v0.3.0

T1Prep v0.3.0 Release Notes

New Features

Web-Based User Interface

• New Flask-based web UI launcher: scripts/T1Prep_ui
• Dark/light theme with automatic detection
• Drag-and-drop uploads with removable “chips” for selected files
• Folder + pattern file selection with preview
• Atlas selection and custom atlas upload
• Live multi-phase progress tracking with auto-refresh
• Job scheduler with status monitoring
• Auto-opens Chrome in app mode

Soft Dice Score

• New --soft option in Dice CLI for probabilistic/soft Dice

Surface Templates

• Expanded documentation for 32k surface atlases/templates

Improvements

Installation & Docker

• Interactive release selection during install
• Quick one-line installer script
• Non-interactive installer options for automation
• Windows WSL installation instructions
• Improved Dockerfile apt formatting
• Automatically removes macOS quarantine attributes

CLI & Options

• Single-dash flags adopted for several options
• Contextual help tooltips in Web UI
• Surface/volume atlas help endpoints
• Improved --default option parsing

Surface & GPU Handling

• Surface resolution parameter for resampling
• Improved overlay-mesh resolution and overlay handling
• MPS fallback support on macOS for GPU operations

Bug Fixes

• Fixed unpacking of cleanup_vessels return values
• Corrected VTK/Qt initialization; silenced QPainter warnings
• Improved script directory resolution in scripts/T1Prep and scripts/utils.sh
• Resolved stdin conflicts in interactive prompts (use /dev/tty)

Updated Binaries

• CAT binaries updated for Linux, macOS, and Windows
• Added RemoveIntersections tool
• Updated CAT_SurfCorrectThicknessFolding
• Tuned CAT_VolThicknessPbt parameters