Bioxel Nodes

Bioxel Nodes is a Blender addon for scientific volumetric data visualization. It using Blender's powerful Geometry Nodes and Cycles to process and render volumetric data.

Realistic rendering result, also support EEVEE NEXT.
Support multiple formats.
Support 4D volumetric data.
All kinds of cutters.
Simple and powerful nodes.
Based on blender natively, can work without addon.

Read the getting started to begin your journey into visualizing volumetric data!

Welcome to our discord server, if you have any problems with this add-on.

Support Multiple Formats

Format	EXT	Test
DICOM	.dcm, .DCM, .DICOM, .ima, .IMA	✅ pass
BMP	.bmp, .BMP	✅ pass
JPEG	.jpg, .JPG, .jpeg, .JPEG	✅ pass
PNG	.png, .PNG	✅ pass
TIFF	.tif, .TIF, .tiff, .TIFF	✅ pass
Nifti	.nia, .nii, .nii.gz, .hdr, .img, .img.gz	✅ pass
Nrrd	.nrrd, .nhdr	✅ pass
HDF5	.hdf, .h4, .hdf4, .he2, .h5, .hdf5, .he5	✅ pass
OME	.ome.tiff, .ome.tif	✅ pass
MRC	.mrc, .mrc.gz, .map, .map.gz	✅ pass

Support 4D volumetric data

🥰 4D volumetric data can also be imported into Blender.

Support EEVEE NEXT

👍 EEVEE NEXT is absolutely AWESOME! Bioxel Nodes is fully support EEVEE NEXT now! However, there are some limitations:

Only one cutter supported.
EEVEE result is not that great as Cycles does.

Known Limitations

Only works with Cycles CPU , Cycles GPU (OptiX), EEVEE
Section surface cannot be generated when convert to mesh (will be supported soon)

Compatible to Newer Version

v0.3.x is not compatible to v0.2.x, Updating this addon may break old files. Read the following carefully before upgradation

Before upgradation, you need to ask yourself whether this project file will be modified again or not, if it's an archived project file, I would recommend that you run Bioxel Nodes > Save Staged Data to make the addon nodes permanent. In this way, there will be no potential problem with the nodes not functioning due to the addon update.

After the addon update, your old project files may not work either, this may be because you had executed Save Staged Data. If so, you need to execute Bioxel Nodes > Relink Nodes to Addon to relink them to make sure that the addon's new functionality and the addon nodes are synchronized.

Also, the older shaders are not based on OSL, so if you find that you can't render volumes, you need to turn on Open Shading Language (OSL) in the Render Settings.

Roadmap

Better multi-format import experience
One-click bake model with texture
AI Segmentation to Generate Labels

Importing from Visible Human Project crashes Blender:

Seems that Blender crashes when Bioxel try to import the first image.

I'm using Blender 4.2.0 downloaded from the Blender site.
Operating system is Debian Trixie (testing) updated daily
Bioxel version is 0.3.3
The image set I'm trying to import is taken from here

https://data.lhncbc.nlm.nih.gov/public/Visible-Human/Male-Images/PNG_format/thorax/index.html

I'm doing something wrong?

Below the blender log and the crash.txt file

mirto@bianco500:~$ /usr/local/bin/blender-4.2.0-linux-x64/blender-launcher
Reloading external rigs...
Reloading external metarigs...
register_class(...):
Info: Registering operator class: 'OBJECT_OT_AlignOperator', bl_idname 'object.align' has been registered before, unregistering previous
Read blend: "/BIANCO-SATA1/BLENDER-DICOM/test01.blend"
Collecting Meta Data...
WARN (bpy.rna): source/blender/python/intern/bpy_rna.cc:1360 pyrna_enum_to_py: current value '0' matches no enum in 'BIOXELNODES_OT_parse_volumetric_data', '(null)', 'series_id'
WARN (bpy.rna): source/blender/python/intern/bpy_rna.cc:1360 pyrna_enum_to_py: current value '0' matches no enum in 'BIOXELNODES_OT_parse_volumetric_data', '(null)', 'series_id'
Parsing with SimpleITK...
name: a_vm
description: 
spacing: (1.0, 1.0, 1.0)
affine: [[1. 0. 0. 0.]
 [0. 1. 0. 0.]
 [0. 0. 1. 0.]
 [0. 0. 0. 1.]]
xyz_shape: (2048, 1216, 409)
frame_count: 1
channel_count: 3
WARN (bpy.rna): source/blender/python/intern/bpy_rna.cc:1360 pyrna_enum_to_py: current value '0' matches no enum in 'BIOXELNODES_OT_parse_volumetric_data', '(null)', 'series_id'
WARN (bpy.rna): source/blender/python/intern/bpy_rna.cc:1360 pyrna_enum_to_py: current value '0' matches no enum in 'BIOXELNODES_OT_parse_volumetric_data', '(null)', 'series_id'
Info: Successfully Readed.
Parsing with SimpleITK...
Saving the Cache of Scalar...
Loading the Cache of Scalar...
Creating Node for Scalar...
Info: Successfully Imported
Writing: /BIANCO-SSD2/ssd2-mirto/DOCUMENTI_CORRENTI/Blender_Bianco500/TEMP/test01.crash.txt
Errore di segmentazione (core dump creato)
mirto@bianco500:~$ cat /BIANCO-SSD2/ssd2-mirto/DOCUMENTI_CORRENTI/Blender_Bianco500/TEMP/test01.crash.txt
# Blender 4.2.0, Commit date: 2024-07-16 06:20, Hash a51f293548ad
Successfully Readed.  # Info
bpy.ops.mesh.primitive_cube_add(enter_editmode=False, align='WORLD', location=(0, 0, 0), scale=(1, 1, 1))  # Operator
bpy.ops.node.new_geometry_nodes_modifier()  # Operator
bpy.ops.object.volume_import(filepath="/home/mirto/.bioxelnodes/VDBs/2e2c0b7b-0325-4ef3-9de4-a90dfbd9fa57.vdb", align='WORLD', location=(0, 0, 0), scale=(1, 1, 1))  # Operator
bpy.ops.node.new_geometry_nodes_modifier()  # Operator
Successfully Imported  # Info

# backtrace
/usr/local/bin/blender-4.2.0-linux-x64/blender() [0xf3d790]
/usr/local/bin/blender-4.2.0-linux-x64/blender() [0x842f60]
/lib/x86_64-linux-gnu/libc.so.6(+0x3f590) [0x7fd1fd656590]
/lib/x86_64-linux-gnu/libc.so.6(+0x1592c7) [0x7fd1fd7702c7]
/usr/lib/x86_64-linux-gnu/dri/radeonsi_dri.so(+0x6a9628) [0x7fd1aeca9628]
/usr/lib/x86_64-linux-gnu/dri/radeonsi_dri.so(+0x132f8b) [0x7fd1ae732f8b]
/usr/local/bin/blender-4.2.0-linux-x64/blender() [0x56c0baf]
/usr/local/bin/blender-4.2.0-linux-x64/blender() [0x56c0420]
/usr/local/bin/blender-4.2.0-linux-x64/blender() [0x56a2529]
/usr/local/bin/blender-4.2.0-linux-x64/blender() [0x56a257f]
/usr/local/bin/blender-4.2.0-linux-x64/blender() [0x56a2672]
/usr/local/bin/blender-4.2.0-linux-x64/blender() [0x12c3740]
/usr/local/bin/blender-4.2.0-linux-x64/blender() [0x128fc53]
/usr/local/bin/blender-4.2.0-linux-x64/blender() [0x128fc1f]
/usr/local/bin/blender-4.2.0-linux-x64/blender() [0x128f1cf]
/usr/local/bin/blender-4.2.0-linux-x64/blender() [0x11efb43]
/usr/local/bin/blender-4.2.0-linux-x64/blender() [0x11e7e5e]
/usr/local/bin/blender-4.2.0-linux-x64/blender() [0x11e81b9]
/usr/local/bin/blender-4.2.0-linux-x64/blender() [0x113fb32]
/usr/local/bin/blender-4.2.0-linux-x64/blender() [0x113ffe7]
/usr/local/bin/blender-4.2.0-linux-x64/blender() [0x20d5fa5]
/usr/local/bin/blender-4.2.0-linux-x64/blender() [0x1631937]
/usr/local/bin/blender-4.2.0-linux-x64/blender() [0xf89f32]
/usr/local/bin/blender-4.2.0-linux-x64/blender() [0xf852e0]
/usr/local/bin/blender-4.2.0-linux-x64/blender() [0x72f084]
/lib/x86_64-linux-gnu/libc.so.6(+0x29c8a) [0x7fd1fd640c8a]
/lib/x86_64-linux-gnu/libc.so.6(__libc_start_main+0x85) [0x7fd1fd640d45]
/usr/local/bin/blender-4.2.0-linux-x64/blender() [0x83e7fe]

# Python backtrace
mirto@bianco500:~$

omoolab / bioxelnodes Goto Github PK

bioxelnodes's Introduction

Bioxel Nodes

Support Multiple Formats

Support 4D volumetric data

Support EEVEE NEXT

Known Limitations

Compatible to Newer Version

Roadmap

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bioxelnodes's Issues

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