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<meta name="created" content="2014-04-23T11:12:41-04:00" />
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<div class="search"><form method="get" action="/gquery/"><div class="search_form"><label for="database" class="offscreen_noflow">Search database</label><select id="database"><optgroup label="Recent"><option value="gquery" selected="selected">All Databases</option><option value="books">Books</option><option value="nuccore">Nucleotide</option><option value="snp" class="last">SNP</option></optgroup><optgroup label="All"><option value="gquery">All Databases</option><option value="assembly">Assembly</option><option value="biocollections">Biocollections</option><option value="bioproject">BioProject</option><option value="biosample">BioSample</option><option value="books">Books</option><option value="clinvar">ClinVar</option><option value="cdd">Conserved Domains</option><option value="gap">dbGaP</option><option value="dbvar">dbVar</option><option value="gene">Gene</option><option value="genome">Genome</option><option value="gds">GEO DataSets</option><option value="geoprofiles">GEO Profiles</option><option value="gtr">GTR</option><option value="ipg">Identical Protein Groups</option><option value="medgen">MedGen</option><option value="mesh">MeSH</option><option value="nlmcatalog">NLM Catalog</option><option value="nuccore">Nucleotide</option><option value="omim">OMIM</option><option value="pmc">PMC</option><option value="protein">Protein</option><option value="proteinclusters">Protein Clusters</option><option value="protfam">Protein Family Models</option><option value="pcassay">PubChem BioAssay</option><option value="pccompound">PubChem Compound</option><option value="pcsubstance">PubChem Substance</option><option value="pubmed">PubMed</option><option value="snp">SNP</option><option value="sra">SRA</option><option value="structure">Structure</option><option value="taxonomy">Taxonomy</option><option value="toolkit">ToolKit</option><option value="toolkitall">ToolKitAll</option><option value="toolkitbookgh">ToolKitBookgh</option></optgroup></select><div class="nowrap"><label for="term" class="offscreen_noflow" accesskey="/">Search term</label><div class="nowrap"><input type="text" name="term" id="term" title="Search All Databases" value="" class="jig-ncbiclearbutton jig-ncbiautocomplete" data-jigconfig="isEnabled:false,disableUrl:'NcbiSearchBarAutoComplCtrl'" autocomplete="off" data-sbconfig="ds:'no',pjs:'no',afs:'yes'" /></div><button id="search" type="submit" class="button_search nowrap" cmd="go">Search</button></div></div></form></div>
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<h1>Release Notes for Tree Viewer 1.19.0 (January 12, 2021)</h1>
<h2>Bug Fixes</h2>
<ul>
<li>Updated to use SC-25</li>
<li>Removed the NCBI Tree Use Survey</li>
<li>Fixed a bug in creating a Link to View URL</li>
<li>Additional minor bug fixes</li>
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<h1>Release Notes for Tree Viewer 1.18.0 (September 8, 2020)</h1>
<h2>Bug Fixes</h2>
<ul>
<li>Corrected the help link in the Edit Labels dialog</li>
<li>Fixed a bug in the overview rectangle location</li>
<li>Additional minor bug fixes</li>
</ul>
<h1>Release Notes for Tree Viewer 1.17.6 (April 6, 2020)</h1>
<h2>New Features and Improvements</h2>
<ul>
<li>Updated to ExtJS v.7.1</li>
<li>Improvements in continuous deployment processes</li>
</ul>
<h2>Bug Fixes</h2>
<ul>
<li>Minor bug fixes</li>
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<h1>Release Notes for Tree Viewer 1.17 (October 24, 2017)</h1>
<h2>New Features and Improvements</h2>
<ul>
<li>Improved sub-tree navigation to help BLAST users find parents of collapsed sub-trees</li>
<li>Improved basic navigation to be able to zoom into area</li>
<li>Rendering: added more space between leaves and collapsed nodes for longest branches</li>
</ul>
<h2>Bug Fixes</h2>
<ul>
<li>Fixed bugs related to ExtJS 6.5.0</li>
<li>Fixed tooltips issues when Tree Viewer is embedded not at the top of a page</li>
</ul>
<h1>Release Notes for Tree Viewer 1.16 (July 5, 2017)</h1>
<h2>
New Features and Improvements</h2>
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<li>
Switched to use Ext JS 6.5.0</li>
<li>
Basic navigation: added marquee selection to zoom into an area</li>
<li>
Sub-tree leafs navigation: added showing closest visible parent for a leaf node inside collapsed node</li>
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<h2>
Bug Fixes</h2>
<ul>
<li>
Fixed tree not loading when referred by URL parameter</li>
<li>
Fixed spacing between labels and leaves /collapsed leaves with longest distances</li>
<li>
Fixed tooltips position for embedded Tree Viewer</li>
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Fixed the link to Tree Viewer welcome page</li>
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<h1>
Release Notes for Tree Viewer 1.15 (May 25, 2017)</h1>
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New Features and Improvements</h2>
<ul>
<li>
<a href="/tools/treeviewer/embeddingapi/#baseparameters">New API parameter</a> to set leaf node size</li>
<li>
Collapsed subtree rendering improved made more visible</li>
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<h2>
Bug Fixes</h2>
<ul>
<li>
Fixed problem with circular rendering of collapsed branches</li>
<li>
Fixed issue with non-working Feeadback dialog</li>
</ul>
<h1>
Release Notes for Tree Viewer 1.14 (April 17, 2017)</h1>
<h2>
New Features and Improvements</h2>
<ul>
<li>
Improved sub-tree expand-collapse to highlight the reference node</li>
<li>
Implemented zoom in function by mouse double click</li>
</ul>
<h2>
Bug Fixes</h2>
<ul>
<li>
Fixed crash on back-end trying to render images larger than maximum size</li>
<li>
Fixed overview loss on some pages</li>
<li>
Fixed bug for re-rooting subtrees at midpoint</li>
<li>
Fixed issues with macro API not returning results for some queries</li>
<li>
Fixed some IE related issues</li>
<li>
Fixed issues with clear re-routing does not return back to midpoint root</li>
<li>
Fixed issues in SetSize macro function</li>
</ul>
<h1>
Release Notes for Tree Viewer 1.13 (March 06, 2017)</h1>
<h2>
New Features and Improvements</h2>
<ul>
<li>
New feature: <a href="/tools/treeviewer/tutorial-search/">search in trees</a></li>
<li>
Display layout Circular can use distances in rendering</li>
<li>
Improved automatic subtree collapse API</li>
<li>
Tool bar now implements a new button to quickly zoom to the active selection</li>
</ul>
<h2>
Bug Fixes</h2>
<ul>
<li>
Fixed issue with selection when user clicks on root node</li>
<li>
Fixed issue with certain requests causing back-end crash</li>
<li>
Fixed conflicts between macro based coloring and selection</li>
<li>
Fixed bugs in implementation of Overview mode on some browsers</li>
</ul>
<h1>
Release Notes for Tree Viewer 1.12 (February 1, 2017)</h1>
<h2>
New Features and Improvements</h2>
<ul>
<li>
Implemented new API to markup trees</li>
<li>
Improved PDF rendering to reflect labels customization</li>
<li>
Implemented <a href="/tools/treeviewer/macros/">Tree Viewer macro language</a></li>
</ul>
<h2>
Bug Fixes</h2>
<ul>
<li>
Fixed issue with graphic disappearance when clicked on Upload</li>
<li>
Fixed issue with navigation controls stop working after rapid zooming</li>
<li>
Fixed node selection-deselection logic</li>
<li>
Fixed bugs in label rendering (some labels not shown)</li>
</ul>
<h1>
Release Notes for Tree Viewer 1.11 (September 21, 2016)</h1>
<h2>
New Features and Improvements</h2>
<ul>
<li>
Added status bar to better communicate navigational and search information, error messages, scale bar, etc</li>
<li>
New API to support node collapse parameters</li>
<li>
Nexus export now uses the custom labels if it was set by the user</li>
<li>
Improved rendering of overview on large trees to better highlight the landmark topology</li>
<li>
Accessibility improvements of selected nodes</li>
</ul>
<h2>
Bug Fixes</h2>
<ul>
<li>
Addressed issues with potential cross-site scripting security vulnerability</li>
<li>
Fixed image rendering issues in IE</li>
<li>
Fixed labels display in PDF for large trees in rectangular and slanted layouts</li>
</ul>
<h1>
Release Notes for Tree Viewer 1.10 (July 19, 2016)</h1>
<h2>
New Features and Improvements</h2>
<ul>
<li>
Tree Viewer can now <a href="https://youtu.be/Su3ib7P9uoI">visualize large phylogenetic trees</a> up to 100K nodes</li>
<li>
Added functionality to sort the tree</li>
<li>
Improved <a href="/projects/treeview/tv.html?appname=ncbi_tviewer&amp;btc_id=data/tree_txt.asn&amp;renderer=circular&amp;featnames=*&amp;treename=tree_txt.asn">distance base circular tree rendering mode</a></li>
<li>
Implemented vertical only zoom mode</li>
<li>
Improved visualization of collapsed subtrees</li>
<li>
Embedding API improvements: added API functions to zoom to selection and to add a tree title</li>
</ul>
<h2>
Bug Fixes</h2>
<ul>
<li>
Fixed bug with incorrect zooming parameters passing, caused cryptic error message</li>
<li>
Fixed bug with disappearing scale mark, after use of overview functions</li>
<li>
Fixed bug with is changing or disappearing from tooltip when use Edit Label function</li>
<li>
Fixed issues with size and positioning of embedded trees on a page</li>
<li>
Fixed issues with tooltips conflicting with node collapse functionality</li>
<li>
Fixed issues with overview mode does not block zooming, while it should</li>
<li>
Fixed issues with https protocol</li>
<li>
Fixed image positioning for overview mode</li>
<li>
<div id="cke_pastebin">
Fixed image positioning for overview mode</div>
</li>
</ul>
<h1>
Release Notes for Tree Viewer 1.9 (May 31, 2016)</h1>
<h2>
New Features and Improvements</h2>
<ul>
<li>
Tree Viewer can now visualize medium-large phylogenetic trees up to 15K nodes</li>
<li>
Link To View improved to include mini url</li>
<li>
Implemented a new mode to place distance glyph outside of the tree graphics are (could cause interference with the main tree graphics in some cases)</li>
<li>
Circular layout now supports distances</li>
</ul>
<h2>
Bug Fixes</h2>
<ul>
<li>
Fixed bug overview stopes working after a period of inactivity</li>
<li>
Fixed issue with incomplete tree with SmartBLAST</li>
</ul>
<h1>
Release Notes for Tree Viewer 1.8 (March 1, 2016)</h1>
<h2>
New Features and Improvements</h2>
<ul>
<li>
Implemented “Link to View” function to create minimized links to Tree Viewer</li>
<li>
Implemented Feedback function to inform NCBI developers about issues and improvements</li>
<li>
New <a href="/tools/treeviewer/tutorial-editlabels">functionality to customize labels</a></li>
<li>
Improved and reworked zoom navigation with adaptive levels and a new button to quickly zoom to the minimal level where node labels become visible</li>
<li>
New <a href="/tools/treeviewer/embeddingapi/#zooming">zooming API functions</a> for embedders</li>
<li>
New <a href="/tools/treeviewer/embeddingapi/#labelformat">API to set custom labels</a></li>
<li>
Improvements to aspect ratio selection to make radial trees look better</li>
</ul>
<h2>
Bug Fixes</h2>
<ul>
<li>
Fixed bug with Radial tree layout hung</li>
<li>
Fixed issues with not being able to zoom to the level of visible labels on large trees</li>
<li>
Fixed IE issues with pinned tooltips, numerous tooltip fixes and improvements</li>
<li>
Fixed issues with overview in IE</li>
<li>
Fixed issue with missing scale marker in exported PDF</li>
<li>
Fixed issue with incorrect position of context menu</li>
<li>
Fixed issues with display of incorrect number of collapsed nodes</li>
</ul>
<h1>
Release Notes for Tree Viewer 1.7.5 (November 18, 2015)</h1>
<h2>
New Features and Improvements</h2>
<ul>
<li>
Improved function of de-selection of subtrees</li>
</ul>
<h2>
Bug Fixes</h2>
<ul>
<li>
Fixed bug zoom not working in BLAST Tree View</li>
<li>
Fixed bug that part of a tree was not always visible</li>
<li>
Fixed bug with mouse wheel zoom</li>
<li>
Fixed display visual issues on some demo pages</li>
<li>
Fixed issue with Overview mode</li>
<li>
Fixed disappearing scale mark for distance trees</li>
<li>
Fixed issues with mouse pointer remaining “In progress” forever</li>
</ul>
<h1>
Release Notes for Tree Viewer 1.7 (October 27, 2015)</h1>
<h2>
New Features and Improvements</h2>
<ul>
<li>
Added new rendering mechanism for displaying trees as image tiles, to support very large trees and images</li>
<li>
Added Tools/Expand All to unfold all collapsed nodes</li>
</ul>
<h2>
Bug Fixes</h2>
<ul>
<li>
Fixed bug with tree repositioning when selection is present</li>
</ul>
<h1>
Release Notes for Tree Viewer 1.6 (August 13, 2015)</h1>
<h2>
New Features and Improvements</h2>
<ul>
<li>
Added functionality to download data in Newick and Nexus formats/li&gt;</li>
<li>
Added ability to turn on and off distance mode</li>
<li>
API function reloadTree now returns status of requested action</li>
</ul>
<h2>
Bug Fixes</h2>
<ul>
<li>
Fixed a bug in multiple node selection defaults</li>
<li>
Fixed a bug in metadata table</li>
</ul>
<h1>
Release Notes for Tree Viewer 1.5 (June 29, 2015)</h1>
<h2>
New Features and Improvements</h2>
<ul>
<li>
Significant performance improvements</li>
<li>
Implemented ability to open URLs contained in node features (named $url) by direct clicking on a node label</li>
<li>
Tree loading notification improved</li>
<li>
Missing appname parameter warning implemented for embedded Tree Viewer</li>
<li>
Added ability to turn off mouse wheel zooming (support for Firefox mouse wheel event added)</li>
</ul>
<h2>
Bug Fixes</h2>
<ul>
<li>
Tooltips behavior in overview mode fixed</li>
<li>
Resizing in full view mode fixed</li>
<li>
Font size alteration in embedded Tree Viewer fixed</li>
<li>
Firefox not displaying a tree while loading</li>
<li>
Fixed repositioning of the embedded Tree Viewer when clicking on a node</li>
</ul>
<h1>
Release Notes for Tree Viewer 1.4 (May 04, 2015)</h1>
<h2>
New Features and Improvements</h2>
<ul>
<li>
Implemented upload of custom user-defined data in ASN.1 and Newick formats</li>
<li>
Implemented Download function to export data into NCBI Genome Workbench</li>
<li>
Improved <a href="/tools/treeviewer/embeddingapi/#custom_trees">Embedding API</a> to allow loading of custom trees from ftp: or http: locations ( <a href="/projects/treeview/tv.html?appname=ncbi_tviewer&amp;url=ftp://ftp.ncbi.nlm.nih.gov/toolbox/gbench/samples/NewickTree.nwk&amp;renderer=radial">Example 1</a> , <a href="/projects/treeview/tv.html?appname=ncbi_tviewer&amp;url=ftp://ftp.ncbi.nlm.nih.gov/toolbox/gbench/samples/primates.asn&amp;renderer=radial">Example 2</a> )</li>
<li>
Improved tooltips</li>
</ul>
<h2>
Bug Fixes</h2>
<ul>
<li>
Fixed collapsing, selection, and node re-route</li>
<li>
Fixed serious IE incompatibilities</li>
<li>
Fixed execution and handling of long server-side tasks</li>
</ul>
<h1>
Release Notes for Tree Viewer 1.3 (January 29, 2015)</h1>
<h2>
New Features and Improvements</h2>
<ul>
<li>
New WEB interface, implementing full GUI for browsing trees, including pan and zoom, menus, tooltips, PDF export, tree re-routing, subtree selection and more</li>
<li>
<a href="/tools/treeviewer/embeddingapi">WEB API for embedding Tree View</a> on customers WEB pages</li>
<li>
Performance optimizations for faster rendering</li>
<li>
Implemented edge color and gradient options for trees </li>
</ul>
<h2>
Bug Fixes</h2>
<ul>
<li>
Fixed bug in the server to better handle incorrect parameters</li>
</ul>
<h1>
Release Notes for Tree Viewer 1.1.2 (May 5, 2014)</h1>
<h2>
New Features and Improvements</h2>
<ul>
<li>
Made sure that labels display within viewport</li>
<li>
Added <strong>descfmt</strong> test parameter to change the metadata return format</li>
</ul>
<h2>
Bug Fixes</h2>
<ul>
<li>
Added missing asn sample files</li>
<li>
Fixed bug in computing viewport size when labels are very long</li>
<li>
Prevented worker node from looping for an unreasonably long time</li>
</ul>
<h1>
Release Notes for Tree Viewer 1.1.1 (March 24, 2014)</h1>
<h2>
New Features and Improvements</h2>
<ul>
<li>
Update to support (and test) dynamically sized trees in treeviewer</li>
<li>
Added <strong>width</strong> and <strong>height</strong> to returned JSON</li>
<li>
Added parameter to control horizontal width</li>
<li>
Added support for dynamic viewport sizing for PDF rendering</li>
<li>
Added <strong>bottommargin</strong> parameter</li>
<li>
Added support for maximum label lengths</li>
<li>
Moved scale marker to the right for all layouts</li>
<li>
Added CORS handling</li>
</ul>
<h2>
Bug Fixes</h2>
<ul>
<li>
Fixed bug when computed image size is smaller than default size</li>
</ul>
<h1>
Release Notes for Tree Viewer 1.0 (January 02, 2014)</h1>
<h2>
New Features and Improvements</h2>
<ul>
<li>
Added <strong>ifmt</strong> parameter to differentiate between ASN binary (default) and ASN text input</li>
<li>
Added <strong>viewport*</strong> , <strong>fontface</strong> , <strong>fontsize</strong> , <strong>subtreenodeID</strong> , <strong>labelformat</strong> , and <strong>labelvis</strong> parameters</li>
<li>
Added <strong>is-leaf</strong> flag for each node returned in the JSON image map</li>
<li>
Improved error handling and output</li>
<li>
Changed <strong>fontface</strong> parameter to accept a string instead of enum</li>
<li>
Changed the way the node bounds are represented in the JSON return</li>
</ul>
<h2>
Bug Fixes</h2>
<ul>
<li>
The whole branch is highlighted when using selectednodeID</li>
</ul>
<h1>
Release Notes for Tree Viewer 0.0 (December 02, 2013)</h1>
<h2>
New Features and Improvements</h2>
<ul>
<li>
<strong>Initial release:</strong> Supports the minimal set of parameters (btc_ncid, btc_filename, width, height, etc.) and returned data (rendered image, node area information)</li>
</ul>
</div>
<!--/.col1-->
<div class="col2">
<h2>
Table of Contents</h2><ul>
<li>
<a href="/tools/treeviewer/">Tree Viewer documentation home</a></li>
<li>
<a href="/projects/treeview/">Tree Viewer application home</a></li>
<li>
For Users
<ul>
<li>
<a href="/tools/treeviewer/releasenotes">Release notes</a></li>
<li>
<a href="/tools/treeviewer/faq">Frequently Asked Questions</a></li>
<li>
<a href="/tools/treeviewer/videos">Videos</a></li>
</ul>
</li>
<li>
User Tutorials
<ul>
<li>
<a href="/tools/treeviewer/tutorial-uud">User uploaded data</a></li>
<li>
<a href="/tools/treeviewer/tutorial-editlabels">Edit Labels Dialog</a></li>
<li>
<a href="/tools/treeviewer/tutorial-search">Tree View Search</a></li>
</ul>
</li>
<li>
For Developers
<ul>
<li>
<a href="/tools/treeviewer/embeddingapi">Embedding API manual</a></li>
<li>
<a href="/tools/treeviewer/macros">Tree Viewer Macros manual</a></li>
<li>
<a href="/tools/treeviewer/developerresources">Other Developer Resources</a></li>
</ul>
</li>
<li>
Other Resources
<ul>
<li>
<a href="/projects/sviewer/">Sequence Viewer</a></li>
<li>
<a href="/projects/msaviewer/">Multiple Sequence Alignment Viewer</a></li>
</ul>
</li>
</ul>
</div>
<!--/.col2-->
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