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LICENSE-3RD-PARTY.txt
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LICENSE-3RD-PARTY.txt
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GenePattern is distributed, in part, under and subject to the provisions of licenses for:
DD Smooth Menu, Copyright � 2014 Dynamic Drive. All rights reserved.
(http://www.dynamicdrive.com/dynamicindex1/ddlevelsmenu/).
highlight v4, Copyright � 2002�2015 Johann Burkard. All rights reserved.
(http://johannburkard.de/blog/programming/javascript/highlight-javascript-text-higlighting-jquery-plugin.html).
PDFBox, Copyright � 2009�2015 The Apache Software Foundation. All rights reserved.
(https://pdfbox.apache.org/).
Tomcat 5.5, Copyright � 1999-2015 The Apache Software Foundation. All rights reserved.
(http://tomcat.apache.org/download-55.cgi).
Apache Commons, Copyright � 2015 The Apache Software Foundation. All rights reserved.
(http://commons.apache.org/).
Apache Commons HttpClient, Copyright � 2001-2011 The Apache Software Foundation. All rights reserved.
(http://hc.apache.org/httpclient-3.x/).
Ant, Copyright � 2000-2014 The Apache Software Foundation. All rights reserved. (http://ant.apache.org/).
Axis, Copyright � 2000-2005 The Apache Software Foundation. All rights reserved. (http://ws.apache.org/axis/).
Cglib, (http://cglib.sourceforge.net/).
Apache MyFaces, Copyright � 2015 The Apache Software Foundation. All rights reserved. (http://myfaces.apache.org/).
Groovy (required for Broad Core), Copyright � 2003-2015 The Groovy project, (http://groovy.codehaus.org/).
Jakarta Ora (retired), (http://jakarta.apache.org/ora/).
XML Builder, (https://github.com/jmurty/java-xmlbuilder).
JetS3t (for GenomeSpace), Copyright � 2006-2014 James Murty. All rights reserved. (http://jets3t.s3.amazonaws.com/downloads.html).
Jettison (for GenomeSpace), Copyright � 2006 Envoi Solutions LLC. All rights reserved. (http://jettison.codehaus.org/).
Jakarta Taglibs, (http://jakarta.apache.org/taglibs/doc/standard-doc/intro.html).
Apache Log4j, Copyright � 1999-2012 The Apache Software Foundation. All rights reserved. (http://logging.apache.org/log4j/1.2/download.html).
NekoHTML, Copyright � 2002-2013 Andy Clark, Marc Guillemot. All rights reserved. (http://nekohtml.sourceforge.net/).
SnakeYaml, (http://code.google.com/p/snakeyaml/downloads/list).
JSP Standard Taglibs, Copyright � 2000-2015 The Apache Software Foundation. All rights reserved.
(http://tomcat.apache.org/taglibs/standard/).
StAX, Copyright � 2003-2006 Codehaus. All rights reserved. (http://stax.codehaus.org/).
Apache MyFaces Tomahawk, Copyright � 2012 The Apache Software Foundation. All rights reserved.
(http://myfaces.apache.org/tomahawk/index.html).
Xalan-Java, Copyright � 2006 The Apache Software Foundation. All rights reserved. (http://xml.apache.org/xalan-j/).
Xerces2 Java Parser, Copyright � 1999-2010 The Apache Software Foundation. All rights reserved.
(http://xerces.apache.org/xerces2-j/).
Google Guava, (https://code.google.com/p/guava-libraries/).
Guice, (https://code.google.com/p/google-guice/).
Jakarta, Copyright � 1999-2011 The Apache Software Foundation. All rights reserved. (http://jakarta.apache.org/).
OpenID4Java, (https://code.google.com/p/openid4java/).
Joda-Time, Copyright � 2002-2015 Joda.org. All rights reserved. (http://www.joda.org/joda-time/).
AWS SDK for Java, Copyright � 2015 Amazon Web Services, Inc. or its affiliates. All rights reserved. (http://aws.amazon.com/sdk-for-java/).
JDom, Copyright � 2000-2012 Jason Hunter & Brett McLaughlin. All rights reserved. (http://www.jdom.org/).
Antlr, Copyright � 2014 ANTLR / Terence Parr. All rights reserved. (http://www.antlr.org/download.html).
Scala, Copyright � 2002-2015 �cole Polytechnique F�d�rale de Lausanne (EPFL). All rights reserved. (http://www.scala-lang.org/downloads).
dom4j, Copyright � 2001-2005 MetaStuff, Ltd. All rights reserved. (http://dom4j.sourceforge.net/dom4j-1.6.1/).
Java SE Security, Copyright � 2015 Oracle Corporation. All rights reserved. (http://www.oracle.com/technetwork/java/javase/tech/index-jsp-136007.html).
Jersey, for GS integration, Copyright � 2010-2015 Oracle Corporation. All rights reserved. (http://jersey.java.net/).
JAXB, Copyright � 2013-2015. All rights reserved. (https://jaxb.java.net/).
NetBeans, Copyright � 2012 Oracle Corporation and/or its affiliates. All rights reserved. (http://plugins.netbeans.org/PluginPortal/).
JSF, Copyright � 2015 Oracle Corporation and/or its affiliates. All rights reserved.
(http://www.oracle.com/technetwork/java/javaee/javaserverfaces-139869.html).
Web Services Definition Language, (http://sourceforge.net/projects/wsdl4j/files/WSDL4J/).
Broad Core, Copyright � 2015 Broad Institute, Inc. All rights reserved.
(https://svn.broadinstitute.org/BroadCore/trunk/src/main/edu/mit/broad/core).
Junit, Copyright � 2002-2004 Junit. All rights reserved. (http://junit.org/).
ASM, Copyright � 2000-2011 INRIA, France Telecom. All rights reserved. (http://asm.ow2.org/).
Colt, Copyright � 1999 CERN, European Organization for Nuclear Research. All rights reserved. (http://acs.lbl.gov/software/colt/).
HSQLDB, Copyright � 2001-2010 The HSQL Development Group. All rights reserved. (http://hsqldb.org/).
MySQL Connector, Copyright � 2015 Oracle Corporation and/or its affiliates. All rights reserved.
(http://dev.mysql.com/downloads/connector/j/).
Version Check, (https://code.google.com/p/versioncheck/).
Jaxson: JSON Processor, Copyright � 2003-2008 Codehaus. All rights reserved. (http://jaxson.codehaus.org/).
jaxen: universal Java XPath engine, Copyright � 2001-2013 Codehaus. All rights reserved. (http://jaxen.codehaus.org/).
JCommon, Copyright � 2007-2014 Object Refinery Limited. All rights reserved. (http://www.jfree.org/jcommon/).
jGraphT, Copyright � 2003-2015 Barak Naveh and Contributors. All rights reserved. (http://www.jgrapht.org).
iText, Copyright � 2007-2015 Rogue Wave Software. All rights reserved. (http://olex.openlogic.com/packages/itext/1.3.1).
EDT FTP, (http://www.enterprisedt.com/products/edtftpj).
JBoss Common, Copyright � 2015 Red Hat, Inc. All rights reserved. (http://community.jboss.org/wiki/JBossCacheDownloadsPage).
JBoss Common, Copyright � 2015 Red Hat, Inc. All rights reserved. (http://www.jboss.org/jboss-common/).
JBoss, Copyright � 2015 Red Hat, Inc. All rights reserved. (http://www.jboss.org/).
JGroups, Copyright � 2002-2015 Red Hat, Inc. All rights reserved. (http://www.jgroups.org/).
RichFaces, Copyright � 2015 Red Hat, Inc. All rights reserved. (http://www.jboss.org/richfaces).
Trove: high performance collections for Java, Copyright � 1999 CERN - European Organization for Nuclear Research. All rights reserved. (http://trove.starlight-systems.com/).
Hibernate (v3), Copyright � 2015. TIBCO Software, Inc. All rights reserved. (http://www.hibernate.org/downloads).
Jasper, Copyright � 2015 TIBCO Software, Inc. All rights reserved.
(https://community.jaspersoft.com/project/jasperreports-library).
FindBugs, Copyright � 2015 University of Maryland. All rights reserved. (http://findbugs.sourceforge.net/).
JOpt Simple, Copyright � 2015. All rights reserved. (https://pholser.github.io/jopt-simple/).
slf4j (Included with Hibernate), Copyright � 2004-2015 QOS.ch. All rights reserved. (http://www.slf4j.org/).
jQuery, Copyright � 2015 The jQuery Foundation. All rights reserved. (http://jquery.com/).
jQuery UI, Copyright � 2015 The jQuery Foundation. All rights reserved. (http://jqueryui.com/).
jsPlumb, (https://github.com/sporritt/jsplumb/).
Intro.js, Copyright � 2012 Afshin Mehrabani. All rights reserved. (https://github.com/usablica/intro.js).
jMenu, Copyright � 2013 MyjqueryPlugins. All rights reserved. (www.myjqueryplugins.com).
jQuery blockUI plugin, (http://malsup.com/jquery/block/).
jQuery contextMenu, (http://medialize.github.com/jQuery-contextMenu/).
jQuery Cookie Plugin, Copyright � 2015 The JQuery Foundation. All rights reserved.
(https://plugins.jquery.com/cookie/).
jQuery Cookie Plugin v1.2, Copyright � 2014 Klaus Hartl. All rights reserved.
(https://github.com/carhartl/jquery-cookie).
DataTables 1.10.0, Copyright � 2007-2015 SpryMedia Ltd. All rights reserved. (http://datatables.net/).
jquery-dialogextend 2.0.3, Copyright � 2013 Crab, ROMB. All rights reserved. (http://plugins.jquery.com/dialogextend/2.0.3/).
iframe post form, Copyright � 2010 - 2011 Ewen Elder. All rights reserved.
(https://code.google.com/p/saftalk/source/browse/trunk/saftalk/Saftalk/war/content/js/jquery.iframe-post-form.js?r=162).
jsTree 1.0-rc3, (http://jstree.com/).
jTruncate, (http://www.jeremymartin.name/projects.php?project=jTruncate).
jquery.layout 1.3.0, ( https://github.com/allpro/layout).
jQuery MultiSelect UI Widget, (http://www.erichynds.com/jquery/jquery-ui-multiselect-widget/).
jQuery Tags Input Plugin 1.3.3, (ttps://github.com/xoxco/jQuery-Tags-Input).
jQuery Tools v1.2.6, (http://jquerytools.github.io/download/).
jQuery Validation Plugin, Copyright � J�rn Zaefferer. All rights reserved. (https://github.com/jzaefferer/jquery-validation).
JAXP, Copyright � 2013-2015. All rights reserved. (https://jaxp.java.net/).
Jama: Java Matrix Package, (http://math.nist.gov/javanumerics/jama/).
SGE drmaa library, (http://sourceforge.net/projects/gridscheduler/).
JGoodies Forms, Copyright � 2015 JGoodies. All rights reserved. (http://www.jgoodies.com/freeware/libraries/forms/).
OpenSymphony, (http://www.opensymphony.com/).
DOM Test Suite, (http://www.w3.org/DOM/Test/).
Proxool, Copyright � 2002-2003 Proxool. All rights reserved. (http://proxool.sourceforge.net/).
JDBC, Copyright � 2015 Oracle Corporation and/or its affiliates. All rights reserved. (http://www.oracle.com/technetwork/java/javasebusiness/downloads/java-archive-downloads-database-419422.html).