Merge pull request #35 from OmooLab/feature/dev

fix: macos-arm64 cannot install

bioxelnodes/bioxel/layer.py

@@ -77,14 +77,18 @@ class Layer():
                 raise Exception("Mask frame count is not same as ")
             for f in range(self.frame_count):
                 mask_frame = mask[f, :, :, :]
-                mask_frame = scipy.median_filter(
+                mask_frame = scipy.minimum_filter(
-                    mask_frame.astype(np.float32), size=2)
+                    mask_frame.astype(np.float32), size=3)
+                # mask_frame = scipy.median_filter(
+                #     mask_frame.astype(np.float32), size=2)
                 mask_frames += (mask_frame,)
         elif mask.ndim == 3:
             for f in range(self.frame_count):
                 mask_frame = mask[:, :, :]
-                mask_frame = scipy.median_filter(
+                mask_frame = scipy.minimum_filter(
-                    mask_frame.astype(np.float32), size=2)
+                    mask_frame.astype(np.float32), size=3)
+                # mask_frame = scipy.median_filter(
+                #     mask_frame.astype(np.float32), size=2)
                 mask_frames += (mask_frame,)
         else:
             raise Exception("Mask shape order should be TXYZ or XYZ")

bioxelnodes/bioxel/scipy/__init__.py

@@ -1,2 +1,5 @@
 from ._interpolation import zoom
-from ._filters import gaussian_filter, median_filter
+from ._filters import (gaussian_filter,
+                       median_filter,
+                       maximum_filter,
+                       minimum_filter)

bioxelnodes/blender_manifest.toml

@@ -1,7 +1,7 @@
 schema_version = "1.0.0"
 
 id = "bioxelnodes"
-version = "0.3.0"
+version = "0.3.1"
 name = "Bioxel Nodes"
 tagline = "For scientific volumetric data visualization in Blender"
 maintainer = "Ma Nan <icrdr2010@outlook.com>"
@@ -20,7 +20,7 @@ wheels = [
   "./wheels/SimpleITK-2.3.1-cp311-cp311-macosx_11_0_arm64.whl",
   "./wheels/SimpleITK-2.3.1-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl",
   "./wheels/lxml-5.2.2-cp311-cp311-win_amd64.whl",
-  "./wheels/lxml-5.2.2-cp311-cp311-macosx_10_9_universal2.whl",
+  "./wheels/lxml-5.2.2-cp311-cp311-macosx_10_9_arm64.whl",
   "./wheels/lxml-5.2.2-cp311-cp311-macosx_10_9_x86_64.whl",
   "./wheels/lxml-5.2.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl",
   "./wheels/h5py-3.11.0-cp311-cp311-win_amd64.whl",

bioxelnodes/operators/container.py

@@ -1,13 +1,15 @@
 import bpy
 
+
 import bmesh
 
 from ..nodes import custom_nodes
 from ..bioxel.io import load_container, save_container
+from ..bioxelutils.layer import get_all_layer_objs
 from ..bioxelutils.container import (container_to_obj, obj_to_container,
                                      get_container_objs_from_selection)
 from ..bioxelutils.node import get_nodes_by_type, move_node_between_nodes, move_node_to_node
-from .utils import get_cache_dir, select_object
+from .utils import change_render_setting, get_cache_dir, get_preferences, select_object
 
 
 class SaveContainer(bpy.types.Operator):
@@ -59,11 +61,16 @@ class LoadContainer(bpy.types.Operator):
     def execute(self, context):
         load_path = self.filepath
         container = load_container(self.filepath)
+        is_first_import = len(get_all_layer_objs()) == 0
+
         container_obj = container_to_obj(container,
                                          scene_scale=0.01,
                                          cache_dir=get_cache_dir(context))
         select_object(container_obj)
 
+        if is_first_import:
+            change_render_setting(context)
+
         self.report({"INFO"}, f"Successfully load {load_path}")
         return {'FINISHED'}
 

bioxelnodes/operators/io.py

@@ -17,7 +17,7 @@ from ..bioxelutils.container import (Container,
                                      get_container_objs_from_selection)
 from ..bioxel.parse import (DICOM_EXTS, SUPPORT_EXTS,
                             get_ext, parse_volumetric_data)
-from .utils import (get_cache_dir, get_preferences,
+from .utils import (change_render_setting, get_cache_dir, get_preferences,
                     progress_update, progress_bar, select_object)
 
 # 3rd-party
@@ -674,26 +674,8 @@ class ImportVolumetricDataDialog(bpy.types.Operator):
         select_object(container_obj)
 
         # Change render setting for better result
-        preferences = get_preferences(context)
+        if is_first_import:
-        if preferences.do_change_render_setting and is_first_import:
+            change_render_setting(context)
-            bpy.context.scene.render.engine = 'CYCLES'
-            try:
-                bpy.context.scene.cycles.shading_system = True
-                bpy.context.scene.cycles.volume_bounces = 12
-                bpy.context.scene.cycles.transparent_max_bounces = 16
-                bpy.context.scene.cycles.volume_preview_step_rate = 10
-                bpy.context.scene.cycles.volume_step_rate = 10
-            except:
-                pass
-
-            try:
-                bpy.context.scene.eevee.use_taa_reprojection = False
-                bpy.context.scene.eevee.volumetric_tile_size = '2'
-                bpy.context.scene.eevee.volumetric_shadow_samples = 128
-                bpy.context.scene.eevee.volumetric_samples = 256
-                bpy.context.scene.eevee.use_volumetric_shadows = True
-            except:
-                pass
 
         self.report({"INFO"}, "Successfully Imported")
         return {'FINISHED'}

bioxelnodes/operators/utils.py

@@ -3,6 +3,29 @@ from pathlib import Path
 from .. import __package__ as base_package
 
 
+def change_render_setting(context):
+    preferences = get_preferences(context)
+    if preferences.do_change_render_setting:
+        bpy.context.scene.render.engine = 'CYCLES'
+        try:
+            bpy.context.scene.cycles.shading_system = True
+            bpy.context.scene.cycles.volume_bounces = 12
+            bpy.context.scene.cycles.transparent_max_bounces = 16
+            bpy.context.scene.cycles.volume_preview_step_rate = 10
+            bpy.context.scene.cycles.volume_step_rate = 10
+        except:
+            pass
+
+        try:
+            bpy.context.scene.eevee.use_taa_reprojection = False
+            bpy.context.scene.eevee.volumetric_tile_size = '2'
+            bpy.context.scene.eevee.volumetric_shadow_samples = 128
+            bpy.context.scene.eevee.volumetric_samples = 256
+            bpy.context.scene.eevee.use_volumetric_shadows = True
+        except:
+            pass
+
+
 def select_object(target_obj):
     for obj in bpy.data.objects:
         obj.select_set(False)

build.py

@@ -53,6 +53,11 @@ def build_extension(platform: Platform, python_version="3.11") -> None:
         if any([package in f.name for package in packages_to_remove]):
             f.unlink(missing_ok=True)
 
+        elif platform.blender_tag == "macos-arm64" and \
+                "lxml" in f.name 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("./bioxelnodes/bioxel/scipy", ndimage_filepath.name)
         shutil.copy(ndimage_filepath, to_filepath)
@@ -61,14 +66,18 @@ def build_extension(platform: Platform, python_version="3.11") -> None:
     with toml_filepath.open("r") as file:
         manifest = tomlkit.parse(file.read())
 
-    build = tomlkit.table(True)
+    manifest["platforms"] = [platform.blender_tag]
-    generated = tomlkit.table()
+    manifest["wheels"] = [f"./wheels/{f.name}"
-    generated["platforms"] = [platform.blender_tag]
+                          for f in wheel_dirpath.glob('*.whl')]
-    generated["wheels"] = [f"./wheels/{f.name}"
-                                 for f in wheel_dirpath.glob('*.whl')]
 
-    build.append('generated', generated)
+    # build = tomlkit.table(True)
-    manifest.append('build', build)
+    # 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:

pyproject.toml

@@ -1,6 +1,6 @@
 [tool.poetry]
 name = "bioxelnodes"
-version = "0.3.0"
+version = "0.3.1"
 description = ""
 authors = ["Ma Nan <icrdr2010@outlook.com>"]
 license = "MIT"