5.0 (#62)

* feat: Add Bioxel asset catalog and layer management functionality

- Introduced a new asset catalog definition file for Blender to manage Bioxel assets.
- Implemented layer caching and snapshot functionality in `layer.py`, allowing for VDB file generation and low-resolution snapshots.
- Created node management functions in `node.py` for handling Bioxel nodes within Blender's Geometry Node Editor.
- Added an operator to extract mesh data from selected nodes in `structure.py`.
- Developed UI panels in `panels.py` for layer management, including import options and layer library display.

* Add unit tests for bioxel module and documentation

- Created README.md for test instructions and categories.
- Implemented comprehensive unit tests for the Data, Layer, and utility functions in the bioxel module.
- Added tests for reading NRRD and DICOM formats, data properties, and edge cases.
- Included tests for real data files to ensure functionality with actual datasets.

* feat: Update .gitattributes and .gitignore for improved asset management and ignore patterns

chore: Add app.json and omoolab.css for Obsidian integration

refactor: Clean up AGENTS.md and remove outdated test files

* feat: Update .gitignore to include scipy_ndimage directory

* feat: Update release workflow and manifest for improved dependency management and layer handling

* feat: Update .gitignore and add binary files for scipy_ndimage across multiple platforms

* feat: Add OPSX commands for archiving, exploring, and proposing changes

* feat: Refactor asset library management and update manifest for improved organization

* feat: Downgrade h5py version to 3.14.0 in requirements and manifest

* feat: Update Help operator and panel labels to use English terminology

* Translate documentation to Chinese, add support format details, and enhance styling with new fonts. Update mkdocs configuration for multilingual support and improve package dependencies.

* feat: Remove default version setting from extra configuration in mkdocs.yml

* fix: Update documentation links to point to the correct URLs for Chinese and English versions

* Add documentation for basic usage, supported formats, and performance tips

- Created English and Chinese documentation for basic usage of the add-on, including data download, import, extraction, and rendering steps.
- Added support format documentation listing compatible file types for the add-on.
- Included links to open databases for volumetric data.
- Provided performance improvement tips for voxel reconstruction and rendering, including settings for low-resolution previews and balanced rendering configurations.

* Add OpenSpec skills for change management and exploration

- Implement openspec-apply-change skill for applying tasks from OpenSpec changes.
- Create openspec-archive-change skill for archiving completed changes.
- Introduce openspec-explore skill for exploring ideas and clarifying requirements.
- Add openspec-propose skill for proposing new changes with generated artifacts.
- Migrate source command skills: source-command-opsx-apply, source-command-opsx-archive, source-command-opsx-explore, and source-command-opsx-propose for improved command handling.

* feat: Update version to 2.0.1, refactor asset library handling, and enhance layer import process

* fix: downgrade scipy version to 1.16.3 in build.py and pyproject.toml

* Remove deprecated modules and functions from bioxel package

- Deleted _ni_support.py, _utils.py, and dtype.py as they contained unused or redundant functions.
- Removed the resize function and related utilities from _warps.py to streamline image processing.
- Cleaned up the skimage module by removing unnecessary imports and functions.

* feat: Add SKIP_MODULE_NAMES to exclude specific modules during import and refactor io_worker import logic

* refactor: Remove known limitations section from documentation for EEVEE NEXT support

build.py

@@ -19,7 +19,8 @@ required_packages = ["SimpleITK==2.5.5",
                      "transforms3d==0.4.2",
                      "tifffile==2024.7.24",
                      "matplotlib==3.10.7",
-                     "pillow==11.2.1"]
+                     "pillow==11.2.1",
+                     "scipy==1.16.3"]
 
 
 platforms = {"windows-x64": Platform(pypi_suffix="win_amd64",
@@ -33,7 +34,8 @@ platforms = {"windows-x64": Platform(pypi_suffix="win_amd64",
 
 packages_to_remove = {
     "imagecodecs",
-    "numpy"
+    "numpy",
+    "packaging"
 }
 
 
@@ -45,7 +47,6 @@ def run_python(args: str):
 def build_extension(platform: Platform, python_version: str) -> None:
     wheel_dirpath = Path("./src/bioxelnodes/wheels")
     toml_filepath = Path("./src/bioxelnodes/blender_manifest.toml")
-    scipy_ndimage_dirpath = Path("./scipy_ndimage", platform.blender_tag)
 
     # download required_packages
     run_python(
@@ -62,10 +63,6 @@ def build_extension(platform: Platform, python_version: str) -> None:
             and "universal2" in f.name
         ):
             f.rename(Path(f.parent, f.name.replace("universal2", "arm64")))
-
-    for ndimage_filepath in scipy_ndimage_dirpath.iterdir():
-        to_filepath = Path("./src/bioxelnodes/bioxel/scipy", ndimage_filepath.name)
-        shutil.copy(ndimage_filepath, to_filepath)
         
     # Load the TOML file
     with toml_filepath.open("r") as file: