5.0 (#65)

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refactor: Clean up AGENTS.md and remove outdated test files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

* feat: Implement CLI command registration for bioxelnodes_import_worker and refactor io_worker for improved module handling

* chore: Update version to 2.0.2 in project files and dependencies

* feat: Enhance volumetric data parsing by adding progress updates and refactoring worker processes

* feat: Enhance asset library management with status checks and error handling

* feat: Update version to 2.0.3 and adjust dependencies in project files

* feat: Remove unused asset library removal function

* feat: Expand documentation with project overview, build instructions, and architecture details

AGENTS.md

@@ -1,3 +1,63 @@
+# Bioxel Nodes
+
+## 项目概览
+
+Bioxel Nodes 是一个基于 Blender 的科学体数据可视化插件，利用 Blender 自带的 Geometry Nodes 与 Cycles（同时支持 EEVEE NEXT）处理并渲染体数据。
+
+- 支持格式：`.dcm`、`.tif`/`.tiff`、`.nii`/`.nii.gz`、`.nrrd`、`.ome.tiff`、`.mrc`、`.h5` 等，完整列表见 `src/bioxelnodes/bioxel/data.py` 的 `SUPPORT_EXTS`
+- 支持 4D 体数据（多帧 / 多通道 / 时间序列）
+- v2.0.x 仅支持 Blender 5.0+
+- 核心依赖：SimpleITK、pyometiff、mrcfile、h5py、numpy、scipy、transforms3d、matplotlib
+
+## 构建、测试与开发命令
+
+- 环境：Python 3.11，依赖由 uv 管理（`uv.lock`）
+- `uv sync` 安装 / 同步依赖
+- `uv run pytest` 运行测试（当前暂无测试用例）
+- `uv run mkdocs serve` 本地预览文档；`uv run mkdocs build` 构建到 `site/`
+- `uv run mike deploy <version> -p` 发布版本化文档
+- `uv run build.py <platform> 3.11` 下载第三方 wheel 并更新 `src/bioxelnodes/blender_manifest.toml`，`platform` 取 `windows-x64` / `linux-x64` / `macos-arm64` / `macos-x64`
+- `python pack.py <platform> [output.zip]` 将 `src/bioxelnodes` 打包为 zip
+- 发布：推送 `v*` 标签触发 `.github/workflows/release.yml`，产物命名 `BioxelNodes.<version>.<platform>.zip`
+
+## 架构
+
+```text
+src/bioxelnodes/            插件包根目录
+├── __init__.py             入口：register/unregister、CLI 命令与 WindowManager 属性
+├── auto_load.py            自动发现并按拓扑排序注册 bpy 类
+├── constants.py            常量（节点库路径等）
+├── preferences.py          AddonPreferences（缓存目录）
+├── props.py                PropertyGroup / UIList / 属性更新回调
+├── menus.py                菜单与右键菜单
+├── panels.py               面板
+├── asset_library.py        "O Bioxel" 资产库管理
+├── node.py                 节点组加载与添加
+├── layer.py                VDB 缓存、快照、图层元数据（text datablock JSON）
+├── utils.py                通用工具（进度、对象查找、驱动等）
+├── exceptions.py           向后兼容占位（自定义异常已改用内置异常）
+├── blender_manifest.toml   Blender 扩展清单
+├── assets/O_Bioxel/        节点库 .blend 与资产目录
+├── wheels/                 随扩展分发的第三方 wheel
+├── bioxel/                 核心数据模型（不依赖 Blender）
+│   ├── data.py             Data 类与解析（read / read_meta）
+│   ├── parse.py            解析函数（parse_volumetric_data 等）
+│   ├── layer.py            Layer：TXYZC 顺序 ndarray + affine 变换
+│   ├── container.py        Container：name + layers
+│   └── io.py               HDF5 读写 Container
+└── operators/              Operator 实现
+    ├── io.py               导入 / 导出算子，启动后台导入进程
+    ├── io_worker.py        后台 CLI 导入 worker（bioxelnodes_import_worker）
+    ├── layer.py            图层管理算子
+    ├── node.py             AddNode
+    ├── structure.py        ExtractMesh
+    └── misc.py             杂项算子
+```
+
+数据流：导入时主进程通过 `operators/io.py` 启动一个后台 Blender 子进程（`blender --background --command bioxelnodes_import_worker`），由 `io_worker.py` 解析数据、生成 `Layer`，写为 VDB 缓存，并通过 JSON 文件（`progress.json` / `result.json` / `cancel`）回传进度与结果，避免阻塞 UI。
+
+仓库根目录另有 `docs/`（mkdocs-material 文档，中英双语）、`openspec/`（spec-driven 变更流程）、`.agents/`（技能定义）。
+
 ## 总规范
 
 - 说明性内容（例如提交说明、文档、注释、mermaid），以中文为主，专有名词、约定俗称可用英文
@@ -17,3 +77,16 @@
 - 使用的依赖越少越好
 - 选用简单直接的方式实现
 - 代码、执行方式改变，调整已有的文档、计划，而非新建
+
+## Shell 规范
+
+- 优先使用、提供 Git Bash 执行所有 Shell 命令
+- Windows 路径在 Bash 命令中优先使用正斜杠形式
+
+## Blender 开发规范
+
+- 插件、资产库压缩包名用大驼峰，如果需要，用`b45`来表示适用blender版本。比如`OmooLab.v0.1.0.b45.zip`
+- Operator、Menu、Panel、AddonPreferences... Class 用大驼峰命名，不加任何前缀。Operator 动宾结构，比如`RenderImage`。Menu、Panel 以它们本身为后缀，比如`RenderPanel`
+- 根据项目名提炼项目缩写，作为 bl_idname 和 自定义 Property 的前缀以区分其他功能和属性，以`Omoo`为例
+  - bl_idname 用下划线小写命名，Operator 的 bl_idname 以`omoo.*`为前缀，比如`omoo.render_panel`；Menu 的以`OMOO_MT_*`为前缀；Panel 的以`OMOO_PT_*`为前缀。比如`OMOO_PT_render_panel`
+  - 自定义 Property 用下划线小写命名，以`omoo_*`为前缀。比如`omoo_progress_factor`