Exporting Data
Clavis supports standard scene screenshots, structured analysis exports, path-traced publication renders, and trajectory videos.
Image Export (PNG)
Press Ctrl/Cmd + E or click the export button to save a PNG of the current 3D view.
- Captures visible atoms, cages, rings, guests, H-bonds, axes, and PBC box
- Uses the current camera pose and, when Preview Mode is active, the configured render-frame crop and output dimensions
- Honors layer visibility and opacity settings
- Excludes preview-only guide artifacts such as yellow frame guides, focus markers, light-position indicators, and drag handles
Render Frame Export
The RENDER tab includes configurable output width/height and common aspect presets. Preview Mode displays a centered render frame overlay so you can compose a figure before exporting. Drag Frame mode uses the exact drawn crop, and output dimensions follow that crop aspect without increasing the current pixel area. Standard PNG export and path-traced still export now share this render-frame contract, so a 4:5 preset or user crop produces a matching output image instead of the raw browser viewport.
Data Export
After running analysis, export results as CSV or JSON.
CSV Export
CSV files include one row per detected cage with fields such as:
| Column | Description |
|---|
| cage_index | Sequential cage number |
| cage_type | Face signature, e.g. 5^12·6^2 |
| quality | SEC, nSEC, or IC when available |
| center_x/y/z | Cage center coordinates |
| vertices | Water oxygen indices forming the cage |
JSON Export
JSON export preserves structured cage, ring, occupancy, and trajectory data for programmatic use.
Batch and Video Export
For trajectories, Pro workflows can export frame ranges and MP4 videos. Choose start/end frame, step, FPS, quality, loop count, and WebGL or path-traced render mode. The CPU still-image fallback is for still PNG export only; video export remains WebGL or GPU path-traced. FFmpeg runs in the browser through WebAssembly for MP4 encoding.
For publication images, set the render frame first, preview the crop, then export either the standard WebGL view or a path-traced render.
Empty Render Recovery
If a path-traced render reports background-only output, first use Center Frame or Reset 16:9 from the recovery panel, then confirm the target molecule and visible layers are inside the yellow Preview Mode frame. This usually means the export crop or camera target missed the visible molecule, although truly empty or hidden scenes can also produce the same warning.
