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<h1 id="sars-cov-2">SARS-Cov-2</h1>
|
||||
<p><img alt="alt text" src="../../assets/SARS-Cov-2/image.png" /></p>
|
||||
<p><img alt="alt text" src="../../assets/SARS-Cov-2/image-1.png" /></p>
|
||||
<p>In this tutorial, we'll make a structural visualzation of the SARS-Cov-2 Virus. Please see <a href="step_by_step.md">step by step</a> to make sure you have a basic understanding of how to use the addon, and make sure the addon version is v1.0.2 or higher!</p>
|
||||
<p>Research data is from paper published in September 2020 in Cell Press (<a href="https://www.cell.com/cell/fulltext/S0092-8674(20)31159-4">https://www.cell.com/cell/fulltext/S0092-8674(20)31159-4</a>) by Li Sai team at Tsinghua University. This research revealed the molecular assembly of the authentic SARS-CoV-2 virus using cryoelectron tomography (cryo-ET) and subtomogram averaging (STA). Here is an official video of this study</p>
|
||||
<iframe width="560" height="315" src="https://www.youtube.com/embed/JSKl5VY4k5w?si=t4LhrCRebxrX_Saf&controls=0" title="YouTube video player" frameborder="0" allow="accelerometer; autoplay; clipboard-write; encrypted-media; gyroscope; picture-in-picture; web-share" referrerpolicy="strict-origin-when-cross-origin" allowfullscreen></iframe>
|
||||
|
||||
<p>"It remains enigmatic how coronaviruses pack the ∼30-kb RNA into the ∼80-nm-diameter viral lumen. Are the RNPs ordered relative to each other to avoid RNA entangling, knotting, or even damage or are they involved in virus assembly?" Three assembly classes were proposed in the paper, we will make a visualzation of the "eggs-in-a-nest"-shaped RNPs assembly, based on real cryo-ET data.</p>
|
||||
<h2 id="download-and-import-data">Download and import data</h2>
|
||||
<p>The data of this research is hosted on EMDB (<a href="https://www.ebi.ac.uk/emdb">https://www.ebi.ac.uk/emdb</a>), and the website of SARS-Cov-2 virus is <a href="https://www.ebi.ac.uk/emdb/EMD-30430">here</a>. Open the page, find "Download" button and select the first selection "3D Volume (.map.gz)".</p>
|
||||
<p>In case you can't download data, you can download here.</p>
|
||||
<p><a href="https://drive.google.com/file/d/1LMybsmTVbwQ38_eqAx6hbZTc5p2fdcjK/view?usp=sharing">SARS-Cov-2.map</a></p>
|
||||
<p>After downloading, put it into any directory and import the data. In the import options, it is recommended to adjust the Bioxel Size to 5, in order to reduce the shape of the data to increase the speed of calculation and rendering. If you are confident in the performance of your hardware, you can leave the original 2.72 unchanged. After adjusting the Bioxel Size, the shape of the converted data will be calculated below based on the current bioxel size. The amount of data will increase exponentially with larger shape, and may result in OOM (out of memory).</p>
|
||||
<h2 id="cutout-the-virus">Cutout the Virus</h2>
|
||||
<p>After importing, you can get the virus by creating and connecting nodes and setting parameters as shown below</p>
|
||||
<p><img alt="alt text" src="../../assets/SARS-Cov-2/image-2.png" /></p>
|
||||
<p>Place the light and the camera in the way as below. The backlight is a area light, color white, intensity 500W, spread 90°, and inside the virus, place a point light, color <code>FFD08D</code>, intensity 5W. Camera focal length is 200 mm. the background color is pure black. The Look of the color management is High Contrast.</p>
|
||||
<p><img alt="alt text" src="../../assets/SARS-Cov-2/image-3.png" /></p>
|
||||
<p>Continue editing the node, followed by "Set Properies" and "Set Color by Ramp 4" node, the parameters of these two nodes are set as shown in the figure, where the color part, from top to bottom, is set to <code>E1D0FC</code> (1.0), <code>FFE42D</code> (0.5), <code>3793FF</code> (0.5), <code>FFFF8EC</code> (0.1) (alpha value in parentheses). Color alpha also affects density.</p>
|
||||
<p><img alt="alt text" src="../../assets/SARS-Cov-2/image-4.png" /></p>
|
||||
<p>If you feel that rendering is too slow, see <a href="improve_performance.md">here</a> for suggestions</p>
|
||||
<h2 id="color-the-rnps-alone">Color the RNPs alone</h2>
|
||||
<p>The current rendering is pretty good, but considering that my goal is to make it clear how the RNPs are arranged within the virus, the RNPs should be colored differently than the others. So how to color the RNPs alone?</p>
|
||||
<p>First of all, we have to separate the RNPs. The value of RNPs is between the membrane and S protein, so it is very difficult to separate. The good thing is that the virus is spherical, we can separate the RNPs part of the virus from the rest by using a sphere cutter. To do so, in the Geometry Nodes panel menu of the container, click <strong>Bioxel Nodes > Add a Cutter > Sphere Cutter</strong>, and adjust the scale and position of the newly created sphere object named "Sphere_Cutter" appropriately, so that it can just separate the internal RNPs and membrane of the virus.</p>
|
||||
<p><img alt="alt text" src="../../assets/SARS-Cov-2/image-5.png" /></p>
|
||||
<p>The process of changing the position of the "Sphere_Cutter" object can be very laggy, then you can turn off "With Surface" and do it in Slice Viewer mode. Once you are happy with it, you can restore the settings.</p>
|
||||
<p>Then we turn on Invert in the "Sphere Cutter" node and you can see the opposite result. This way we've managed to separate the two, next let's color them separately and finally merge them with Join Component. Create and join the nodes as shown below, where the second Cutter node is copied and the color value in Set Color is <code>FFDDFE</code> (0.5). If all is well, the rendering should look like below.</p>
|
||||
<p><img alt="alt text" src="../../assets/SARS-Cov-2/image-6.png" /></p>
|
||||
<p>At this point, the rendering of a SARS-Cov-2 virus is complete!</p>
|
||||
<h2 id="render-rnps-and-membranes">Render RNPs and Membranes</h2>
|
||||
<p>Realistic rendering is great, but Non-photorealistic rendering (NPR) is better for presenting structural information. So I will render ultrastructure of the RNPs assembly with toon shader.</p>
|
||||
<p><img alt="alt text" src="../../assets/SARS-Cov-2/image-7.png" /></p>
|
||||
<p>The silhouettes of RNPs uses Blender's Line Art feature, but Line Art must be based on a mesh. Select the nodes that are extruding the RNPs (i.e., the "Cut" nodes that are in charge of cutting out the RNPs), and right-click, click <strong>Bioxel Nodes > Extract Mesh</strong>. This gives you a new mesh object of the RNPs.</p>
|
||||
<p>Extract the membrane mesh in the same way.</p>
|
||||
<p>The membrane has a much higher value than the rest of the virus, so let's create a new "Cutout" node, also after the ReCenter, but with the threshold adjusted to 0.13. After the Cutout, connect to the "To Surface" node and parameterize it as shown in the figure, noting that the Remove Island Threshold is set to 1000 so that any fragments smaller than 1000 pts be eliminated. Then select the "To Surface" node, and perform the operation of extracting the mesh.</p>
|
||||
<p><img alt="alt text" src="../../assets/SARS-Cov-2/image-8.png" /></p>
|
||||
<p>The mesh of the membrane needs to be cut in half, this can be done with the Box Trim brush in sculpt mode or with the Boolean modifier. the mesh of the RNPs may also need some repair work, I cleaned up some of the broken surfaces of the RNPs. all the meshes are now ready to be used.</p>
|
||||
<p><img alt="alt text" src="../../assets/SARS-Cov-2/image-9.png" /></p>
|
||||
<p>For Line Art, please see the video tutorial from Blender Secrets.</p>
|
||||
<iframe width="560" height="315" src="https://www.youtube.com/embed/aIWdBq7-ias?si=CrcStx5VVJBwDpzu&controls=0" title="YouTube video player" frameborder="0" allow="accelerometer; autoplay; clipboard-write; encrypted-media; gyroscope; picture-in-picture; web-share" referrerpolicy="strict-origin-when-cross-origin" allowfullscreen></iframe>
|
||||
|
||||
<p>Finally, an infographic on the ultrastructure of RNPs is done!</p>
|
||||
<p><img alt="alt text" src="../../assets/SARS-Cov-2/image-1.png" /></p>
|
||||
<p>If you have trouble following the docs, you can download the project files.</p>
|
||||
<p><a href="https://drive.google.com/file/d/15GpIoIjVAE-Jr98zWo7oupuk1KfRVPmk/view?usp=sharing">SARS-Cov-2.zip</a></p>
|
||||
<h2 id="homework">Homework</h2>
|
||||
<p>Other data relevant to the study are provided in the paper, you could try visualizing them.</p>
|
||||
<p><img alt="alt text" src="../../assets/SARS-Cov-2/image-10.png" /></p>
|
||||
<p>Go to the official EMDB website https://www.ebi.ac.uk/emdb/ and enter the EMD number in the search box to get them.</p>
|
||||
<p>The Electron Microscopy Data Bank (EMDB) is a public repository for cryogenic-sample Electron Microscopy (cryoEM) volumes and representative tomograms of macromolecular complexes and subcellular structures. If you want to get data on other virus, just enter their name in the search box. For example, hepatitis B virus, enter it into the search box, then select Virus in the Sample Type on the left side, and download the data you need (it is better to find the corresponding paper to clarify the data information).</p>
|
||||
<p><strong>Try to visualize hepatitis B virus.</strong></p>
|
||||
<p><img alt="alt text" src="../../assets/SARS-Cov-2/image-11.png" /></p>
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
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<h1 id="advanced-usage">Advanced Usage</h1>
|
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<h2 id="cut-structure">Cut "Structure"</h2>
|
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<p>"Structure" can be cut to show partial structure, accomplished through the O Cut series nodes. For example, add the <strong>O Cut to Region</strong> node as shown below and connect it. Add any object from the scene as the "Region", and input it into the node:</p>
|
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<p><img alt="" src="../../assets/cut-to-region.png" /></p>
|
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<p>By properly adjusting the position and rotation of the "Region" object, you can see that the skull structure is confined within the region.</p>
|
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<div class="admonition note">
|
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<p class="admonition-title">Note</p>
|
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<p>The add-on provides a function to quickly make objects phantom. In 3D Viewport mode, right-click the "Region" object and select <strong>Bioxel Nodes > Toggle Phantom</strong> from the menu.</p>
|
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|
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<p><strong>O Cut Small Parts</strong> node is a cleanup tool that quickly removes scattered fragments and keeps only clean, continuous large structures. However, the computation is particularly time-consuming, so be aware of performance.</p>
|
||||
<p><img alt="" src="../../assets/cut-small-parts.png" /></p>
|
||||
<p>If you are familiar with geometry nodes, you can also directly define the cutting execution range through <strong>O Cut Structure</strong>. For example, in the image below, select the part where the cutting position X is greater than 0.</p>
|
||||
<p><img alt="" src="../../assets/cut-structure.png" /></p>
|
||||
<h2 id="structure-property-settings">Structure Property Settings</h2>
|
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<p>Expand the Properties of <strong>O Cutout by Threshold</strong>, where you can directly modify various property values, but they can only be set uniformly. We can use field-type data to assign differences. Take the color property as an example: for instance, connecting a Position node directly produces the effect shown below:</p>
|
||||
<p><img alt="" src="../../assets/set-color-by-pos.png" /></p>
|
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<p>We can also map layer values to color gradients, which requires the <strong>O Scalar Layer to Color</strong> node (such conversion function nodes are all under Add > O Bioxel > Utilities in the node menu). Adjust as follows:</p>
|
||||
<ul>
|
||||
<li><strong>O Cutout by Threshold</strong>: Set Threshold to 20</li>
|
||||
<li><strong>O Scalar Layer to Color</strong>: Set From Min and From Max to 20 and 90 respectively</li>
|
||||
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|
||||
<p><img alt="" src="../../assets/scalar-to-color.png" /></p>
|
||||
<p>Since soft tissue CT values are lower than bone tissue, when the threshold is lowered, you can see that in addition to the skull, the attached soft tissue is also presented. The From Min and From Max of <strong>O Scalar Layer to Color</strong> define the color mapping range from 0 to 1. Therefore, low-value soft tissue appears black, and high-value bone tissue appears white.</p>
|
||||
<p>We can also customize the mapping method through the <strong>Closure</strong> node in Blender 5.0+. For example, connect a <strong>Color Ramp</strong> node to change the black area belonging to soft tissue to dark red:</p>
|
||||
<p><img alt="" src="../../assets/scalar-to-color-ramp.png" /></p>
|
||||
<p>Ta-da! The anatomical rendering is done!</p>
|
||||
<p>Other "Structure" properties can also be adjusted in this way. In addition to <strong>O Scalar Layer to Color</strong>, there is also <strong>O Scalar Layer to Factor</strong> to convert to a single value from 0 to 1.</p>
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|
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<a href="https://github.com/OmooLab/BioxelNodes" title="Go to repository" class="md-source" data-md-component="source">
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<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 448 512"><!--! Font Awesome Free 6.6.0 by @fontawesome - https://fontawesome.com License - https://fontawesome.com/license/free (Icons: CC BY 4.0, Fonts: SIL OFL 1.1, Code: MIT License) Copyright 2024 Fonticons, Inc.--><path d="M439.55 236.05 244 40.45a28.87 28.87 0 0 0-40.81 0l-40.66 40.63 51.52 51.52c27.06-9.14 52.68 16.77 43.39 43.68l49.66 49.66c34.23-11.8 61.18 31 35.47 56.69-26.49 26.49-70.21-2.87-56-37.34L240.22 199v121.85c25.3 12.54 22.26 41.85 9.08 55a34.34 34.34 0 0 1-48.55 0c-17.57-17.6-11.07-46.91 11.25-56v-123c-20.8-8.51-24.6-30.74-18.64-45L142.57 101 8.45 235.14a28.86 28.86 0 0 0 0 40.81l195.61 195.6a28.86 28.86 0 0 0 40.8 0l194.69-194.69a28.86 28.86 0 0 0 0-40.81z"/></svg>
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|
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Getting Started
|
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|
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</div>
|
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<div class="md-source__repository">
|
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OmooLab/BioxelNodes
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Installation
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<h1 id="bacsic-usage">Bacsic Usage</h1>
|
||||
<h2 id="1-download-data">1. Download Data</h2>
|
||||
<p>Download and unzip <a href="https://drive.google.com/file/d/1bBGpt5pQ0evr-0-f4KDNRnKPoUYj2bJ-/view?usp=drive_link">VHP_M_CT_Head.zip</a> to a folder.
|
||||
The data comes from <a href="https://www.nlm.nih.gov/research/visible/visible_human.html">Visible Human Project (VHP)</a>, which is a CT scan image of a male head.</p>
|
||||
<h2 id="2-import-as-layer">2. Import as "Layer"</h2>
|
||||
<p>Add a geometry node to the cube and open the geometry node interface sidebar. Switch to the Bioxel Nodes tab (1), click the Import Data button (2), and in the file selection dialog, choose any <code>.dcm</code> file from the data folder (3), then click the Import Data button (4).</p>
|
||||
<p><img alt="" src="../../assets/import-data.png" /></p>
|
||||
<p>Two dialogs will pop up in sequence, click OK for both. Wait for the data import (you can check the progress bar in the Blender interface status bar at the bottom right). After success, you will see a data preview in the Bioxel Nodes sidebar. Click the Add button at the bottom (1), move the mouse to the node panel, and place the <strong>O Layer</strong> node (2).</p>
|
||||
<p><img alt="" src="../../assets/add-o-layer.png" /></p>
|
||||
<p>The data import is complete!</p>
|
||||
<p>The data cache is saved as a link in the Blender file in the form of a "Layer", and the "Layer" is loaded into geometry nodes through the <strong>O Layer</strong> node. Their relationship is as follows:</p>
|
||||
<p>Data Cache -> Layer -> O Layer</p>
|
||||
<h2 id="3-extract-and-render-structure">3. Extract and Render "Structure"</h2>
|
||||
<p>Operations on "Layer" are done through the O Bioxel series geometry nodes.</p>
|
||||
<p>We need two additional nodes: <strong>O Cutout by Threshold</strong> and <strong>O Realize Structure</strong> nodes (both are in the node menu under Add > O Bioxel > Structure), and connect them as shown below:</p>
|
||||
<p><img alt="" src="../../assets/connect-nodes.png" /></p>
|
||||
<p>If successful, you will see a gray head appear in the viewport. Now let's adjust the node parameters:</p>
|
||||
<ul>
|
||||
<li><strong>O Layer</strong>: Check Center, uncheck Resample</li>
|
||||
<li><strong>O Cutout by Threshold</strong>: Set Threshold to 90</li>
|
||||
<li><strong>O Realize Structure</strong>: Set Density to 40, check Surface</li>
|
||||
</ul>
|
||||
<p>Rotate the object, adjust the light position, set the renderer to Cycles, and the final effect is shown below:</p>
|
||||
<p><img alt="" src="../../assets/adjust-nodes.png" /></p>
|
||||
<p>Now we have completed the volumetric rendering of the head CT data!</p>
|
||||
<p>Let's review the execution logic: First, cutout the "Structure" from the "Layer". As the name suggests, "Structure" is responsible for storing biological tissue structure, but its data type is volumetric and cannot be seen directly. It requires <strong>O Realize Structure</strong> to present the "Structure".</p>
|
||||
<h2 id="4-save-data-cache-optional">4. Save Data Cache (Optional)</h2>
|
||||
<p>Since the data cache is only saved as a link in the Blender file, passing only the Blender file to other devices will cause the "Layer" to lose its cache. Click the Save button in the Bioxel Nodes tab, and select a location to save the data cache to manage the cache resource.</p>
|
||||
<p>Just like images, when sharing, send both the data cache and the Blender file together.</p>
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<input class="md-option" data-md-color-media="(prefers-color-scheme)" data-md-color-scheme="default" data-md-color-primary="black" data-md-color-accent="indigo" aria-label="Switch to light mode" type="radio" name="__palette" id="__palette_0">
|
||||
|
||||
<label class="md-header__button md-icon" title="Switch to light mode" for="__palette_1" hidden>
|
||||
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 512 512"><!--! Font Awesome Free 6.6.0 by @fontawesome - https://fontawesome.com License - https://fontawesome.com/license/free (Icons: CC BY 4.0, Fonts: SIL OFL 1.1, Code: MIT License) Copyright 2024 Fonticons, Inc.--><path d="M448 256c0-106-86-192-192-192v384c106 0 192-86 192-192zM0 256a256 256 0 1 1 512 0 256 256 0 1 1-512 0z"/></svg>
|
||||
</label>
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
<input class="md-option" data-md-color-media="(prefers-color-scheme: light)" data-md-color-scheme="default" data-md-color-primary="black" data-md-color-accent="indigo" aria-label="Switch to dark mode" type="radio" name="__palette" id="__palette_1">
|
||||
|
||||
<label class="md-header__button md-icon" title="Switch to dark mode" for="__palette_2" hidden>
|
||||
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 384 512"><!--! Font Awesome Free 6.6.0 by @fontawesome - https://fontawesome.com License - https://fontawesome.com/license/free (Icons: CC BY 4.0, Fonts: SIL OFL 1.1, Code: MIT License) Copyright 2024 Fonticons, Inc.--><path d="M144.7 98.7c-21 34.1-33.1 74.3-33.1 117.3 0 98 62.8 181.4 150.4 211.7-12.4 2.8-25.3 4.3-38.6 4.3C126.6 432 48 353.3 48 256c0-68.9 39.4-128.4 96.8-157.3zm62.1-66C91.1 41.2 0 137.9 0 256c0 123.7 100 224 223.5 224 47.8 0 92-15 128.4-40.6 1.9-1.3 3.7-2.7 5.5-4 4.8-3.6 9.4-7.4 13.9-11.4 2.7-2.4 5.3-4.8 7.9-7.3 5-4.9 6.3-12.5 3.1-18.7s-10.1-9.7-17-8.5c-3.7.6-7.4 1.2-11.1 1.6-5 .5-10.1.9-15.3 1h-4c-96.8-.2-175.2-78.9-175.2-176 0-54.8 24.9-103.7 64.1-136 1-.9 2.1-1.7 3.2-2.6 4-3.2 8.2-6.2 12.5-9 3.1-2 6.3-4 9.6-5.8 6.1-3.5 9.2-10.5 7.7-17.3s-7.3-11.9-14.3-12.5c-3.6-.3-7.1-.5-10.7-.6-2.7-.1-5.5-.1-8.2-.1-3.3 0-6.5.1-9.8.2-2.3.1-4.6.2-6.9.4z"/></svg>
|
||||
</label>
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
<input class="md-option" data-md-color-media="(prefers-color-scheme: dark)" data-md-color-scheme="slate" data-md-color-primary="black" data-md-color-accent="indigo" aria-label="Switch to system preference" type="radio" name="__palette" id="__palette_2">
|
||||
|
||||
<label class="md-header__button md-icon" title="Switch to system preference" for="__palette_0" hidden>
|
||||
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 384 512"><!--! Font Awesome Free 6.6.0 by @fontawesome - https://fontawesome.com License - https://fontawesome.com/license/free (Icons: CC BY 4.0, Fonts: SIL OFL 1.1, Code: MIT License) Copyright 2024 Fonticons, Inc.--><path d="M223.5 32C100 32 0 132.3 0 256s100 224 223.5 224c60.6 0 115.5-24.2 155.8-63.4 5-4.9 6.3-12.5 3.1-18.7s-10.1-9.7-17-8.5c-9.8 1.7-19.8 2.6-30.1 2.6-96.9 0-175.5-78.8-175.5-176 0-65.8 36-123.1 89.3-153.3 6.1-3.5 9.2-10.5 7.7-17.3s-7.3-11.9-14.3-12.5c-6.3-.5-12.6-.8-19-.8z"/></svg>
|
||||
</label>
|
||||
|
||||
|
||||
</form>
|
||||
|
||||
|
||||
|
||||
<script>var media,input,key,value,palette=__md_get("__palette");if(palette&&palette.color){"(prefers-color-scheme)"===palette.color.media&&(media=matchMedia("(prefers-color-scheme: light)"),input=document.querySelector(media.matches?"[data-md-color-media='(prefers-color-scheme: light)']":"[data-md-color-media='(prefers-color-scheme: dark)']"),palette.color.media=input.getAttribute("data-md-color-media"),palette.color.scheme=input.getAttribute("data-md-color-scheme"),palette.color.primary=input.getAttribute("data-md-color-primary"),palette.color.accent=input.getAttribute("data-md-color-accent"));for([key,value]of Object.entries(palette.color))document.body.setAttribute("data-md-color-"+key,value)}</script>
|
||||
|
||||
|
||||
<div class="md-header__option">
|
||||
<div class="md-select">
|
||||
|
||||
<button class="md-header__button md-icon" aria-label="Select language">
|
||||
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 24 24"><path d="m12.87 15.07-2.54-2.51.03-.03A17.52 17.52 0 0 0 14.07 6H17V4h-7V2H8v2H1v2h11.17C11.5 7.92 10.44 9.75 9 11.35 8.07 10.32 7.3 9.19 6.69 8h-2c.73 1.63 1.73 3.17 2.98 4.56l-5.09 5.02L4 19l5-5 3.11 3.11.76-2.04M18.5 10h-2L12 22h2l1.12-3h4.75L21 22h2l-4.5-12m-2.62 7 1.62-4.33L19.12 17h-3.24Z"/></svg>
|
||||
</button>
|
||||
<div class="md-select__inner">
|
||||
<ul class="md-select__list">
|
||||
|
||||
<li class="md-select__item">
|
||||
<a href="../../dataset/" hreflang="zh" class="md-select__link">
|
||||
中文
|
||||
</a>
|
||||
</li>
|
||||
|
||||
<li class="md-select__item">
|
||||
<a href="./" hreflang="en" class="md-select__link">
|
||||
English
|
||||
</a>
|
||||
</li>
|
||||
|
||||
</ul>
|
||||
</div>
|
||||
</div>
|
||||
</div>
|
||||
|
||||
|
||||
<label class="md-header__button md-icon" for="__search">
|
||||
|
||||
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 24 24"><path d="M9.5 3A6.5 6.5 0 0 1 16 9.5c0 1.61-.59 3.09-1.56 4.23l.27.27h.79l5 5-1.5 1.5-5-5v-.79l-.27-.27A6.516 6.516 0 0 1 9.5 16 6.5 6.5 0 0 1 3 9.5 6.5 6.5 0 0 1 9.5 3m0 2C7 5 5 7 5 9.5S7 14 9.5 14 14 12 14 9.5 12 5 9.5 5Z"/></svg>
|
||||
</label>
|
||||
<div class="md-search" data-md-component="search" role="dialog">
|
||||
<label class="md-search__overlay" for="__search"></label>
|
||||
<div class="md-search__inner" role="search">
|
||||
<form class="md-search__form" name="search">
|
||||
<input type="text" class="md-search__input" name="query" aria-label="Search" placeholder="Search" autocapitalize="off" autocorrect="off" autocomplete="off" spellcheck="false" data-md-component="search-query" required>
|
||||
<label class="md-search__icon md-icon" for="__search">
|
||||
|
||||
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 24 24"><path d="M9.5 3A6.5 6.5 0 0 1 16 9.5c0 1.61-.59 3.09-1.56 4.23l.27.27h.79l5 5-1.5 1.5-5-5v-.79l-.27-.27A6.516 6.516 0 0 1 9.5 16 6.5 6.5 0 0 1 3 9.5 6.5 6.5 0 0 1 9.5 3m0 2C7 5 5 7 5 9.5S7 14 9.5 14 14 12 14 9.5 12 5 9.5 5Z"/></svg>
|
||||
|
||||
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 24 24"><path d="M20 11v2H8l5.5 5.5-1.42 1.42L4.16 12l7.92-7.92L13.5 5.5 8 11h12Z"/></svg>
|
||||
</label>
|
||||
<nav class="md-search__options" aria-label="Search">
|
||||
|
||||
<button type="reset" class="md-search__icon md-icon" title="Clear" aria-label="Clear" tabindex="-1">
|
||||
|
||||
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 24 24"><path d="M19 6.41 17.59 5 12 10.59 6.41 5 5 6.41 10.59 12 5 17.59 6.41 19 12 13.41 17.59 19 19 17.59 13.41 12 19 6.41Z"/></svg>
|
||||
</button>
|
||||
</nav>
|
||||
|
||||
</form>
|
||||
<div class="md-search__output">
|
||||
<div class="md-search__scrollwrap" tabindex="0" data-md-scrollfix>
|
||||
<div class="md-search-result" data-md-component="search-result">
|
||||
<div class="md-search-result__meta">
|
||||
Initializing search
|
||||
</div>
|
||||
<ol class="md-search-result__list" role="presentation"></ol>
|
||||
</div>
|
||||
</div>
|
||||
</div>
|
||||
</div>
|
||||
</div>
|
||||
|
||||
|
||||
<div class="md-header__source">
|
||||
<a href="https://github.com/OmooLab/BioxelNodes" title="Go to repository" class="md-source" data-md-component="source">
|
||||
<div class="md-source__icon md-icon">
|
||||
|
||||
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 448 512"><!--! Font Awesome Free 6.6.0 by @fontawesome - https://fontawesome.com License - https://fontawesome.com/license/free (Icons: CC BY 4.0, Fonts: SIL OFL 1.1, Code: MIT License) Copyright 2024 Fonticons, Inc.--><path d="M439.55 236.05 244 40.45a28.87 28.87 0 0 0-40.81 0l-40.66 40.63 51.52 51.52c27.06-9.14 52.68 16.77 43.39 43.68l49.66 49.66c34.23-11.8 61.18 31 35.47 56.69-26.49 26.49-70.21-2.87-56-37.34L240.22 199v121.85c25.3 12.54 22.26 41.85 9.08 55a34.34 34.34 0 0 1-48.55 0c-17.57-17.6-11.07-46.91 11.25-56v-123c-20.8-8.51-24.6-30.74-18.64-45L142.57 101 8.45 235.14a28.86 28.86 0 0 0 0 40.81l195.61 195.6a28.86 28.86 0 0 0 40.8 0l194.69-194.69a28.86 28.86 0 0 0 0-40.81z"/></svg>
|
||||
</div>
|
||||
<div class="md-source__repository">
|
||||
OmooLab/BioxelNodes
|
||||
</div>
|
||||
</a>
|
||||
</div>
|
||||
|
||||
</nav>
|
||||
|
||||
|
||||
|
||||
<nav class="md-tabs" aria-label="Tabs" data-md-component="tabs">
|
||||
<div class="md-grid">
|
||||
<ul class="md-tabs__list">
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
<li class="md-tabs__item">
|
||||
<a href="../" class="md-tabs__link">
|
||||
|
||||
|
||||
|
||||
|
||||
Bioxel Nodes
|
||||
|
||||
</a>
|
||||
</li>
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
<li class="md-tabs__item md-tabs__item--active">
|
||||
<a href="../installation/" class="md-tabs__link">
|
||||
|
||||
|
||||
|
||||
|
||||
Getting Started
|
||||
|
||||
</a>
|
||||
</li>
|
||||
|
||||
|
||||
|
||||
|
||||
</ul>
|
||||
</div>
|
||||
</nav>
|
||||
|
||||
|
||||
</header>
|
||||
|
||||
<div class="md-container" data-md-component="container">
|
||||
|
||||
|
||||
|
||||
|
||||
<main class="md-main" data-md-component="main">
|
||||
<div class="md-main__inner md-grid">
|
||||
|
||||
|
||||
|
||||
<div class="md-sidebar md-sidebar--primary" data-md-component="sidebar" data-md-type="navigation" >
|
||||
<div class="md-sidebar__scrollwrap">
|
||||
<div class="md-sidebar__inner">
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
<nav class="md-nav md-nav--primary md-nav--lifted" aria-label="Navigation" data-md-level="0">
|
||||
<label class="md-nav__title" for="__drawer">
|
||||
<a href="../" title="Bioxel Nodes Docs" class="md-nav__button md-logo" aria-label="Bioxel Nodes Docs" data-md-component="logo">
|
||||
|
||||
<img src="../../assets/logo.png" alt="logo">
|
||||
|
||||
</a>
|
||||
Bioxel Nodes Docs
|
||||
</label>
|
||||
|
||||
<div class="md-nav__source">
|
||||
<a href="https://github.com/OmooLab/BioxelNodes" title="Go to repository" class="md-source" data-md-component="source">
|
||||
<div class="md-source__icon md-icon">
|
||||
|
||||
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 448 512"><!--! Font Awesome Free 6.6.0 by @fontawesome - https://fontawesome.com License - https://fontawesome.com/license/free (Icons: CC BY 4.0, Fonts: SIL OFL 1.1, Code: MIT License) Copyright 2024 Fonticons, Inc.--><path d="M439.55 236.05 244 40.45a28.87 28.87 0 0 0-40.81 0l-40.66 40.63 51.52 51.52c27.06-9.14 52.68 16.77 43.39 43.68l49.66 49.66c34.23-11.8 61.18 31 35.47 56.69-26.49 26.49-70.21-2.87-56-37.34L240.22 199v121.85c25.3 12.54 22.26 41.85 9.08 55a34.34 34.34 0 0 1-48.55 0c-17.57-17.6-11.07-46.91 11.25-56v-123c-20.8-8.51-24.6-30.74-18.64-45L142.57 101 8.45 235.14a28.86 28.86 0 0 0 0 40.81l195.61 195.6a28.86 28.86 0 0 0 40.8 0l194.69-194.69a28.86 28.86 0 0 0 0-40.81z"/></svg>
|
||||
</div>
|
||||
<div class="md-source__repository">
|
||||
OmooLab/BioxelNodes
|
||||
</div>
|
||||
</a>
|
||||
</div>
|
||||
|
||||
<ul class="md-nav__list" data-md-scrollfix>
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
<li class="md-nav__item md-nav__item--nested">
|
||||
|
||||
|
||||
|
||||
<input class="md-nav__toggle md-toggle " type="checkbox" id="__nav_1" >
|
||||
|
||||
|
||||
|
||||
<div class="md-nav__link md-nav__container">
|
||||
<a href="../" class="md-nav__link ">
|
||||
|
||||
|
||||
<span class="md-ellipsis">
|
||||
Bioxel Nodes
|
||||
</span>
|
||||
|
||||
|
||||
</a>
|
||||
|
||||
|
||||
<label class="md-nav__link " for="__nav_1" id="__nav_1_label" tabindex="0">
|
||||
<span class="md-nav__icon md-icon"></span>
|
||||
</label>
|
||||
|
||||
</div>
|
||||
|
||||
<nav class="md-nav" data-md-level="1" aria-labelledby="__nav_1_label" aria-expanded="false">
|
||||
<label class="md-nav__title" for="__nav_1">
|
||||
<span class="md-nav__icon md-icon"></span>
|
||||
Bioxel Nodes
|
||||
</label>
|
||||
<ul class="md-nav__list" data-md-scrollfix>
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
<li class="md-nav__item">
|
||||
<a href="../gallery/" class="md-nav__link">
|
||||
|
||||
|
||||
<span class="md-ellipsis">
|
||||
Gallery
|
||||
</span>
|
||||
|
||||
|
||||
</a>
|
||||
</li>
|
||||
|
||||
|
||||
|
||||
|
||||
</ul>
|
||||
</nav>
|
||||
|
||||
</li>
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
<li class="md-nav__item md-nav__item--active md-nav__item--section md-nav__item--nested">
|
||||
|
||||
|
||||
|
||||
<input class="md-nav__toggle md-toggle " type="checkbox" id="__nav_2" checked>
|
||||
|
||||
|
||||
<label class="md-nav__link" for="__nav_2" id="__nav_2_label" tabindex="">
|
||||
|
||||
|
||||
<span class="md-ellipsis">
|
||||
Getting Started
|
||||
</span>
|
||||
|
||||
|
||||
<span class="md-nav__icon md-icon"></span>
|
||||
</label>
|
||||
|
||||
<nav class="md-nav" data-md-level="1" aria-labelledby="__nav_2_label" aria-expanded="true">
|
||||
<label class="md-nav__title" for="__nav_2">
|
||||
<span class="md-nav__icon md-icon"></span>
|
||||
Getting Started
|
||||
</label>
|
||||
<ul class="md-nav__list" data-md-scrollfix>
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
<li class="md-nav__item">
|
||||
<a href="../installation/" class="md-nav__link">
|
||||
|
||||
|
||||
<span class="md-ellipsis">
|
||||
Installation
|
||||
</span>
|
||||
|
||||
|
||||
</a>
|
||||
</li>
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
<li class="md-nav__item">
|
||||
<a href="../basics/" class="md-nav__link">
|
||||
|
||||
|
||||
<span class="md-ellipsis">
|
||||
Bacsic Usage
|
||||
</span>
|
||||
|
||||
|
||||
</a>
|
||||
</li>
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
<li class="md-nav__item">
|
||||
<a href="../advanced/" class="md-nav__link">
|
||||
|
||||
|
||||
<span class="md-ellipsis">
|
||||
Advanced Usage
|
||||
</span>
|
||||
|
||||
|
||||
</a>
|
||||
</li>
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
<li class="md-nav__item md-nav__item--active">
|
||||
|
||||
<input class="md-nav__toggle md-toggle" type="checkbox" id="__toc">
|
||||
|
||||
|
||||
|
||||
|
||||
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<h1 id="support-format">Support Format</h1>
|
||||
<p>Can't wait to play with the addon using your own data? Here's a list of the formats currently supported.</p>
|
||||
<table>
|
||||
<thead>
|
||||
<tr>
|
||||
<th>Format</th>
|
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|
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|
||||
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|
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|
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<tr>
|
||||
<td>DICOM</td>
|
||||
<td>.dcm, .DCM, .DICOM, .ima, .IMA</td>
|
||||
</tr>
|
||||
<tr>
|
||||
<td>BMP</td>
|
||||
<td>.bmp, .BMP</td>
|
||||
</tr>
|
||||
<tr>
|
||||
<td>JPEG</td>
|
||||
<td>.jpg, .JPG, .jpeg, .JPEG</td>
|
||||
</tr>
|
||||
<tr>
|
||||
<td>PNG</td>
|
||||
<td>.png, .PNG</td>
|
||||
</tr>
|
||||
<tr>
|
||||
<td>TIFF</td>
|
||||
<td>.tif, .TIF, .tiff, .TIFF</td>
|
||||
</tr>
|
||||
<tr>
|
||||
<td>Nifti</td>
|
||||
<td>.nia, .nii, .nii.gz, .hdr, .img, .img.gz</td>
|
||||
</tr>
|
||||
<tr>
|
||||
<td>Nrrd</td>
|
||||
<td>.nrrd, .nhdr</td>
|
||||
</tr>
|
||||
<tr>
|
||||
<td>HDF5</td>
|
||||
<td>.hdf, .h4, .hdf4, .he2, .h5, .hdf5, .he5</td>
|
||||
</tr>
|
||||
<tr>
|
||||
<td>OME</td>
|
||||
<td>.ome.tiff, .ome.tif</td>
|
||||
</tr>
|
||||
<tr>
|
||||
<td>MRC</td>
|
||||
<td>.mrc, .mrc.gz, .map, .map.gz</td>
|
||||
</tr>
|
||||
</tbody>
|
||||
</table>
|
||||
<p>Despite my best efforts, I still can't achieve perfect support for all volumetric data formats, and I will continue to work on this.</p>
|
||||
<h2 id="open-databases">Open Databases</h2>
|
||||
<p>If you don't have volumetric data, then you can download from some open databases.</p>
|
||||
<p><strong>Note that just because they are open and available for download does not mean you can use them for anything! Be sure to look at the description of the available scopes from website.</strong></p>
|
||||
<table>
|
||||
<thead>
|
||||
<tr>
|
||||
<th>Source</th>
|
||||
<th>Object</th>
|
||||
</tr>
|
||||
</thead>
|
||||
<tbody>
|
||||
<tr>
|
||||
<td><a href="https://www.morphosource.org/">MorphoSource</a></td>
|
||||
<td>Open Research Data</td>
|
||||
</tr>
|
||||
<tr>
|
||||
<td><a href="https://datadryad.org">Dryad</a></td>
|
||||
<td>Open Research Data</td>
|
||||
</tr>
|
||||
<tr>
|
||||
<td><a href="http://cellimagelibrary.org/home">Cell Image Library</a></td>
|
||||
<td>Cells</td>
|
||||
</tr>
|
||||
<tr>
|
||||
<td><a href="https://openorganelle.janelia.org/datasets">OpenOrganelle</a></td>
|
||||
<td>Cells</td>
|
||||
</tr>
|
||||
<tr>
|
||||
<td><a href="https://www.allencell.org/3d-cell-viewer.html">Allen Cell Explorer</a></td>
|
||||
<td>Cells</td>
|
||||
</tr>
|
||||
<tr>
|
||||
<td><a href="https://www.ebi.ac.uk/emdb/">EMDB</a></td>
|
||||
<td>Protein, Viruses</td>
|
||||
</tr>
|
||||
<tr>
|
||||
<td><a href="https://portal.imaging.datacommons.cancer.gov/explore/">IDC</a></td>
|
||||
<td>Medical Images</td>
|
||||
</tr>
|
||||
<tr>
|
||||
<td><a href="https://www.embodi3d.com/files/category/37-medical-scans/">Embodi3D</a></td>
|
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|
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|
||||
<tr>
|
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<td><a href="https://github.com/sfikas/medical-imaging-datasets">Github</a></td>
|
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<td>Medical Images</td>
|
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</tr>
|
||||
<tr>
|
||||
<td><a href="https://nhsx.github.io/open-source-imaging-data-sets/">NIHR</a></td>
|
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<td>Medical Images</td>
|
||||
</tr>
|
||||
<tr>
|
||||
<td><a href="http://medicaldecathlon.com/">Medical Segmentation Decathlon</a></td>
|
||||
<td>Medical Images</td>
|
||||
</tr>
|
||||
<tr>
|
||||
<td><a href="https://www.nlm.nih.gov/research/visible/visible_human.html">Visible Human Project</a></td>
|
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<td>Medical Images</td>
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</table>
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<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 384 512"><!--! Font Awesome Free 6.6.0 by @fontawesome - https://fontawesome.com License - https://fontawesome.com/license/free (Icons: CC BY 4.0, Fonts: SIL OFL 1.1, Code: MIT License) Copyright 2024 Fonticons, Inc.--><path d="M144.7 98.7c-21 34.1-33.1 74.3-33.1 117.3 0 98 62.8 181.4 150.4 211.7-12.4 2.8-25.3 4.3-38.6 4.3C126.6 432 48 353.3 48 256c0-68.9 39.4-128.4 96.8-157.3zm62.1-66C91.1 41.2 0 137.9 0 256c0 123.7 100 224 223.5 224 47.8 0 92-15 128.4-40.6 1.9-1.3 3.7-2.7 5.5-4 4.8-3.6 9.4-7.4 13.9-11.4 2.7-2.4 5.3-4.8 7.9-7.3 5-4.9 6.3-12.5 3.1-18.7s-10.1-9.7-17-8.5c-3.7.6-7.4 1.2-11.1 1.6-5 .5-10.1.9-15.3 1h-4c-96.8-.2-175.2-78.9-175.2-176 0-54.8 24.9-103.7 64.1-136 1-.9 2.1-1.7 3.2-2.6 4-3.2 8.2-6.2 12.5-9 3.1-2 6.3-4 9.6-5.8 6.1-3.5 9.2-10.5 7.7-17.3s-7.3-11.9-14.3-12.5c-3.6-.3-7.1-.5-10.7-.6-2.7-.1-5.5-.1-8.2-.1-3.3 0-6.5.1-9.8.2-2.3.1-4.6.2-6.9.4z"/></svg>
|
||||
</label>
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
<input class="md-option" data-md-color-media="(prefers-color-scheme: dark)" data-md-color-scheme="slate" data-md-color-primary="black" data-md-color-accent="indigo" aria-label="Switch to system preference" type="radio" name="__palette" id="__palette_2">
|
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|
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<label class="md-header__button md-icon" title="Switch to system preference" for="__palette_0" hidden>
|
||||
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 384 512"><!--! Font Awesome Free 6.6.0 by @fontawesome - https://fontawesome.com License - https://fontawesome.com/license/free (Icons: CC BY 4.0, Fonts: SIL OFL 1.1, Code: MIT License) Copyright 2024 Fonticons, Inc.--><path d="M223.5 32C100 32 0 132.3 0 256s100 224 223.5 224c60.6 0 115.5-24.2 155.8-63.4 5-4.9 6.3-12.5 3.1-18.7s-10.1-9.7-17-8.5c-9.8 1.7-19.8 2.6-30.1 2.6-96.9 0-175.5-78.8-175.5-176 0-65.8 36-123.1 89.3-153.3 6.1-3.5 9.2-10.5 7.7-17.3s-7.3-11.9-14.3-12.5c-6.3-.5-12.6-.8-19-.8z"/></svg>
|
||||
</label>
|
||||
|
||||
|
||||
</form>
|
||||
|
||||
|
||||
|
||||
<script>var media,input,key,value,palette=__md_get("__palette");if(palette&&palette.color){"(prefers-color-scheme)"===palette.color.media&&(media=matchMedia("(prefers-color-scheme: light)"),input=document.querySelector(media.matches?"[data-md-color-media='(prefers-color-scheme: light)']":"[data-md-color-media='(prefers-color-scheme: dark)']"),palette.color.media=input.getAttribute("data-md-color-media"),palette.color.scheme=input.getAttribute("data-md-color-scheme"),palette.color.primary=input.getAttribute("data-md-color-primary"),palette.color.accent=input.getAttribute("data-md-color-accent"));for([key,value]of Object.entries(palette.color))document.body.setAttribute("data-md-color-"+key,value)}</script>
|
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|
||||
|
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<div class="md-header__option">
|
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<div class="md-select">
|
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|
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<button class="md-header__button md-icon" aria-label="Select language">
|
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<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 24 24"><path d="m12.87 15.07-2.54-2.51.03-.03A17.52 17.52 0 0 0 14.07 6H17V4h-7V2H8v2H1v2h11.17C11.5 7.92 10.44 9.75 9 11.35 8.07 10.32 7.3 9.19 6.69 8h-2c.73 1.63 1.73 3.17 2.98 4.56l-5.09 5.02L4 19l5-5 3.11 3.11.76-2.04M18.5 10h-2L12 22h2l1.12-3h4.75L21 22h2l-4.5-12m-2.62 7 1.62-4.33L19.12 17h-3.24Z"/></svg>
|
||||
</button>
|
||||
<div class="md-select__inner">
|
||||
<ul class="md-select__list">
|
||||
|
||||
<li class="md-select__item">
|
||||
<a href="../../faq/" hreflang="zh" class="md-select__link">
|
||||
中文
|
||||
</a>
|
||||
</li>
|
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|
||||
<li class="md-select__item">
|
||||
<a href="./" hreflang="en" class="md-select__link">
|
||||
English
|
||||
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|
||||
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|
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|
||||
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|
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|
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|
||||
</div>
|
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|
||||
|
||||
<label class="md-header__button md-icon" for="__search">
|
||||
|
||||
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 24 24"><path d="M9.5 3A6.5 6.5 0 0 1 16 9.5c0 1.61-.59 3.09-1.56 4.23l.27.27h.79l5 5-1.5 1.5-5-5v-.79l-.27-.27A6.516 6.516 0 0 1 9.5 16 6.5 6.5 0 0 1 3 9.5 6.5 6.5 0 0 1 9.5 3m0 2C7 5 5 7 5 9.5S7 14 9.5 14 14 12 14 9.5 12 5 9.5 5Z"/></svg>
|
||||
</label>
|
||||
<div class="md-search" data-md-component="search" role="dialog">
|
||||
<label class="md-search__overlay" for="__search"></label>
|
||||
<div class="md-search__inner" role="search">
|
||||
<form class="md-search__form" name="search">
|
||||
<input type="text" class="md-search__input" name="query" aria-label="Search" placeholder="Search" autocapitalize="off" autocorrect="off" autocomplete="off" spellcheck="false" data-md-component="search-query" required>
|
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<label class="md-search__icon md-icon" for="__search">
|
||||
|
||||
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 24 24"><path d="M9.5 3A6.5 6.5 0 0 1 16 9.5c0 1.61-.59 3.09-1.56 4.23l.27.27h.79l5 5-1.5 1.5-5-5v-.79l-.27-.27A6.516 6.516 0 0 1 9.5 16 6.5 6.5 0 0 1 3 9.5 6.5 6.5 0 0 1 9.5 3m0 2C7 5 5 7 5 9.5S7 14 9.5 14 14 12 14 9.5 12 5 9.5 5Z"/></svg>
|
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|
||||
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 24 24"><path d="M20 11v2H8l5.5 5.5-1.42 1.42L4.16 12l7.92-7.92L13.5 5.5 8 11h12Z"/></svg>
|
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</label>
|
||||
<nav class="md-search__options" aria-label="Search">
|
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|
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<button type="reset" class="md-search__icon md-icon" title="Clear" aria-label="Clear" tabindex="-1">
|
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|
||||
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 24 24"><path d="M19 6.41 17.59 5 12 10.59 6.41 5 5 6.41 10.59 12 5 17.59 6.41 19 12 13.41 17.59 19 19 17.59 13.41 12 19 6.41Z"/></svg>
|
||||
</button>
|
||||
</nav>
|
||||
|
||||
</form>
|
||||
<div class="md-search__output">
|
||||
<div class="md-search__scrollwrap" tabindex="0" data-md-scrollfix>
|
||||
<div class="md-search-result" data-md-component="search-result">
|
||||
<div class="md-search-result__meta">
|
||||
Initializing search
|
||||
</div>
|
||||
<ol class="md-search-result__list" role="presentation"></ol>
|
||||
</div>
|
||||
</div>
|
||||
</div>
|
||||
</div>
|
||||
</div>
|
||||
|
||||
|
||||
<div class="md-header__source">
|
||||
<a href="https://github.com/OmooLab/BioxelNodes" title="Go to repository" class="md-source" data-md-component="source">
|
||||
<div class="md-source__icon md-icon">
|
||||
|
||||
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 448 512"><!--! Font Awesome Free 6.6.0 by @fontawesome - https://fontawesome.com License - https://fontawesome.com/license/free (Icons: CC BY 4.0, Fonts: SIL OFL 1.1, Code: MIT License) Copyright 2024 Fonticons, Inc.--><path d="M439.55 236.05 244 40.45a28.87 28.87 0 0 0-40.81 0l-40.66 40.63 51.52 51.52c27.06-9.14 52.68 16.77 43.39 43.68l49.66 49.66c34.23-11.8 61.18 31 35.47 56.69-26.49 26.49-70.21-2.87-56-37.34L240.22 199v121.85c25.3 12.54 22.26 41.85 9.08 55a34.34 34.34 0 0 1-48.55 0c-17.57-17.6-11.07-46.91 11.25-56v-123c-20.8-8.51-24.6-30.74-18.64-45L142.57 101 8.45 235.14a28.86 28.86 0 0 0 0 40.81l195.61 195.6a28.86 28.86 0 0 0 40.8 0l194.69-194.69a28.86 28.86 0 0 0 0-40.81z"/></svg>
|
||||
</div>
|
||||
<div class="md-source__repository">
|
||||
OmooLab/BioxelNodes
|
||||
</div>
|
||||
</a>
|
||||
</div>
|
||||
|
||||
</nav>
|
||||
|
||||
|
||||
|
||||
<nav class="md-tabs" aria-label="Tabs" data-md-component="tabs">
|
||||
<div class="md-grid">
|
||||
<ul class="md-tabs__list">
|
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|
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|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
<li class="md-tabs__item">
|
||||
<a href="../" class="md-tabs__link">
|
||||
|
||||
|
||||
|
||||
|
||||
Bioxel Nodes
|
||||
|
||||
</a>
|
||||
</li>
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
<li class="md-tabs__item">
|
||||
<a href="../installation/" class="md-tabs__link">
|
||||
|
||||
|
||||
|
||||
|
||||
Getting Started
|
||||
|
||||
</a>
|
||||
</li>
|
||||
|
||||
|
||||
|
||||
|
||||
</ul>
|
||||
</div>
|
||||
</nav>
|
||||
|
||||
|
||||
</header>
|
||||
|
||||
<div class="md-container" data-md-component="container">
|
||||
|
||||
|
||||
|
||||
|
||||
<main class="md-main" data-md-component="main">
|
||||
<div class="md-main__inner md-grid">
|
||||
|
||||
|
||||
|
||||
<div class="md-sidebar md-sidebar--primary" data-md-component="sidebar" data-md-type="navigation" >
|
||||
<div class="md-sidebar__scrollwrap">
|
||||
<div class="md-sidebar__inner">
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
<nav class="md-nav md-nav--primary md-nav--lifted" aria-label="Navigation" data-md-level="0">
|
||||
<label class="md-nav__title" for="__drawer">
|
||||
<a href="../" title="Bioxel Nodes Docs" class="md-nav__button md-logo" aria-label="Bioxel Nodes Docs" data-md-component="logo">
|
||||
|
||||
<img src="../../assets/logo.png" alt="logo">
|
||||
|
||||
</a>
|
||||
Bioxel Nodes Docs
|
||||
</label>
|
||||
|
||||
<div class="md-nav__source">
|
||||
<a href="https://github.com/OmooLab/BioxelNodes" title="Go to repository" class="md-source" data-md-component="source">
|
||||
<div class="md-source__icon md-icon">
|
||||
|
||||
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 448 512"><!--! Font Awesome Free 6.6.0 by @fontawesome - https://fontawesome.com License - https://fontawesome.com/license/free (Icons: CC BY 4.0, Fonts: SIL OFL 1.1, Code: MIT License) Copyright 2024 Fonticons, Inc.--><path d="M439.55 236.05 244 40.45a28.87 28.87 0 0 0-40.81 0l-40.66 40.63 51.52 51.52c27.06-9.14 52.68 16.77 43.39 43.68l49.66 49.66c34.23-11.8 61.18 31 35.47 56.69-26.49 26.49-70.21-2.87-56-37.34L240.22 199v121.85c25.3 12.54 22.26 41.85 9.08 55a34.34 34.34 0 0 1-48.55 0c-17.57-17.6-11.07-46.91 11.25-56v-123c-20.8-8.51-24.6-30.74-18.64-45L142.57 101 8.45 235.14a28.86 28.86 0 0 0 0 40.81l195.61 195.6a28.86 28.86 0 0 0 40.8 0l194.69-194.69a28.86 28.86 0 0 0 0-40.81z"/></svg>
|
||||
</div>
|
||||
<div class="md-source__repository">
|
||||
OmooLab/BioxelNodes
|
||||
</div>
|
||||
</a>
|
||||
</div>
|
||||
|
||||
<ul class="md-nav__list" data-md-scrollfix>
|
||||
|
||||
|
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|
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|
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|
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|
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|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
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|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
<li class="md-nav__item md-nav__item--nested">
|
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|
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|
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|
||||
<input class="md-nav__toggle md-toggle " type="checkbox" id="__nav_1" >
|
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|
||||
|
||||
|
||||
<div class="md-nav__link md-nav__container">
|
||||
<a href="../" class="md-nav__link ">
|
||||
|
||||
|
||||
<span class="md-ellipsis">
|
||||
Bioxel Nodes
|
||||
</span>
|
||||
|
||||
|
||||
</a>
|
||||
|
||||
|
||||
<label class="md-nav__link " for="__nav_1" id="__nav_1_label" tabindex="0">
|
||||
<span class="md-nav__icon md-icon"></span>
|
||||
</label>
|
||||
|
||||
</div>
|
||||
|
||||
<nav class="md-nav" data-md-level="1" aria-labelledby="__nav_1_label" aria-expanded="false">
|
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<label class="md-nav__title" for="__nav_1">
|
||||
<span class="md-nav__icon md-icon"></span>
|
||||
Bioxel Nodes
|
||||
</label>
|
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<ul class="md-nav__list" data-md-scrollfix>
|
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|
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|
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|
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|
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|
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|
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|
||||
|
||||
|
||||
<li class="md-nav__item">
|
||||
<a href="../gallery/" class="md-nav__link">
|
||||
|
||||
|
||||
<span class="md-ellipsis">
|
||||
Gallery
|
||||
</span>
|
||||
|
||||
|
||||
</a>
|
||||
</li>
|
||||
|
||||
|
||||
|
||||
|
||||
</ul>
|
||||
</nav>
|
||||
|
||||
</li>
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
<li class="md-nav__item md-nav__item--nested">
|
||||
|
||||
|
||||
|
||||
<input class="md-nav__toggle md-toggle " type="checkbox" id="__nav_2" >
|
||||
|
||||
|
||||
<label class="md-nav__link" for="__nav_2" id="__nav_2_label" tabindex="0">
|
||||
|
||||
|
||||
<span class="md-ellipsis">
|
||||
Getting Started
|
||||
</span>
|
||||
|
||||
|
||||
<span class="md-nav__icon md-icon"></span>
|
||||
</label>
|
||||
|
||||
<nav class="md-nav" data-md-level="1" aria-labelledby="__nav_2_label" aria-expanded="false">
|
||||
<label class="md-nav__title" for="__nav_2">
|
||||
<span class="md-nav__icon md-icon"></span>
|
||||
Getting Started
|
||||
</label>
|
||||
<ul class="md-nav__list" data-md-scrollfix>
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
<li class="md-nav__item">
|
||||
<a href="../installation/" class="md-nav__link">
|
||||
|
||||
|
||||
<span class="md-ellipsis">
|
||||
Installation
|
||||
</span>
|
||||
|
||||
|
||||
</a>
|
||||
</li>
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
<li class="md-nav__item">
|
||||
<a href="../basics/" class="md-nav__link">
|
||||
|
||||
|
||||
<span class="md-ellipsis">
|
||||
Bacsic Usage
|
||||
</span>
|
||||
|
||||
|
||||
</a>
|
||||
</li>
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
<li class="md-nav__item">
|
||||
<a href="../advanced/" class="md-nav__link">
|
||||
|
||||
|
||||
<span class="md-ellipsis">
|
||||
Advanced Usage
|
||||
</span>
|
||||
|
||||
|
||||
</a>
|
||||
</li>
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
<li class="md-nav__item">
|
||||
<a href="../dataset/" class="md-nav__link">
|
||||
|
||||
|
||||
<span class="md-ellipsis">
|
||||
Support Format
|
||||
</span>
|
||||
|
||||
|
||||
</a>
|
||||
</li>
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
<li class="md-nav__item">
|
||||
<a href="../performance/" class="md-nav__link">
|
||||
|
||||
|
||||
<span class="md-ellipsis">
|
||||
Improve Performance
|
||||
</span>
|
||||
|
||||
|
||||
</a>
|
||||
</li>
|
||||
|
||||
|
||||
|
||||
|
||||
</ul>
|
||||
</nav>
|
||||
|
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</li>
|
||||
|
||||
|
||||
|
||||
</ul>
|
||||
</nav>
|
||||
</div>
|
||||
</div>
|
||||
</div>
|
||||
|
||||
|
||||
|
||||
<div class="md-sidebar md-sidebar--secondary" data-md-component="sidebar" data-md-type="toc" >
|
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<div class="md-sidebar__scrollwrap">
|
||||
<div class="md-sidebar__inner">
|
||||
|
||||
|
||||
<nav class="md-nav md-nav--secondary" aria-label="Table of contents">
|
||||
|
||||
|
||||
|
||||
|
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Nothing in the scene when rendering?
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||||
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|
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|
||||
After updating the addon, the nodes in the file have turned red?
|
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|
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|
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||||
|
||||
<h1 id="faq">FAQ</h1>
|
||||
<h2 id="nothing-in-the-scene-when-rendering">Nothing in the scene when rendering?</h2>
|
||||
<p>If you're using the Cycles renderer with GPU, make sure your GPU supports "Optix", as Bioxel Nodes relies on OSL (Open shader language) for volumetric rendering, otherwise you'll have to use the CPU for rendering.</p>
|
||||
<p>If you're using the EEVEE renderer, this issue is due to EEVEE not loading shaders for some unknown reason, save the file and restart Blender to fix it.</p>
|
||||
<h2 id="after-updating-the-addon-the-nodes-in-the-file-have-turned-red">After updating the addon, the nodes in the file have turned red?</h2>
|
||||
<p>This is because the version of the nodes in the file does not match the current version of the addon after updating.</p>
|
||||
<p>If you still want to edit the file with Bioxel Nodes, you can only roll back the addon version to the version that corresponds to the nodes.</p>
|
||||
<p>If you just want the file to work and you won't rely on Bioxel Nodes any more, then you can just click <strong>Bioxel Nodes > Relink Node Library ></strong> in the top menu and select the corresponding version. Check to see if the nodes are working and rendering properly, and when everything is OK, click <strong>Bioxel Nodes > Save Node Library</strong> and select the save location in the dialog box.</p>
|
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|
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|
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|
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742
2.0.x/en/gallery/index.html
Executable file
742
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Skip to content
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|
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<input class="md-option" data-md-color-media="(prefers-color-scheme: dark)" data-md-color-scheme="slate" data-md-color-primary="black" data-md-color-accent="indigo" aria-label="Switch to system preference" type="radio" name="__palette" id="__palette_2">
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<label class="md-header__button md-icon" title="Switch to system preference" for="__palette_0" hidden>
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<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 384 512"><!--! Font Awesome Free 6.6.0 by @fontawesome - https://fontawesome.com License - https://fontawesome.com/license/free (Icons: CC BY 4.0, Fonts: SIL OFL 1.1, Code: MIT License) Copyright 2024 Fonticons, Inc.--><path d="M223.5 32C100 32 0 132.3 0 256s100 224 223.5 224c60.6 0 115.5-24.2 155.8-63.4 5-4.9 6.3-12.5 3.1-18.7s-10.1-9.7-17-8.5c-9.8 1.7-19.8 2.6-30.1 2.6-96.9 0-175.5-78.8-175.5-176 0-65.8 36-123.1 89.3-153.3 6.1-3.5 9.2-10.5 7.7-17.3s-7.3-11.9-14.3-12.5c-6.3-.5-12.6-.8-19-.8z"/></svg>
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||||
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</form>
|
||||
|
||||
|
||||
|
||||
<script>var media,input,key,value,palette=__md_get("__palette");if(palette&&palette.color){"(prefers-color-scheme)"===palette.color.media&&(media=matchMedia("(prefers-color-scheme: light)"),input=document.querySelector(media.matches?"[data-md-color-media='(prefers-color-scheme: light)']":"[data-md-color-media='(prefers-color-scheme: dark)']"),palette.color.media=input.getAttribute("data-md-color-media"),palette.color.scheme=input.getAttribute("data-md-color-scheme"),palette.color.primary=input.getAttribute("data-md-color-primary"),palette.color.accent=input.getAttribute("data-md-color-accent"));for([key,value]of Object.entries(palette.color))document.body.setAttribute("data-md-color-"+key,value)}</script>
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<button class="md-header__button md-icon" aria-label="Select language">
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<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 24 24"><path d="m12.87 15.07-2.54-2.51.03-.03A17.52 17.52 0 0 0 14.07 6H17V4h-7V2H8v2H1v2h11.17C11.5 7.92 10.44 9.75 9 11.35 8.07 10.32 7.3 9.19 6.69 8h-2c.73 1.63 1.73 3.17 2.98 4.56l-5.09 5.02L4 19l5-5 3.11 3.11.76-2.04M18.5 10h-2L12 22h2l1.12-3h4.75L21 22h2l-4.5-12m-2.62 7 1.62-4.33L19.12 17h-3.24Z"/></svg>
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</button>
|
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<div class="md-select__inner">
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<ul class="md-select__list">
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<li class="md-select__item">
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<a href="/bioxelnodes/2.0.x/" hreflang="zh" class="md-select__link">
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</a>
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</li>
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<li class="md-select__item">
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<a href="/bioxelnodes/2.0.x/en/" hreflang="en" class="md-select__link">
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</div>
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<label class="md-header__button md-icon" for="__search">
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<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 24 24"><path d="M9.5 3A6.5 6.5 0 0 1 16 9.5c0 1.61-.59 3.09-1.56 4.23l.27.27h.79l5 5-1.5 1.5-5-5v-.79l-.27-.27A6.516 6.516 0 0 1 9.5 16 6.5 6.5 0 0 1 3 9.5 6.5 6.5 0 0 1 9.5 3m0 2C7 5 5 7 5 9.5S7 14 9.5 14 14 12 14 9.5 12 5 9.5 5Z"/></svg>
|
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</label>
|
||||
<div class="md-search" data-md-component="search" role="dialog">
|
||||
<label class="md-search__overlay" for="__search"></label>
|
||||
<div class="md-search__inner" role="search">
|
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<form class="md-search__form" name="search">
|
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<input type="text" class="md-search__input" name="query" aria-label="Search" placeholder="Search" autocapitalize="off" autocorrect="off" autocomplete="off" spellcheck="false" data-md-component="search-query" required>
|
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<label class="md-search__icon md-icon" for="__search">
|
||||
|
||||
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 24 24"><path d="M9.5 3A6.5 6.5 0 0 1 16 9.5c0 1.61-.59 3.09-1.56 4.23l.27.27h.79l5 5-1.5 1.5-5-5v-.79l-.27-.27A6.516 6.516 0 0 1 9.5 16 6.5 6.5 0 0 1 3 9.5 6.5 6.5 0 0 1 9.5 3m0 2C7 5 5 7 5 9.5S7 14 9.5 14 14 12 14 9.5 12 5 9.5 5Z"/></svg>
|
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|
||||
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 24 24"><path d="M20 11v2H8l5.5 5.5-1.42 1.42L4.16 12l7.92-7.92L13.5 5.5 8 11h12Z"/></svg>
|
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</label>
|
||||
<nav class="md-search__options" aria-label="Search">
|
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|
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<button type="reset" class="md-search__icon md-icon" title="Clear" aria-label="Clear" tabindex="-1">
|
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|
||||
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 24 24"><path d="M19 6.41 17.59 5 12 10.59 6.41 5 5 6.41 10.59 12 5 17.59 6.41 19 12 13.41 17.59 19 19 17.59 13.41 12 19 6.41Z"/></svg>
|
||||
</button>
|
||||
</nav>
|
||||
|
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</form>
|
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<div class="md-search__output">
|
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<div class="md-search__scrollwrap" tabindex="0" data-md-scrollfix>
|
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<div class="md-search-result" data-md-component="search-result">
|
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<div class="md-search-result__meta">
|
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Initializing search
|
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</div>
|
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<ol class="md-search-result__list" role="presentation"></ol>
|
||||
</div>
|
||||
</div>
|
||||
</div>
|
||||
</div>
|
||||
</div>
|
||||
|
||||
|
||||
<div class="md-header__source">
|
||||
<a href="https://github.com/OmooLab/BioxelNodes" title="Go to repository" class="md-source" data-md-component="source">
|
||||
<div class="md-source__icon md-icon">
|
||||
|
||||
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 448 512"><!--! Font Awesome Free 6.6.0 by @fontawesome - https://fontawesome.com License - https://fontawesome.com/license/free (Icons: CC BY 4.0, Fonts: SIL OFL 1.1, Code: MIT License) Copyright 2024 Fonticons, Inc.--><path d="M439.55 236.05 244 40.45a28.87 28.87 0 0 0-40.81 0l-40.66 40.63 51.52 51.52c27.06-9.14 52.68 16.77 43.39 43.68l49.66 49.66c34.23-11.8 61.18 31 35.47 56.69-26.49 26.49-70.21-2.87-56-37.34L240.22 199v121.85c25.3 12.54 22.26 41.85 9.08 55a34.34 34.34 0 0 1-48.55 0c-17.57-17.6-11.07-46.91 11.25-56v-123c-20.8-8.51-24.6-30.74-18.64-45L142.57 101 8.45 235.14a28.86 28.86 0 0 0 0 40.81l195.61 195.6a28.86 28.86 0 0 0 40.8 0l194.69-194.69a28.86 28.86 0 0 0 0-40.81z"/></svg>
|
||||
</div>
|
||||
<div class="md-source__repository">
|
||||
OmooLab/BioxelNodes
|
||||
</div>
|
||||
</a>
|
||||
</div>
|
||||
|
||||
</nav>
|
||||
|
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|
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|
||||
<nav class="md-tabs" aria-label="Tabs" data-md-component="tabs">
|
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|
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|
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|
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|
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|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
<li class="md-tabs__item md-tabs__item--active">
|
||||
<a href="./" class="md-tabs__link">
|
||||
|
||||
|
||||
|
||||
|
||||
Bioxel Nodes
|
||||
|
||||
</a>
|
||||
</li>
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
<li class="md-tabs__item">
|
||||
<a href="installation/" class="md-tabs__link">
|
||||
|
||||
|
||||
|
||||
|
||||
Getting Started
|
||||
|
||||
</a>
|
||||
</li>
|
||||
|
||||
|
||||
|
||||
|
||||
</ul>
|
||||
</div>
|
||||
</nav>
|
||||
|
||||
|
||||
</header>
|
||||
|
||||
<div class="md-container" data-md-component="container">
|
||||
|
||||
|
||||
|
||||
|
||||
<main class="md-main" data-md-component="main">
|
||||
<div class="md-main__inner md-grid">
|
||||
|
||||
|
||||
|
||||
<div class="md-sidebar md-sidebar--primary" data-md-component="sidebar" data-md-type="navigation" >
|
||||
<div class="md-sidebar__scrollwrap">
|
||||
<div class="md-sidebar__inner">
|
||||
|
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|
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|
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|
||||
|
||||
|
||||
<nav class="md-nav md-nav--primary md-nav--lifted" aria-label="Navigation" data-md-level="0">
|
||||
<label class="md-nav__title" for="__drawer">
|
||||
<a href="./" title="Bioxel Nodes Docs" class="md-nav__button md-logo" aria-label="Bioxel Nodes Docs" data-md-component="logo">
|
||||
|
||||
<img src="../assets/logo.png" alt="logo">
|
||||
|
||||
</a>
|
||||
Bioxel Nodes Docs
|
||||
</label>
|
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|
||||
<div class="md-nav__source">
|
||||
<a href="https://github.com/OmooLab/BioxelNodes" title="Go to repository" class="md-source" data-md-component="source">
|
||||
<div class="md-source__icon md-icon">
|
||||
|
||||
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 448 512"><!--! Font Awesome Free 6.6.0 by @fontawesome - https://fontawesome.com License - https://fontawesome.com/license/free (Icons: CC BY 4.0, Fonts: SIL OFL 1.1, Code: MIT License) Copyright 2024 Fonticons, Inc.--><path d="M439.55 236.05 244 40.45a28.87 28.87 0 0 0-40.81 0l-40.66 40.63 51.52 51.52c27.06-9.14 52.68 16.77 43.39 43.68l49.66 49.66c34.23-11.8 61.18 31 35.47 56.69-26.49 26.49-70.21-2.87-56-37.34L240.22 199v121.85c25.3 12.54 22.26 41.85 9.08 55a34.34 34.34 0 0 1-48.55 0c-17.57-17.6-11.07-46.91 11.25-56v-123c-20.8-8.51-24.6-30.74-18.64-45L142.57 101 8.45 235.14a28.86 28.86 0 0 0 0 40.81l195.61 195.6a28.86 28.86 0 0 0 40.8 0l194.69-194.69a28.86 28.86 0 0 0 0-40.81z"/></svg>
|
||||
</div>
|
||||
<div class="md-source__repository">
|
||||
OmooLab/BioxelNodes
|
||||
</div>
|
||||
</a>
|
||||
</div>
|
||||
|
||||
<ul class="md-nav__list" data-md-scrollfix>
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
<li class="md-nav__item md-nav__item--active md-nav__item--section md-nav__item--nested">
|
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|
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|
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<input class="md-nav__toggle md-toggle " type="checkbox" id="__nav_1" checked>
|
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|
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|
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|
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<div class="md-nav__link md-nav__container">
|
||||
<a href="./" class="md-nav__link md-nav__link--active">
|
||||
|
||||
|
||||
<span class="md-ellipsis">
|
||||
Bioxel Nodes
|
||||
</span>
|
||||
|
||||
|
||||
</a>
|
||||
|
||||
|
||||
<label class="md-nav__link md-nav__link--active" for="__nav_1" id="__nav_1_label" tabindex="">
|
||||
<span class="md-nav__icon md-icon"></span>
|
||||
</label>
|
||||
|
||||
</div>
|
||||
|
||||
<nav class="md-nav" data-md-level="1" aria-labelledby="__nav_1_label" aria-expanded="true">
|
||||
<label class="md-nav__title" for="__nav_1">
|
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<span class="md-nav__icon md-icon"></span>
|
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Bioxel Nodes
|
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</label>
|
||||
<ul class="md-nav__list" data-md-scrollfix>
|
||||
|
||||
|
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|
||||
|
||||
|
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|
||||
|
||||
|
||||
|
||||
<li class="md-nav__item">
|
||||
<a href="gallery/" class="md-nav__link">
|
||||
|
||||
|
||||
<span class="md-ellipsis">
|
||||
Gallery
|
||||
</span>
|
||||
|
||||
|
||||
</a>
|
||||
</li>
|
||||
|
||||
|
||||
|
||||
|
||||
</ul>
|
||||
</nav>
|
||||
|
||||
</li>
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
<li class="md-nav__item md-nav__item--nested">
|
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|
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|
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|
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<input class="md-nav__toggle md-toggle " type="checkbox" id="__nav_2" >
|
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|
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|
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<label class="md-nav__link" for="__nav_2" id="__nav_2_label" tabindex="0">
|
||||
|
||||
|
||||
<span class="md-ellipsis">
|
||||
Getting Started
|
||||
</span>
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||||
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||||
<p><strong>v2.0.x has been released, supporting only Blender 5.0+. The usage is completely different from before and is not compatible with old version files. See http://docs.omoolab.xyz/bioxelnodes/2.0.x/en/basics/</strong></p>
|
||||
<h1 id="bioxel-nodes">Bioxel Nodes</h1>
|
||||
<p><a href="https://blender.org/"><img alt="For Blender" src="https://img.shields.io/badge/Blender-orange?style=for-the-badge&logo=blender&logoColor=white&color=black" /></a>
|
||||
<img alt="GitHub License" src="https://img.shields.io/github/license/OmooLab/BioxelNodes?style=for-the-badge&labelColor=black" />
|
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<img alt="GitHub Release" src="https://img.shields.io/github/v/release/OmooLab/BioxelNodes?style=for-the-badge&labelColor=black" />
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<img alt="GitHub Repo stars" src="https://img.shields.io/github/stars/OmooLab/BioxelNodes?style=for-the-badge&labelColor=black" /></p>
|
||||
<p><a href="https://discord.gg/pYkNyq2TjE"><img alt="Discord" src="https://img.shields.io/discord/1265129134397587457?style=for-the-badge&logo=discord&label=Discord&labelColor=white&color=black" /></a></p>
|
||||
<p>Bioxel Nodes is a Blender addon for scientific volumetric data visualization. It using Blender's powerful <strong>Geometry Nodes</strong> and <strong>Cycles</strong> to process and render volumetric data.</p>
|
||||
<p><img alt="cover" src="https://omoolab.github.io/BioxelNodes/latest/assets/cover.png" /></p>
|
||||
<ul>
|
||||
<li>Realistic rendering result, also support EEVEE NEXT.</li>
|
||||
<li>Support multiple formats.</li>
|
||||
<li>Support 4D volumetric data.</li>
|
||||
<li>All kinds of cutters.</li>
|
||||
<li>Simple and powerful nodes.</li>
|
||||
<li>Based on blender natively, can work without addon.</li>
|
||||
</ul>
|
||||
<p><strong>Read the <a href="https://docs.omoolab.xyz/bioxelnodes/latest/en/installation">getting started</a> to begin your journey into visualizing volumetric data!</strong></p>
|
||||
<p>Welcome to our <a href="https://discord.gg/pYkNyq2TjE">discord server</a>, if you have any problems with this add-on.</p>
|
||||
<h2 id="support-multiple-formats">Support Multiple Formats</h2>
|
||||
<table>
|
||||
<thead>
|
||||
<tr>
|
||||
<th>Format</th>
|
||||
<th>EXT</th>
|
||||
</tr>
|
||||
</thead>
|
||||
<tbody>
|
||||
<tr>
|
||||
<td>DICOM</td>
|
||||
<td>.dcm, .DCM, .DICOM, .ima, .IMA</td>
|
||||
</tr>
|
||||
<tr>
|
||||
<td>BMP</td>
|
||||
<td>.bmp, .BMP</td>
|
||||
</tr>
|
||||
<tr>
|
||||
<td>JPEG</td>
|
||||
<td>.jpg, .JPG, .jpeg, .JPEG</td>
|
||||
</tr>
|
||||
<tr>
|
||||
<td>PNG</td>
|
||||
<td>.png, .PNG</td>
|
||||
</tr>
|
||||
<tr>
|
||||
<td>TIFF</td>
|
||||
<td>.tif, .TIF, .tiff, .TIFF</td>
|
||||
</tr>
|
||||
<tr>
|
||||
<td>Nifti</td>
|
||||
<td>.nia, .nii, .nii.gz, .hdr, .img, .img.gz</td>
|
||||
</tr>
|
||||
<tr>
|
||||
<td>Nrrd</td>
|
||||
<td>.nrrd, .nhdr</td>
|
||||
</tr>
|
||||
<tr>
|
||||
<td>HDF5</td>
|
||||
<td>.hdf, .h4, .hdf4, .he2, .h5, .hdf5, .he5</td>
|
||||
</tr>
|
||||
<tr>
|
||||
<td>OME</td>
|
||||
<td>.ome.tiff, .ome.tif</td>
|
||||
</tr>
|
||||
<tr>
|
||||
<td>MRC</td>
|
||||
<td>.mrc, .mrc.gz, .map, .map.gz</td>
|
||||
</tr>
|
||||
</tbody>
|
||||
</table>
|
||||
<h2 id="support-4d-volumetric-data">Support 4D volumetric data</h2>
|
||||
<p><img alt="4d" src="https://omoolab.github.io/BioxelNodes/latest/assets/4d-time.gif" /></p>
|
||||
<p>🥰 4D volumetric data can also be imported into Blender.</p>
|
||||
<h2 id="support-eevee-next">Support EEVEE NEXT</h2>
|
||||
<p><img alt="eevee" src="https://omoolab.github.io/BioxelNodes/latest/assets/eevee.gif" /></p>
|
||||
<p>👍 EEVEE NEXT is absolutely AWESOME! Bioxel Nodes is fully support EEVEE NEXT now! However, there are some limitations:</p>
|
||||
<ol>
|
||||
<li>Only one cutter supported.</li>
|
||||
<li>EEVEE result is not that great as Cycles does.</li>
|
||||
</ol>
|
||||
<h2 id="known-limitations">Known Limitations</h2>
|
||||
<ul>
|
||||
<li>Only works with Cycles CPU , Cycles GPU (OptiX), EEVEE</li>
|
||||
<li>Section surface cannot be generated when convert to mesh (will be supported soon)</li>
|
||||
</ul>
|
||||
<h2 id="roadmap">Roadmap</h2>
|
||||
<ul>
|
||||
<li>Better multi-format import experience</li>
|
||||
<li>One-click bake model with texture</li>
|
||||
<li>AI Segmentation to Generate Labels</li>
|
||||
</ul>
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
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|
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|
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|
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|
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|
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<input class="md-option" data-md-color-media="(prefers-color-scheme)" data-md-color-scheme="default" data-md-color-primary="black" data-md-color-accent="indigo" aria-label="Switch to light mode" type="radio" name="__palette" id="__palette_0">
|
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|
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<label class="md-header__button md-icon" title="Switch to light mode" for="__palette_1" hidden>
|
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<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 512 512"><!--! Font Awesome Free 6.6.0 by @fontawesome - https://fontawesome.com License - https://fontawesome.com/license/free (Icons: CC BY 4.0, Fonts: SIL OFL 1.1, Code: MIT License) Copyright 2024 Fonticons, Inc.--><path d="M448 256c0-106-86-192-192-192v384c106 0 192-86 192-192zM0 256a256 256 0 1 1 512 0 256 256 0 1 1-512 0z"/></svg>
|
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</label>
|
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|
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|
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|
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|
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|
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<input class="md-option" data-md-color-media="(prefers-color-scheme: light)" data-md-color-scheme="default" data-md-color-primary="black" data-md-color-accent="indigo" aria-label="Switch to dark mode" type="radio" name="__palette" id="__palette_1">
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|
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<label class="md-header__button md-icon" title="Switch to dark mode" for="__palette_2" hidden>
|
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<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 384 512"><!--! Font Awesome Free 6.6.0 by @fontawesome - https://fontawesome.com License - https://fontawesome.com/license/free (Icons: CC BY 4.0, Fonts: SIL OFL 1.1, Code: MIT License) Copyright 2024 Fonticons, Inc.--><path d="M144.7 98.7c-21 34.1-33.1 74.3-33.1 117.3 0 98 62.8 181.4 150.4 211.7-12.4 2.8-25.3 4.3-38.6 4.3C126.6 432 48 353.3 48 256c0-68.9 39.4-128.4 96.8-157.3zm62.1-66C91.1 41.2 0 137.9 0 256c0 123.7 100 224 223.5 224 47.8 0 92-15 128.4-40.6 1.9-1.3 3.7-2.7 5.5-4 4.8-3.6 9.4-7.4 13.9-11.4 2.7-2.4 5.3-4.8 7.9-7.3 5-4.9 6.3-12.5 3.1-18.7s-10.1-9.7-17-8.5c-3.7.6-7.4 1.2-11.1 1.6-5 .5-10.1.9-15.3 1h-4c-96.8-.2-175.2-78.9-175.2-176 0-54.8 24.9-103.7 64.1-136 1-.9 2.1-1.7 3.2-2.6 4-3.2 8.2-6.2 12.5-9 3.1-2 6.3-4 9.6-5.8 6.1-3.5 9.2-10.5 7.7-17.3s-7.3-11.9-14.3-12.5c-3.6-.3-7.1-.5-10.7-.6-2.7-.1-5.5-.1-8.2-.1-3.3 0-6.5.1-9.8.2-2.3.1-4.6.2-6.9.4z"/></svg>
|
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|
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|
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|
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|
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<input class="md-option" data-md-color-media="(prefers-color-scheme: dark)" data-md-color-scheme="slate" data-md-color-primary="black" data-md-color-accent="indigo" aria-label="Switch to system preference" type="radio" name="__palette" id="__palette_2">
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<label class="md-header__button md-icon" title="Switch to system preference" for="__palette_0" hidden>
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<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 384 512"><!--! Font Awesome Free 6.6.0 by @fontawesome - https://fontawesome.com License - https://fontawesome.com/license/free (Icons: CC BY 4.0, Fonts: SIL OFL 1.1, Code: MIT License) Copyright 2024 Fonticons, Inc.--><path d="M223.5 32C100 32 0 132.3 0 256s100 224 223.5 224c60.6 0 115.5-24.2 155.8-63.4 5-4.9 6.3-12.5 3.1-18.7s-10.1-9.7-17-8.5c-9.8 1.7-19.8 2.6-30.1 2.6-96.9 0-175.5-78.8-175.5-176 0-65.8 36-123.1 89.3-153.3 6.1-3.5 9.2-10.5 7.7-17.3s-7.3-11.9-14.3-12.5c-6.3-.5-12.6-.8-19-.8z"/></svg>
|
||||
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|
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|
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|
||||
</form>
|
||||
|
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|
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|
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<script>var media,input,key,value,palette=__md_get("__palette");if(palette&&palette.color){"(prefers-color-scheme)"===palette.color.media&&(media=matchMedia("(prefers-color-scheme: light)"),input=document.querySelector(media.matches?"[data-md-color-media='(prefers-color-scheme: light)']":"[data-md-color-media='(prefers-color-scheme: dark)']"),palette.color.media=input.getAttribute("data-md-color-media"),palette.color.scheme=input.getAttribute("data-md-color-scheme"),palette.color.primary=input.getAttribute("data-md-color-primary"),palette.color.accent=input.getAttribute("data-md-color-accent"));for([key,value]of Object.entries(palette.color))document.body.setAttribute("data-md-color-"+key,value)}</script>
|
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|
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<div class="md-select__inner">
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<a href="../../installation/" hreflang="zh" class="md-select__link">
|
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|
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|
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|
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<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 24 24"><path d="M9.5 3A6.5 6.5 0 0 1 16 9.5c0 1.61-.59 3.09-1.56 4.23l.27.27h.79l5 5-1.5 1.5-5-5v-.79l-.27-.27A6.516 6.516 0 0 1 9.5 16 6.5 6.5 0 0 1 3 9.5 6.5 6.5 0 0 1 9.5 3m0 2C7 5 5 7 5 9.5S7 14 9.5 14 14 12 14 9.5 12 5 9.5 5Z"/></svg>
|
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</label>
|
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|
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|
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<div class="md-search__inner" role="search">
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<input type="text" class="md-search__input" name="query" aria-label="Search" placeholder="Search" autocapitalize="off" autocorrect="off" autocomplete="off" spellcheck="false" data-md-component="search-query" required>
|
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<label class="md-search__icon md-icon" for="__search">
|
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|
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<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 24 24"><path d="M9.5 3A6.5 6.5 0 0 1 16 9.5c0 1.61-.59 3.09-1.56 4.23l.27.27h.79l5 5-1.5 1.5-5-5v-.79l-.27-.27A6.516 6.516 0 0 1 9.5 16 6.5 6.5 0 0 1 3 9.5 6.5 6.5 0 0 1 9.5 3m0 2C7 5 5 7 5 9.5S7 14 9.5 14 14 12 14 9.5 12 5 9.5 5Z"/></svg>
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|
||||
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 24 24"><path d="M20 11v2H8l5.5 5.5-1.42 1.42L4.16 12l7.92-7.92L13.5 5.5 8 11h12Z"/></svg>
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<button type="reset" class="md-search__icon md-icon" title="Clear" aria-label="Clear" tabindex="-1">
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<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 24 24"><path d="M19 6.41 17.59 5 12 10.59 6.41 5 5 6.41 10.59 12 5 17.59 6.41 19 12 13.41 17.59 19 19 17.59 13.41 12 19 6.41Z"/></svg>
|
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</button>
|
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</nav>
|
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</form>
|
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<div class="md-search__output">
|
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<div class="md-search__scrollwrap" tabindex="0" data-md-scrollfix>
|
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<div class="md-search-result" data-md-component="search-result">
|
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<div class="md-search-result__meta">
|
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Initializing search
|
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|
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<ol class="md-search-result__list" role="presentation"></ol>
|
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|
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</div>
|
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|
||||
</div>
|
||||
</div>
|
||||
|
||||
|
||||
<div class="md-header__source">
|
||||
<a href="https://github.com/OmooLab/BioxelNodes" title="Go to repository" class="md-source" data-md-component="source">
|
||||
<div class="md-source__icon md-icon">
|
||||
|
||||
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 448 512"><!--! Font Awesome Free 6.6.0 by @fontawesome - https://fontawesome.com License - https://fontawesome.com/license/free (Icons: CC BY 4.0, Fonts: SIL OFL 1.1, Code: MIT License) Copyright 2024 Fonticons, Inc.--><path d="M439.55 236.05 244 40.45a28.87 28.87 0 0 0-40.81 0l-40.66 40.63 51.52 51.52c27.06-9.14 52.68 16.77 43.39 43.68l49.66 49.66c34.23-11.8 61.18 31 35.47 56.69-26.49 26.49-70.21-2.87-56-37.34L240.22 199v121.85c25.3 12.54 22.26 41.85 9.08 55a34.34 34.34 0 0 1-48.55 0c-17.57-17.6-11.07-46.91 11.25-56v-123c-20.8-8.51-24.6-30.74-18.64-45L142.57 101 8.45 235.14a28.86 28.86 0 0 0 0 40.81l195.61 195.6a28.86 28.86 0 0 0 40.8 0l194.69-194.69a28.86 28.86 0 0 0 0-40.81z"/></svg>
|
||||
</div>
|
||||
<div class="md-source__repository">
|
||||
OmooLab/BioxelNodes
|
||||
</div>
|
||||
</a>
|
||||
</div>
|
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|
||||
</nav>
|
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|
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|
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<nav class="md-tabs" aria-label="Tabs" data-md-component="tabs">
|
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|
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|
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|
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<li class="md-tabs__item">
|
||||
<a href="../" class="md-tabs__link">
|
||||
|
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|
||||
|
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|
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Bioxel Nodes
|
||||
|
||||
</a>
|
||||
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|
||||
|
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|
||||
|
||||
|
||||
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|
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<li class="md-tabs__item md-tabs__item--active">
|
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<a href="./" class="md-tabs__link">
|
||||
|
||||
|
||||
|
||||
|
||||
Getting Started
|
||||
|
||||
</a>
|
||||
</li>
|
||||
|
||||
|
||||
|
||||
|
||||
</ul>
|
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</div>
|
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</nav>
|
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|
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</header>
|
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|
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<div class="md-container" data-md-component="container">
|
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|
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|
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|
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|
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<main class="md-main" data-md-component="main">
|
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<div class="md-main__inner md-grid">
|
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|
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|
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|
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<div class="md-sidebar md-sidebar--primary" data-md-component="sidebar" data-md-type="navigation" >
|
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<div class="md-sidebar__scrollwrap">
|
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<div class="md-sidebar__inner">
|
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|
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|
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|
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|
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|
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|
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<nav class="md-nav md-nav--primary md-nav--lifted" aria-label="Navigation" data-md-level="0">
|
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<label class="md-nav__title" for="__drawer">
|
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<a href="../" title="Bioxel Nodes Docs" class="md-nav__button md-logo" aria-label="Bioxel Nodes Docs" data-md-component="logo">
|
||||
|
||||
<img src="../../assets/logo.png" alt="logo">
|
||||
|
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</a>
|
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Bioxel Nodes Docs
|
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</label>
|
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|
||||
<div class="md-nav__source">
|
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<a href="https://github.com/OmooLab/BioxelNodes" title="Go to repository" class="md-source" data-md-component="source">
|
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<div class="md-source__icon md-icon">
|
||||
|
||||
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 448 512"><!--! Font Awesome Free 6.6.0 by @fontawesome - https://fontawesome.com License - https://fontawesome.com/license/free (Icons: CC BY 4.0, Fonts: SIL OFL 1.1, Code: MIT License) Copyright 2024 Fonticons, Inc.--><path d="M439.55 236.05 244 40.45a28.87 28.87 0 0 0-40.81 0l-40.66 40.63 51.52 51.52c27.06-9.14 52.68 16.77 43.39 43.68l49.66 49.66c34.23-11.8 61.18 31 35.47 56.69-26.49 26.49-70.21-2.87-56-37.34L240.22 199v121.85c25.3 12.54 22.26 41.85 9.08 55a34.34 34.34 0 0 1-48.55 0c-17.57-17.6-11.07-46.91 11.25-56v-123c-20.8-8.51-24.6-30.74-18.64-45L142.57 101 8.45 235.14a28.86 28.86 0 0 0 0 40.81l195.61 195.6a28.86 28.86 0 0 0 40.8 0l194.69-194.69a28.86 28.86 0 0 0 0-40.81z"/></svg>
|
||||
</div>
|
||||
<div class="md-source__repository">
|
||||
OmooLab/BioxelNodes
|
||||
</div>
|
||||
</a>
|
||||
</div>
|
||||
|
||||
<ul class="md-nav__list" data-md-scrollfix>
|
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|
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|
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|
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|
||||
|
||||
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||||
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||||
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||||
|
||||
|
||||
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||||
|
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|
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|
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|
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|
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<li class="md-nav__item md-nav__item--nested">
|
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<input class="md-nav__toggle md-toggle " type="checkbox" id="__nav_1" >
|
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<div class="md-nav__link md-nav__container">
|
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<a href="../" class="md-nav__link ">
|
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|
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|
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<span class="md-ellipsis">
|
||||
Bioxel Nodes
|
||||
</span>
|
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|
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|
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</a>
|
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|
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|
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<label class="md-nav__link " for="__nav_1" id="__nav_1_label" tabindex="0">
|
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<span class="md-nav__icon md-icon"></span>
|
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|
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|
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</div>
|
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|
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<nav class="md-nav" data-md-level="1" aria-labelledby="__nav_1_label" aria-expanded="false">
|
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<label class="md-nav__title" for="__nav_1">
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<span class="md-nav__icon md-icon"></span>
|
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Bioxel Nodes
|
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|
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|
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|
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|
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|
||||
<li class="md-nav__item">
|
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<a href="../gallery/" class="md-nav__link">
|
||||
|
||||
|
||||
<span class="md-ellipsis">
|
||||
Gallery
|
||||
</span>
|
||||
|
||||
|
||||
</a>
|
||||
</li>
|
||||
|
||||
|
||||
|
||||
|
||||
</ul>
|
||||
</nav>
|
||||
|
||||
</li>
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
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||||
|
||||
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||||
|
||||
|
||||
|
||||
|
||||
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|
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|
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|
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|
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|
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|
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<li class="md-nav__item md-nav__item--active md-nav__item--section md-nav__item--nested">
|
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|
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<input class="md-nav__toggle md-toggle " type="checkbox" id="__nav_2" checked>
|
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|
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|
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<label class="md-nav__link" for="__nav_2" id="__nav_2_label" tabindex="">
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|
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|
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<span class="md-ellipsis">
|
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Getting Started
|
||||
</span>
|
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|
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|
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<span class="md-nav__icon md-icon"></span>
|
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</label>
|
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|
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<nav class="md-nav" data-md-level="1" aria-labelledby="__nav_2_label" aria-expanded="true">
|
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<label class="md-nav__title" for="__nav_2">
|
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<span class="md-nav__icon md-icon"></span>
|
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Getting Started
|
||||
</label>
|
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<ul class="md-nav__list" data-md-scrollfix>
|
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|
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|
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<li class="md-nav__item md-nav__item--active">
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<input class="md-nav__toggle md-toggle" type="checkbox" id="__toc">
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|
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|
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|
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<label class="md-nav__link md-nav__link--active" for="__toc">
|
||||
|
||||
|
||||
<span class="md-ellipsis">
|
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Installation
|
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</span>
|
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|
||||
|
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<span class="md-nav__icon md-icon"></span>
|
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</label>
|
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|
||||
<a href="./" class="md-nav__link md-nav__link--active">
|
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|
||||
|
||||
<span class="md-ellipsis">
|
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Installation
|
||||
</span>
|
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|
||||
</a>
|
||||
|
||||
|
||||
|
||||
<nav class="md-nav md-nav--secondary" aria-label="Table of contents">
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<label class="md-nav__title" for="__toc">
|
||||
<span class="md-nav__icon md-icon"></span>
|
||||
Table of contents
|
||||
</label>
|
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<ul class="md-nav__list" data-md-component="toc" data-md-scrollfix>
|
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|
||||
<li class="md-nav__item">
|
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<a href="#blender-preferences-recommended" class="md-nav__link">
|
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<span class="md-ellipsis">
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<h1 id="installation">Installation</h1>
|
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|
||||
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|
||||
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|
||||
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|
||||
<h2 id="blender-preferences-recommended">Blender Preferences (Recommended)</h2>
|
||||
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|
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<h2 id="blender-official-extensions-website">Blender Official Extensions Website</h2>
|
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|
||||
Click Get Add-on, open Blender, drag the add-on into Blender and follow the prompts to install.</p>
|
||||
<h2 id="manual-installation">Manual Installation</h2>
|
||||
<p>You can also download <code>BioxelNodes.{version}.zip</code> from <a href="https://github.com/OmooLab/BioxelNodes/releases/latest">here</a> for manual installation.
|
||||
Click the top menu <strong>Edit > Preferences</strong>, select <strong>Add-ons > Install from Disk</strong>, then choose the Zip file you downloaded.</p>
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843
2.0.x/en/performance/index.html
Executable file
843
2.0.x/en/performance/index.html
Executable file
@@ -0,0 +1,843 @@
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|
||||
</form>
|
||||
|
||||
|
||||
|
||||
<script>var media,input,key,value,palette=__md_get("__palette");if(palette&&palette.color){"(prefers-color-scheme)"===palette.color.media&&(media=matchMedia("(prefers-color-scheme: light)"),input=document.querySelector(media.matches?"[data-md-color-media='(prefers-color-scheme: light)']":"[data-md-color-media='(prefers-color-scheme: dark)']"),palette.color.media=input.getAttribute("data-md-color-media"),palette.color.scheme=input.getAttribute("data-md-color-scheme"),palette.color.primary=input.getAttribute("data-md-color-primary"),palette.color.accent=input.getAttribute("data-md-color-accent"));for([key,value]of Object.entries(palette.color))document.body.setAttribute("data-md-color-"+key,value)}</script>
|
||||
|
||||
|
||||
<div class="md-header__option">
|
||||
<div class="md-select">
|
||||
|
||||
<button class="md-header__button md-icon" aria-label="Select language">
|
||||
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 24 24"><path d="m12.87 15.07-2.54-2.51.03-.03A17.52 17.52 0 0 0 14.07 6H17V4h-7V2H8v2H1v2h11.17C11.5 7.92 10.44 9.75 9 11.35 8.07 10.32 7.3 9.19 6.69 8h-2c.73 1.63 1.73 3.17 2.98 4.56l-5.09 5.02L4 19l5-5 3.11 3.11.76-2.04M18.5 10h-2L12 22h2l1.12-3h4.75L21 22h2l-4.5-12m-2.62 7 1.62-4.33L19.12 17h-3.24Z"/></svg>
|
||||
</button>
|
||||
<div class="md-select__inner">
|
||||
<ul class="md-select__list">
|
||||
|
||||
<li class="md-select__item">
|
||||
<a href="../../performance/" hreflang="zh" class="md-select__link">
|
||||
中文
|
||||
</a>
|
||||
</li>
|
||||
|
||||
<li class="md-select__item">
|
||||
<a href="./" hreflang="en" class="md-select__link">
|
||||
English
|
||||
</a>
|
||||
</li>
|
||||
|
||||
</ul>
|
||||
</div>
|
||||
</div>
|
||||
</div>
|
||||
|
||||
|
||||
<label class="md-header__button md-icon" for="__search">
|
||||
|
||||
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 24 24"><path d="M9.5 3A6.5 6.5 0 0 1 16 9.5c0 1.61-.59 3.09-1.56 4.23l.27.27h.79l5 5-1.5 1.5-5-5v-.79l-.27-.27A6.516 6.516 0 0 1 9.5 16 6.5 6.5 0 0 1 3 9.5 6.5 6.5 0 0 1 9.5 3m0 2C7 5 5 7 5 9.5S7 14 9.5 14 14 12 14 9.5 12 5 9.5 5Z"/></svg>
|
||||
</label>
|
||||
<div class="md-search" data-md-component="search" role="dialog">
|
||||
<label class="md-search__overlay" for="__search"></label>
|
||||
<div class="md-search__inner" role="search">
|
||||
<form class="md-search__form" name="search">
|
||||
<input type="text" class="md-search__input" name="query" aria-label="Search" placeholder="Search" autocapitalize="off" autocorrect="off" autocomplete="off" spellcheck="false" data-md-component="search-query" required>
|
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<label class="md-search__icon md-icon" for="__search">
|
||||
|
||||
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 24 24"><path d="M9.5 3A6.5 6.5 0 0 1 16 9.5c0 1.61-.59 3.09-1.56 4.23l.27.27h.79l5 5-1.5 1.5-5-5v-.79l-.27-.27A6.516 6.516 0 0 1 9.5 16 6.5 6.5 0 0 1 3 9.5 6.5 6.5 0 0 1 9.5 3m0 2C7 5 5 7 5 9.5S7 14 9.5 14 14 12 14 9.5 12 5 9.5 5Z"/></svg>
|
||||
|
||||
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 24 24"><path d="M20 11v2H8l5.5 5.5-1.42 1.42L4.16 12l7.92-7.92L13.5 5.5 8 11h12Z"/></svg>
|
||||
</label>
|
||||
<nav class="md-search__options" aria-label="Search">
|
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|
||||
<button type="reset" class="md-search__icon md-icon" title="Clear" aria-label="Clear" tabindex="-1">
|
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|
||||
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 24 24"><path d="M19 6.41 17.59 5 12 10.59 6.41 5 5 6.41 10.59 12 5 17.59 6.41 19 12 13.41 17.59 19 19 17.59 13.41 12 19 6.41Z"/></svg>
|
||||
</button>
|
||||
</nav>
|
||||
|
||||
</form>
|
||||
<div class="md-search__output">
|
||||
<div class="md-search__scrollwrap" tabindex="0" data-md-scrollfix>
|
||||
<div class="md-search-result" data-md-component="search-result">
|
||||
<div class="md-search-result__meta">
|
||||
Initializing search
|
||||
</div>
|
||||
<ol class="md-search-result__list" role="presentation"></ol>
|
||||
</div>
|
||||
</div>
|
||||
</div>
|
||||
</div>
|
||||
</div>
|
||||
|
||||
|
||||
<div class="md-header__source">
|
||||
<a href="https://github.com/OmooLab/BioxelNodes" title="Go to repository" class="md-source" data-md-component="source">
|
||||
<div class="md-source__icon md-icon">
|
||||
|
||||
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 448 512"><!--! Font Awesome Free 6.6.0 by @fontawesome - https://fontawesome.com License - https://fontawesome.com/license/free (Icons: CC BY 4.0, Fonts: SIL OFL 1.1, Code: MIT License) Copyright 2024 Fonticons, Inc.--><path d="M439.55 236.05 244 40.45a28.87 28.87 0 0 0-40.81 0l-40.66 40.63 51.52 51.52c27.06-9.14 52.68 16.77 43.39 43.68l49.66 49.66c34.23-11.8 61.18 31 35.47 56.69-26.49 26.49-70.21-2.87-56-37.34L240.22 199v121.85c25.3 12.54 22.26 41.85 9.08 55a34.34 34.34 0 0 1-48.55 0c-17.57-17.6-11.07-46.91 11.25-56v-123c-20.8-8.51-24.6-30.74-18.64-45L142.57 101 8.45 235.14a28.86 28.86 0 0 0 0 40.81l195.61 195.6a28.86 28.86 0 0 0 40.8 0l194.69-194.69a28.86 28.86 0 0 0 0-40.81z"/></svg>
|
||||
</div>
|
||||
<div class="md-source__repository">
|
||||
OmooLab/BioxelNodes
|
||||
</div>
|
||||
</a>
|
||||
</div>
|
||||
|
||||
</nav>
|
||||
|
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|
||||
|
||||
<nav class="md-tabs" aria-label="Tabs" data-md-component="tabs">
|
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<div class="md-grid">
|
||||
<ul class="md-tabs__list">
|
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|
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|
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|
||||
|
||||
|
||||
|
||||
|
||||
<li class="md-tabs__item">
|
||||
<a href="../" class="md-tabs__link">
|
||||
|
||||
|
||||
|
||||
|
||||
Bioxel Nodes
|
||||
|
||||
</a>
|
||||
</li>
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
<li class="md-tabs__item md-tabs__item--active">
|
||||
<a href="../installation/" class="md-tabs__link">
|
||||
|
||||
|
||||
|
||||
|
||||
Getting Started
|
||||
|
||||
</a>
|
||||
</li>
|
||||
|
||||
|
||||
|
||||
|
||||
</ul>
|
||||
</div>
|
||||
</nav>
|
||||
|
||||
|
||||
</header>
|
||||
|
||||
<div class="md-container" data-md-component="container">
|
||||
|
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|
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|
||||
|
||||
<main class="md-main" data-md-component="main">
|
||||
<div class="md-main__inner md-grid">
|
||||
|
||||
|
||||
|
||||
<div class="md-sidebar md-sidebar--primary" data-md-component="sidebar" data-md-type="navigation" >
|
||||
<div class="md-sidebar__scrollwrap">
|
||||
<div class="md-sidebar__inner">
|
||||
|
||||
|
||||
|
||||
|
||||
|
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|
||||
<nav class="md-nav md-nav--primary md-nav--lifted" aria-label="Navigation" data-md-level="0">
|
||||
<label class="md-nav__title" for="__drawer">
|
||||
<a href="../" title="Bioxel Nodes Docs" class="md-nav__button md-logo" aria-label="Bioxel Nodes Docs" data-md-component="logo">
|
||||
|
||||
<img src="../../assets/logo.png" alt="logo">
|
||||
|
||||
</a>
|
||||
Bioxel Nodes Docs
|
||||
</label>
|
||||
|
||||
<div class="md-nav__source">
|
||||
<a href="https://github.com/OmooLab/BioxelNodes" title="Go to repository" class="md-source" data-md-component="source">
|
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<div class="md-source__icon md-icon">
|
||||
|
||||
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 448 512"><!--! Font Awesome Free 6.6.0 by @fontawesome - https://fontawesome.com License - https://fontawesome.com/license/free (Icons: CC BY 4.0, Fonts: SIL OFL 1.1, Code: MIT License) Copyright 2024 Fonticons, Inc.--><path d="M439.55 236.05 244 40.45a28.87 28.87 0 0 0-40.81 0l-40.66 40.63 51.52 51.52c27.06-9.14 52.68 16.77 43.39 43.68l49.66 49.66c34.23-11.8 61.18 31 35.47 56.69-26.49 26.49-70.21-2.87-56-37.34L240.22 199v121.85c25.3 12.54 22.26 41.85 9.08 55a34.34 34.34 0 0 1-48.55 0c-17.57-17.6-11.07-46.91 11.25-56v-123c-20.8-8.51-24.6-30.74-18.64-45L142.57 101 8.45 235.14a28.86 28.86 0 0 0 0 40.81l195.61 195.6a28.86 28.86 0 0 0 40.8 0l194.69-194.69a28.86 28.86 0 0 0 0-40.81z"/></svg>
|
||||
</div>
|
||||
<div class="md-source__repository">
|
||||
OmooLab/BioxelNodes
|
||||
</div>
|
||||
</a>
|
||||
</div>
|
||||
|
||||
<ul class="md-nav__list" data-md-scrollfix>
|
||||
|
||||
|
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|
||||
|
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|
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|
||||
|
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|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
<li class="md-nav__item md-nav__item--nested">
|
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|
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|
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|
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<input class="md-nav__toggle md-toggle " type="checkbox" id="__nav_1" >
|
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|
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|
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<div class="md-nav__link md-nav__container">
|
||||
<a href="../" class="md-nav__link ">
|
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|
||||
|
||||
<span class="md-ellipsis">
|
||||
Bioxel Nodes
|
||||
</span>
|
||||
|
||||
|
||||
</a>
|
||||
|
||||
|
||||
<label class="md-nav__link " for="__nav_1" id="__nav_1_label" tabindex="0">
|
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<span class="md-nav__icon md-icon"></span>
|
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</label>
|
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|
||||
</div>
|
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|
||||
<nav class="md-nav" data-md-level="1" aria-labelledby="__nav_1_label" aria-expanded="false">
|
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<label class="md-nav__title" for="__nav_1">
|
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<span class="md-nav__icon md-icon"></span>
|
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Bioxel Nodes
|
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</label>
|
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<ul class="md-nav__list" data-md-scrollfix>
|
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|
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|
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|
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|
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|
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|
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|
||||
|
||||
|
||||
<li class="md-nav__item">
|
||||
<a href="../gallery/" class="md-nav__link">
|
||||
|
||||
|
||||
<span class="md-ellipsis">
|
||||
Gallery
|
||||
</span>
|
||||
|
||||
|
||||
</a>
|
||||
</li>
|
||||
|
||||
|
||||
|
||||
|
||||
</ul>
|
||||
</nav>
|
||||
|
||||
</li>
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
<li class="md-nav__item md-nav__item--active md-nav__item--section md-nav__item--nested">
|
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|
||||
|
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|
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<input class="md-nav__toggle md-toggle " type="checkbox" id="__nav_2" checked>
|
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|
||||
|
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<label class="md-nav__link" for="__nav_2" id="__nav_2_label" tabindex="">
|
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|
||||
|
||||
<span class="md-ellipsis">
|
||||
Getting Started
|
||||
</span>
|
||||
|
||||
|
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<span class="md-nav__icon md-icon"></span>
|
||||
</label>
|
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|
||||
<nav class="md-nav" data-md-level="1" aria-labelledby="__nav_2_label" aria-expanded="true">
|
||||
<label class="md-nav__title" for="__nav_2">
|
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<span class="md-nav__icon md-icon"></span>
|
||||
Getting Started
|
||||
</label>
|
||||
<ul class="md-nav__list" data-md-scrollfix>
|
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|
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|
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|
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|
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|
||||
<li class="md-nav__item">
|
||||
<a href="../installation/" class="md-nav__link">
|
||||
|
||||
|
||||
<span class="md-ellipsis">
|
||||
Installation
|
||||
</span>
|
||||
|
||||
|
||||
</a>
|
||||
</li>
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
<li class="md-nav__item">
|
||||
<a href="../basics/" class="md-nav__link">
|
||||
|
||||
|
||||
<span class="md-ellipsis">
|
||||
Bacsic Usage
|
||||
</span>
|
||||
|
||||
|
||||
</a>
|
||||
</li>
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
<li class="md-nav__item">
|
||||
<a href="../advanced/" class="md-nav__link">
|
||||
|
||||
|
||||
<span class="md-ellipsis">
|
||||
Advanced Usage
|
||||
</span>
|
||||
|
||||
|
||||
</a>
|
||||
</li>
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
<li class="md-nav__item">
|
||||
<a href="../dataset/" class="md-nav__link">
|
||||
|
||||
|
||||
<span class="md-ellipsis">
|
||||
Support Format
|
||||
</span>
|
||||
|
||||
|
||||
</a>
|
||||
</li>
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
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|
||||
<li class="md-nav__item md-nav__item--active">
|
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|
||||
<input class="md-nav__toggle md-toggle" type="checkbox" id="__toc">
|
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|
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|
||||
|
||||
|
||||
|
||||
<label class="md-nav__link md-nav__link--active" for="__toc">
|
||||
|
||||
|
||||
<span class="md-ellipsis">
|
||||
Improve Performance
|
||||
</span>
|
||||
|
||||
|
||||
<span class="md-nav__icon md-icon"></span>
|
||||
</label>
|
||||
|
||||
<a href="./" class="md-nav__link md-nav__link--active">
|
||||
|
||||
|
||||
<span class="md-ellipsis">
|
||||
Improve Performance
|
||||
</span>
|
||||
|
||||
|
||||
</a>
|
||||
|
||||
|
||||
|
||||
<nav class="md-nav md-nav--secondary" aria-label="Table of contents">
|
||||
|
||||
|
||||
|
||||
|
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|
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|
||||
<label class="md-nav__title" for="__toc">
|
||||
<span class="md-nav__icon md-icon"></span>
|
||||
Table of contents
|
||||
</label>
|
||||
<ul class="md-nav__list" data-md-component="toc" data-md-scrollfix>
|
||||
|
||||
<li class="md-nav__item">
|
||||
<a href="#use-low-resolution-data-as-preview" class="md-nav__link">
|
||||
<span class="md-ellipsis">
|
||||
Use Low-Resolution Data as Preview
|
||||
</span>
|
||||
</a>
|
||||
|
||||
</li>
|
||||
|
||||
<li class="md-nav__item">
|
||||
<a href="#balanced-rendering-settings" class="md-nav__link">
|
||||
<span class="md-ellipsis">
|
||||
Balanced Rendering Settings
|
||||
</span>
|
||||
</a>
|
||||
|
||||
</li>
|
||||
|
||||
<li class="md-nav__item">
|
||||
<a href="#rendering-with-eevee" class="md-nav__link">
|
||||
<span class="md-ellipsis">
|
||||
Rendering with EEVEE
|
||||
</span>
|
||||
</a>
|
||||
|
||||
</li>
|
||||
|
||||
</ul>
|
||||
|
||||
</nav>
|
||||
|
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</li>
|
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|
||||
|
||||
|
||||
|
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</ul>
|
||||
</nav>
|
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|
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</li>
|
||||
|
||||
|
||||
|
||||
</ul>
|
||||
</nav>
|
||||
</div>
|
||||
</div>
|
||||
</div>
|
||||
|
||||
|
||||
|
||||
<div class="md-sidebar md-sidebar--secondary" data-md-component="sidebar" data-md-type="toc" >
|
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<div class="md-sidebar__scrollwrap">
|
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<div class="md-sidebar__inner">
|
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|
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|
||||
<nav class="md-nav md-nav--secondary" aria-label="Table of contents">
|
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|
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|
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|
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|
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|
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|
||||
<label class="md-nav__title" for="__toc">
|
||||
<span class="md-nav__icon md-icon"></span>
|
||||
Table of contents
|
||||
</label>
|
||||
<ul class="md-nav__list" data-md-component="toc" data-md-scrollfix>
|
||||
|
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Use Low-Resolution Data as Preview
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<span class="md-ellipsis">
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Balanced Rendering Settings
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Rendering with EEVEE
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||||
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||||
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||||
<h1 id="improve-performance">Improve Performance</h1>
|
||||
<p>Voxel reconstruction and voxel rendering are very computation-intensive. Here are some tips to improve the add-on's performance.</p>
|
||||
<h2 id="use-low-resolution-data-as-preview">Use Low-Resolution Data as Preview</h2>
|
||||
<p>The resolution of voxels geometrically affects computational efficiency. Enabling Resample on O Layer can greatly improve calculation speed. You can uncheck it when you need to render for real. The Layer Nodes panel in the Bioxel Nodes tab lists all O Layers added in the current geometry nodes. You can uniformly manage whether Resample is enabled and the degree of resampling.</p>
|
||||
<h2 id="balanced-rendering-settings">Balanced Rendering Settings</h2>
|
||||
<p>I list some settings that have the greatest impact on volume rendering, so you can find the most suitable balance for your needs.</p>
|
||||
<ul>
|
||||
<li>
|
||||
<p><strong>Light Paths > Max Bounces > Volume</strong> affects the number of bounces for volume data. The higher the value, the more transparent the volume data appears.</p>
|
||||
</li>
|
||||
<li>
|
||||
<p><strong>Light Paths > Max Bounces > Transparent</strong> affects the number of times transparent surfaces are transmitted. The higher the value, the more transparent the transparent surfaces appear.</p>
|
||||
</li>
|
||||
<li>
|
||||
<p><strong>Volumes > Step Rate Render | Viewport</strong> affects the step size of volume rendering. The smaller the value, the more detailed the volume data appears.</p>
|
||||
</li>
|
||||
</ul>
|
||||
<p>Bioxel Nodes provides some render setting presets for quick configuration. Click the top menu <strong>Bioxel Nodes > Render Setting Presets</strong>, including Performance (left), Balance (center), and Quality (right). Here is a comparison:</p>
|
||||
<p><img alt="alt text" src="../../assets/render-performance.png" /></p>
|
||||
<h2 id="rendering-with-eevee">Rendering with EEVEE</h2>
|
||||
<p>EEVEE doesn't render volume as well as Cycles, but it does have the advantage of rendering volumetric data. If you want to get a clear slice view, it is even a better choice. EEVEE's real-time rendering makes it possible to create interactive content in Blender.</p>
|
||||
|
||||
|
||||
|
||||
|
||||
|
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|
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|
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