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release_notes_3_8_1.html
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release_notes_3_8_1.html
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<!DOCTYPE html>
<html lang="en">
<head>
<meta charset="utf-8">
<title>Cytoscape 3.8.1 Release Notes</title>
<meta name="description" content="Release Notes for Cytoscape 8.1">
<meta name="author" content="David Otasek">
<meta name="viewport" content="width=device-width, initial-scale=1.0">
<script src="https://code.jquery.com/jquery-2.1.4.min.js"></script>
<link rel="stylesheet" href="https://maxcdn.bootstrapcdn.com/bootstrap/3.3.5/css/bootstrap.min.css" integrity="sha512-dTfge/zgoMYpP7QbHy4gWMEGsbsdZeCXz7irItjcC3sPUFtf0kuFbDz/ixG7ArTxmDjLXDmezHubeNikyKGVyQ==" crossorigin="anonymous">
<script src="https://maxcdn.bootstrapcdn.com/bootstrap/3.3.5/js/bootstrap.min.js" integrity="sha512-K1qjQ+NcF2TYO/eI3M6v8EiNYZfA95pQumfvcVrTHtwQVDG+aHRqLi/ETn2uB+1JqwYqVG3LIvdm9lj6imS/pQ==" crossorigin="anonymous"></script>
<link href="css/main.bootstrap.css" rel="stylesheet">
<!-- For Scroll -->
<script src="js/smooth-scroll.min.js"></script>
</head>
<body>
<div class="white belt">
<div class="container">
<h1 class="centering">Release Notes for Cytoscape 3.8.1</h1>
</div>
<div class="container">
<div class="row">
<img src="images/screenshots/cy_3_8_0_desktop.png" class="image-fit">
</div>
</div>
</div>
<div class="narrow white">
<div class="container">
<div class="row">
<div class="col-xs-12 col-md-3">
<p>
<a class="btn btn-primary btn-lg btn-block" href="#new_features" data-scroll>
New Features
</a>
</p>
</div>
<div class="col-xs-12 col-md-3">
<p>
<a class="btn btn-primary btn-lg btn-block" href="#system_requirements" data-scroll>
System Requirements
</a>
</p>
</div>
<div class="col-xs-12 col-md-3">
<p>
<a class="btn btn-primary btn-lg btn-block" href="#manual" data-scroll>
Manual
</a>
</p>
</div>
<div class="col-xs-12 col-md-3">
<p>
<a class="btn btn-warning btn-lg btn-block" href="#known_issues" data-scroll>
Known Issues
</a>
</p>
</div>
</div>
</div>
</div>
<div id="new_features" class="white">
<div class="container centering">
<h1 class="centering">About Version 3.8.1</h1>
<p class="lead light-text">
Cytoscape 3.8.1 is a Cytoscape Desktop BugFix release, addressing multiple issues. A full listing of changes can be accessed <a href="https://cytoscape.atlassian.net/secure/ReleaseNote.jspa?projectId=10003&version=10218">here</a>.
</p>
</div>
</div>
<div id="system_requirements" class="narrow white">
<div class="container">
<h1 class="centering">System Requirements</h1>
<h3 class="warn centering">Deprecating 32 bit OS Support, Deprecated Java 6, 7, and 8 Support</h3>
<div class="row">
<div class="col-xs-12 col-md-offset-2 col-md-8">
<p class="lead">
We will no longer be testing Cytoscape releases on 32 bit OSs, or Java versions lower than 11.
</p>
</div>
</div>
<h3 class="warn centering">Java 11 is Required -- Automatically Installed</h3>
<div class="row">
<div class="col-xs-12 col-md-offset-2 col-md-8">
<p class="lead">
For Windows and Mac users, the Cytoscape installer automatically downloads and installs Java 11 if it's not available on your workstation. For Linux, please use Java 11 as described below.
</p>
</div>
</div>
<div class="row">
<div class="col-xs-12 col-md-4">
<h3>Windows</h3>
<ul>
<li>Windows XP and newer (including Windows 7, 8 and 10). <strong>64 bit version is recommended</strong>.
</li>
<li>Cytoscape installer automatically downloads a suitable Java 11 if none is available on your workstation. You can manually download and install latest version of <a href="https://adoptopenjdk.net/">
OpenJDK 11</a>. Oracle Java and other implementations are not tested.
</li>
</ul>
</div>
<div class="col-xs-12 col-md-4">
<h3>Mac</h3>
<ul>
<li>Mac OS X 10.11 (El Capitan) and later</li>
<li>Cytoscape installer automatically downloads a suitable Java 11 if none is available on your workstation. You can manually download and install latest version of <a href="https://adoptopenjdk.net/">OpenJDK 11</a>.</li>
</ul>
</div>
<div class="col-xs-12 col-md-4">
<h3>Linux</h3>
<p>
</p>
<ul>
<li>Tested on
<a href="https://docs.google.com/spreadsheets/d/1aEGtWvxksnCgXbtfadjB1e59qrGUxq-Ei_w3AHX4lBo/">these
distributions.</a>
</li>
<li>
Latest version of Java is required (minimum Java 11.0.6).
</li>
<li>
For Ubuntu, a simple way of installing the OpenJDK JVM is described
<a href="https://adoptopenjdk.net/installation.html?variant=openjdk11&jvmVariant=hotspot#x64_linux-jre">here</a>.
</li>
<li>Java 11 must be on the PATH (ahead of any other JVM) or referenced by JAVA_HOME environment variable.</li>
</ul>
</div>
</div>
</div>
</div>
<div id="manual" class="narrow snow-white">
<h1 class="centering">User Manual</h1>
<div class="container">
<div class="row">
<div class="col-md-6 centering">
<a href="http://manual.cytoscape.org/">
<h3>HTML Version</h3>
</a>
</div>
<div class="col-md-6 centering">
<a href="manual/Cytoscape3_8_0Manual.pdf">
<h3>PDF version</h3>
</a>
</div>
</div>
</div>
</div>
<div class="belt light-blue">
<div class="container">
<div class="row">
<div class="col-md-6">
<h2>How to Report Bugs</h2>
<p class="lead">
Your bug reports are very important to improve quality of future versions of Cytoscape 3. If you notice any problems, please report them from:
</p>
<blockquote>Help → Report a bug...</blockquote>
<p class="lead">
Or, you can directly report it from
<a href="bug-report.html">Report a bug</a> link on the navigation bar.
</p>
</div>
<div class="col-md-6">
<h2>Need Help?</h2>
<p class="lead">
We need your feedback to improve Cytoscape 3! Please send your questions and comments to our <a href="https://groups.google.com/forum/?fromgroups#!forum/cytoscape-helpdesk">
mailing list</a>.
</p>
</div>
</div>
</div>
</div>
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