feat: more time sequence choice

fix: contrast formulation cause leak of high value
fix: empty series_id cause fail to read
chore: restructure folder
chore!: change layer vars
BREAKING CHANGE: not support 4.1 any more

build.py

@@ -0,0 +1,86 @@
+from pathlib import Path
+import shutil
+import subprocess
+import sys
+from dataclasses import dataclass
+import tomlkit
+
+
+@dataclass
+class Platform:
+    pypi_suffix: str
+    blender_tag: str
+
+
+required_packages = ["SimpleITK==2.3.1",
+                     "pyometiff==1.0.0",
+                     "mrcfile==1.5.1",
+                     "h5py==3.11.0",
+                     "transforms3d==0.4.2"]
+
+
+platforms = {"windows-x64": Platform(pypi_suffix="win_amd64",
+                                     blender_tag="windows-x64"),
+             "linux-x64": Platform(pypi_suffix="manylinux2014_x86_64",
+                                   blender_tag="linux-x64"),
+             "macos-arm64": Platform(pypi_suffix="macosx_12_0_arm64",
+                                     blender_tag="macos-arm64"),
+             "macos-x64": Platform(pypi_suffix="macosx_10_16_x86_64",
+                                   blender_tag="macos-x64")}
+
+packages_to_remove = {
+    "imagecodecs",
+    "numpy"
+}
+
+
+def run_python(args: str):
+    python = Path(sys.executable).resolve()
+    subprocess.run([python] + args.split(" "))
+
+
+def build_extension(platform: Platform, python_version="3.11") -> None:
+    wheel_dirpath = Path("./bioxelnodes/wheels")
+    toml_filepath = Path("bioxelnodes/blender_manifest.toml")
+    scipy_ndimage_dirpath = Path("./scipy_ndimage", platform.blender_tag)
+
+    # download required_packages
+    run_python(
+        f"-m pip download {' '.join(required_packages)} --dest {wheel_dirpath.as_posix()} --only-binary=:all: --python-version={python_version} --platform={platform.pypi_suffix}"
+    )
+
+    for f in wheel_dirpath.glob('*.whl'):
+        if any([package in f.name for package in packages_to_remove]):
+            f.unlink(missing_ok=True)
+
+    for ndimage_filepath in scipy_ndimage_dirpath.iterdir():
+        to_filepath = Path("./bioxelnodes/bioxel/scipy", ndimage_filepath.name)
+        shutil.copy(ndimage_filepath, to_filepath)
+
+    # Load the TOML file
+    with toml_filepath.open("r") as file:
+        manifest = tomlkit.parse(file.read())
+
+    build = tomlkit.table(True)
+    generated = tomlkit.table()
+    generated["platforms"] = [platform.blender_tag]
+    generated["wheels"] = [f"./wheels/{f.name}"
+                                 for f in wheel_dirpath.glob('*.whl')]
+
+    build.append('generated', generated)
+    manifest.append('build', build)
+
+    # Write the updated TOML file
+    with toml_filepath.open("w") as file:
+        text = tomlkit.dumps(manifest)
+        file.write(text)
+
+
+def main():
+    platform_name = sys.argv[1]
+    platform = platforms[platform_name]
+    build_extension(platform)
+
+
+if __name__ == "__main__":
+    main()