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Pull request #600: Fixed a bug in TM-align and updated Python scripts.
Merge in STRUC/icn3d from release3261 to master * commit 'c2ae58b4035e314e0dbb985d98bfd16d79817bd5': Fixed a bug in TM-align and updated Python scripts.
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‎CHANGELOG.md‎

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## Change Log
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[icn3d-3.26.0](https://www.ncbi.nlm.nih.gov/Structure/icn3d/icn3d-3.25.4.zip) was release on June 20, 2023. Added the feature to run ESMFold on the fly via the menu "File > AlphaFold/ESM > ESMFold" in iCn3D.
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[icn3d-3.26.1](https://www.ncbi.nlm.nih.gov/Structure/icn3d/icn3d-3.26.1.zip) was release on July 10, 2023. Fixed a bug in TM-align and updated Python scripts.
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[icn3d-3.25.4](https://www.ncbi.nlm.nih.gov/Structure/icn3d/icn3d-3.25.4.zip) was release on June 15, 2023. Fixed the extra side chains of disulfide bonds when the disulfide bonds are not showing; fixed the extra tracks in Seqeunces & Annotations window.
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[icn3d-3.26.0](https://www.ncbi.nlm.nih.gov/Structure/icn3d/icn3d-3.26.0.zip) was release on June 20, 2023. Added the feature to run ESMFold on the fly via the menu "File > AlphaFold/ESM > ESMFold" in iCn3D.
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[icn3d-3.25.4](https://www.ncbi.nlm.nih.gov/Structure/icn3d/icn3d-3.25.4.zip) was release on June 15, 2023. Fixed the extra side chains of disulfide bonds when the disulfide bonds are not showing; fixed the extra tracks in Sequences & Annotations window.
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[icn3d-3.25.3](https://www.ncbi.nlm.nih.gov/Structure/icn3d/icn3d-3.25.3.zip) was release on May 24, 2023. Fixed a bug in Node.js scripts about retrieving data from Ajax calls.
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[icn3d-3.12.1](https://www.ncbi.nlm.nih.gov/Structure/icn3d/icn3d-3.12.1.zip) was release on June 8, 2022. Fixed the bug about exporting iCn3D PNG Image.
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[icn3d-3.12.0](https://www.ncbi.nlm.nih.gov/Structure/icn3d/icn3d-3.12.0.zip) was release on June 6, 2022. Users now can have Virtual Reality (VR) view on any iCn3D display; enabled to view multiple seqeunce alignment (MSA) instead of pairwise alignment; changed the tools in toolbar from buttons to icons; switched to WegGL2 from WebGL1.
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[icn3d-3.12.0](https://www.ncbi.nlm.nih.gov/Structure/icn3d/icn3d-3.12.0.zip) was release on June 6, 2022. Users now can have Virtual Reality (VR) view on any iCn3D display; enabled to view multiple sequence alignment (MSA) instead of pairwise alignment; changed the tools in toolbar from buttons to icons; switched to WegGL2 from WebGL1.
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[icn3d-3.11.8](https://www.ncbi.nlm.nih.gov/Structure/icn3d/icn3d-3.11.8.zip) was release on May 20, 2022. Enabled to import "icn3d.css" and "three.module.js" from npm icn3d to work with React.
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‎README.md‎

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## About iCn3D
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"I see in 3D" (iCn3D) Structure Viewer is not only a web-based 3D viewer, but also a structure analysis tool interactively or in the batch mode using NodeJS scripts based on the npm package icn3d. iCn3D synchronizes the display of 3D structure, 2D interaction, and 1D sequences and annotations. Users' custom display can be saved in a short URL or a PNG image. <b>The complete package of iCn3D</b> including Three.js and jQuery is in the directory "dist" after you get the source code with the "Code" button.
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"I see in 3D" (iCn3D) Structure Viewer is not only a web-based 3D viewer, but also a structure analysis tool interactively or in the batch mode using NodeJS scripts based on the npm package icn3d. iCn3D synchronizes the display of 3D structure, 2D interaction, and 1D sequences and annotations. Users' custom display can be saved in a short URL or a PNG image. <b>The complete package of iCn3D</b> including Three.js and jQuery is in the directory "dist" after you get the source code with the "Code" button. You can click the file "index.html" in the "dist" directory to launch a local version of iCn3D.
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* <b>View a 3D structure in iCn3D</b>:
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Open the link [https://structure.ncbi.nlm.nih.gov/icn3d](https://structure.ncbi.nlm.nih.gov/icn3d), input a PDB ID, and click "Load". You can also click "File" menu to "Open File" or input other IDs.
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‎build/icn3d.js‎

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‎build/icn3d.min.js‎

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‎build/icn3d.module.js‎

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‎dist/CHANGELOG.md‎

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## Change Log
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[icn3d-3.26.0](https://www.ncbi.nlm.nih.gov/Structure/icn3d/icn3d-3.25.4.zip) was release on June 20, 2023. Added the feature to run ESMFold on the fly via the menu "File > AlphaFold/ESM > ESMFold" in iCn3D.
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[icn3d-3.26.1](https://www.ncbi.nlm.nih.gov/Structure/icn3d/icn3d-3.26.1.zip) was release on July 10, 2023. Fixed a bug in TM-align.
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[icn3d-3.25.4](https://www.ncbi.nlm.nih.gov/Structure/icn3d/icn3d-3.25.4.zip) was release on June 15, 2023. Fixed the extra side chains of disulfide bonds when the disulfide bonds are not showing; fixed the extra tracks in Seqeunces & Annotations window.
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[icn3d-3.26.0](https://www.ncbi.nlm.nih.gov/Structure/icn3d/icn3d-3.26.0.zip) was release on June 20, 2023. Added the feature to run ESMFold on the fly via the menu "File > AlphaFold/ESM > ESMFold" in iCn3D.
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[icn3d-3.25.4](https://www.ncbi.nlm.nih.gov/Structure/icn3d/icn3d-3.25.4.zip) was release on June 15, 2023. Fixed the extra side chains of disulfide bonds when the disulfide bonds are not showing; fixed the extra tracks in Sequences & Annotations window.
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[icn3d-3.25.3](https://www.ncbi.nlm.nih.gov/Structure/icn3d/icn3d-3.25.3.zip) was release on May 24, 2023. Fixed a bug in Node.js scripts about retrieving data from Ajax calls.
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[icn3d-3.12.1](https://www.ncbi.nlm.nih.gov/Structure/icn3d/icn3d-3.12.1.zip) was release on June 8, 2022. Fixed the bug about exporting iCn3D PNG Image.
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[icn3d-3.12.0](https://www.ncbi.nlm.nih.gov/Structure/icn3d/icn3d-3.12.0.zip) was release on June 6, 2022. Users now can have Virtual Reality (VR) view on any iCn3D display; enabled to view multiple seqeunce alignment (MSA) instead of pairwise alignment; changed the tools in toolbar from buttons to icons; switched to WegGL2 from WebGL1.
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[icn3d-3.12.0](https://www.ncbi.nlm.nih.gov/Structure/icn3d/icn3d-3.12.0.zip) was release on June 6, 2022. Users now can have Virtual Reality (VR) view on any iCn3D display; enabled to view multiple sequence alignment (MSA) instead of pairwise alignment; changed the tools in toolbar from buttons to icons; switched to WegGL2 from WebGL1.
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[icn3d-3.11.8](https://www.ncbi.nlm.nih.gov/Structure/icn3d/icn3d-3.11.8.zip) was release on May 20, 2022. Enabled to import "icn3d.css" and "three.module.js" from npm icn3d to work with React.
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‎dist/README.md‎

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## About iCn3D
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"I see in 3D" (iCn3D) Structure Viewer is not only a web-based 3D viewer, but also a structure analysis tool interactively or in the batch mode using NodeJS scripts based on the npm package icn3d. iCn3D synchronizes the display of 3D structure, 2D interaction, and 1D sequences and annotations. Users' custom display can be saved in a short URL or a PNG image. <b>The complete package of iCn3D</b> including Three.js and jQuery is in the directory "dist" after you get the source code with the "Code" button.
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"I see in 3D" (iCn3D) Structure Viewer is not only a web-based 3D viewer, but also a structure analysis tool interactively or in the batch mode using NodeJS scripts based on the npm package icn3d. iCn3D synchronizes the display of 3D structure, 2D interaction, and 1D sequences and annotations. Users' custom display can be saved in a short URL or a PNG image. <b>The complete package of iCn3D</b> including Three.js and jQuery is in the directory "dist" after you get the source code with the "Code" button. You can click the file "index.html" in the "dist" directory to launch a local version of iCn3D.
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* <b>View a 3D structure in iCn3D</b>:
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Open the link [https://structure.ncbi.nlm.nih.gov/icn3d](https://structure.ncbi.nlm.nih.gov/icn3d), input a PDB ID, and click "Load". You can also click "File" menu to "Open File" or input other IDs.
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‎dist/full.html‎

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<div id="div0"></div>
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<link rel="stylesheet" href="lib/jquery-ui-1.13.2.min.css">
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<link rel="stylesheet" href="icn3d_3.26.0.css">
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<link rel="stylesheet" href="icn3d_3.26.1.css">
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<script src="lib/jquery-3.5.0.min.js"></script>
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<script src="lib/jquery-ui-1.13.2.min.js"></script>
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<script src="lib/three_0.137.0.min.js"></script>
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<script src="icn3d_3.26.0.min.js"></script>
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<script src="icn3d_3.26.1.min.js"></script>
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<script type="text/javascript">
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alert("IE does NOT work with the current iCn3D version 3. The old iCn3D version 2 is used instead.");
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}
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else {
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//$.getScript('icn3d_3.26.0.min.js', function() {
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//$.getScript('icn3d_3.26.1.min.js', function() {
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var version = 3;
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await launchIcn3d(version); //await
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//});

‎dist/full2.html‎

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<div id="div1" style="float:left;"></div>
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<link rel="stylesheet" href="lib/jquery-ui-1.13.2.min.css">
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<link rel="stylesheet" href="icn3d_3.26.1.css">
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<script src="lib/jquery-3.5.0.min.js"></script>
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<script src="lib/jquery-ui-1.13.2.min.js"></script>
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<script src="lib/three_0.137.0.min.js"></script>
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<script src="icn3d_3.26.1.min.js"></script>
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<script type="text/javascript">
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alert("IE does NOT work with the current iCn3D version 3. The old iCn3D version 2 is used instead.");
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}
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//$.getScript('icn3d_3.26.0.min.js', function() {
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//$.getScript('icn3d_3.26.1.min.js', function() {
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var version = 3;
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await launchIcn3d(version);
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//});

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<div id="div1" style="float:left;"></div>
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<link rel="stylesheet" href="lib/jquery-ui-1.13.2.min.css">
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<link rel="stylesheet" href="icn3d_3.26.0.css">
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<link rel="stylesheet" href="icn3d_3.26.1.css">
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<script src="lib/jquery-3.5.0.min.js"></script>
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<script src="lib/jquery-ui-1.13.2.min.js"></script>
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<script src="lib/three_0.137.0.min.js"></script>
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alert("IE does NOT work with the current iCn3D version 3. The old iCn3D version 2 is used instead.");
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}
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//$.getScript('icn3d_3.26.0.min.js', function() {
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//$.getScript('icn3d_3.26.1.min.js', function() {
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var version = 3;
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await launchIcn3d(version);
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//});

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