,66 +1,77 @@
 # Laue Portal
 
-A comprehensive web-based platform for Laue X-ray diffraction data analysis and reconstruction, designed for synchrotron beamline operations at the APS 3DMN beamline: 34-IDE.
+A web-based platform for managing Laue X-ray diffraction data processing workflows at APS beamline 34-ID-E.
 
+## Overview
 
-Laue Portal is a Dash-based web application that provides an integrated workflow for processing and analyzing Laue diffraction patterns. The platform combines data management, peak indexing, and 3D reconstruction capabilities with an intuitive web interface for researchers working with polychromatic X-ray diffraction data.
+Laue Portal provides a Dash-based interface for processing and analyzing depth resolved X-ray diffraction data. It manages the workflow from scan metadata collection through peak indexing and 3D reconstruction.
 
+## Installation
 
 ### Prerequisites
-- Python 3.12
+- Python 3.11+
+- Redis server
 - SQLite
-- HDF5 libraries
 
 ### Setup
+
 1. Clone the repository:
-   ```bash
-   git clone <repository-url>
-   cd laue-portal
-   ```
+```bash
+git clone https://github.com/Linked-Liszt/laue-portal.git
+cd laue-portal
+```
 
 2. Install dependencies:
-   ```bash
-   pip install -r requirements.txt
-   ```
-
-3. Run the application:
-   ```bash
-   python lau_dash.py
-   ```
+```bash
+pip install -r requirements.txt
+```
 
-4. Access the web interface at `http://localhost:2052`
+3. Configure the application by editing `config.py`:
+   - `db_file`: Database path (default: `Laue_Records.db`)
+   - `REDIS_CONFIG`: Redis connection settings
+   - `DASH_CONFIG`: Web server host/port (default: `localhost:2092`)
+   - `DEFAULT_VARIABLES`: Processing parameters and workspace paths
 
-## Architecture
+## Usage
 
-### Core Components
+### Start the Web Application Without Processing
 
-- **`lau_dash.py`**: Main Dash application entry point
-- **`laue_portal/`**: Core application package
-  - **`pages/`**: Web interface pages (scans, reconstructions, peak indexing)
-  - **`components/`**: Reusable UI components and forms
-  - **`database/`**: Database schema and utilities
-  - **`recon/`**: Reconstruction algorithms and analysis tools
+```bash
+python lau_dash.py
+```
 
+### Production Deployment with Supervisor
 
-### Workflow Integration
+```bash
+cd supervisor
+./setup_supervisor.sh <conda_env_name_or_path>
+./start_supervisor.sh
+```
 
-- **`polaris_workflow/`**: Integration with Argonne's Polaris supercomputer
-- **`gladier`**: Workflow orchestration for distributed computing
-- **Remote Processing**: Automated data transfer and processing on HPC resources
+See `supervisor/README.md` for detailed management commands.
 
+## Project Structure
 
-## Configuration
+```
+laue-portal/
+├── lau_dash.py              # Main Dash application
+├── config.py                # Configuration settings
+├── laue_portal/
+│   ├── components/          # UI components and forms
+│   ├── database/            # SQLAlchemy models and utilities
+│   ├── pages/               # Page layouts and callbacks
+│   ├── processing/          # RQ workers and Redis utilities
+│   └── recon/               # Reconstruction analysis tools
+├── polaris_workflow/        # HPC workflow integration (Gladier/funcX)
+├── supervisor/              # Production deployment scripts
+└── tests/                   # Test suite
+```
 
-Key configuration files:
-- **`config.py`**: Database and application settings
-- **`polaris_workflow/funcx_launch/laue_conf.json`**: HPC workflow configuration
-- **`requirements.txt`**: Python dependencies
 
+## Development
 
-## Testing
+### Running Tests
 
-Run the test suite:
 ```bash
-python -m unittest discover -s tests -p 'test_*.py'
+pytest tests/
 ```
-