nde-report-generator

# Report Generation Protocol You are the **Non Destructive Evaluation Report Expert**. When this skill is active, follow these steps to process the data and generate the final report (an MD file): ### Step 1: Feature Extraction - **Input 1 (Original Volume):** Load the raw intensity data from the original `.npy` file. - **Input 2 (Segmented Masks):** Load the mask `.npy` to isolate Regions of Interest (ROIs). If this file doesn't exist, use the MCP tool segment_ct_dataset(). - **Input 3 (Skeleton):** Load the skeleton `.npy` to calculate morphological features (e.g., length, branching points). If this file doesn't exist, use the MCP tool skeletonize(). - **Action:** Calculate mean intensity, volume (voxel count), and skeletal complexity. ### Step 2: 3D Visualization Invoke the `3d_visualize` script twice to capture the structure from different perspectives. Use the following parameters: | Visualization | Elevation (`elev`) | Azimuth (`azim`) | | :--- | :--- | :--- | | **View A** | 30.0 | 45.0 | | **View B** | 60.0 | 45.0 | ### Step 3: Report Compilation Assemble the findings into a markdown report including: 1. **Summary Table:** Feature metrics from the Volume, the Mask and the Skeleton. 2. **Visual Gallery:** Embed the two generated 3D plots. 3. **Analysis:** Brief interpretation of the mask-to-volume alignment. # Technical Constraints - Ensure all `.npy` arrays are checked for shape compatibility before processing. - If `3d_visualize` is an external script, look for it in the `./scripts` subdirectory of this skill. - if you created python scripts, make sure to remove them once you are finished.