242 lines
9.7 KiB
HTML
242 lines
9.7 KiB
HTML
<!DOCTYPE html>
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<html lang="en">
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<head>
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<meta http-equiv="content-type" content="text/html; charset=UTF-8">
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<meta charset="utf-8">
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<title>VIVO Release 1 V1.5 Announcement</title>
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<link rel="stylesheet" href="./css/doc.css" media="screen">
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</head>
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<body>
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<div id="branding" role="banner">
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<h1 class="vivo-logo">
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<a href="http://vivoweb.org"><span class="displace">VIVO</span></a>
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</h1>
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</div>
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<div id="wrapper-content" role="main">
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<h1>VIVO Release 1 V1.5 Announcement</h1>
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<small> July 11, 2012 </small>
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<toc>
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<ul>
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<!-- filled out by js -->
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</ul>
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</toc>
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<div class="wiki-content">
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<h4>
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<a name="VIVORelease1.5Announcement-Overview"></a>Overview
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</h4>
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<p>VIVO 1.5 introduces a number of new features addressing
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extensibility and interoperability, reasoning, page customization,
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and a first step toward internationalization. VIVO's profile
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management has been improved with a number of new custom forms, and
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there are significant improvements to ontology browsing and editing.</p>
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<p>The VIVO 1.5 development cycle has also included extensive
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design work on features anticipated for implementation beginning
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with version 1.6, including increased modularity, the introduction
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of a separate ontology for display and editing controls, and the
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addition of a graphical ontology class expression editor.</p>
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<h4>
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<a name="VIVORelease1.5Announcement-Extensibility"></a>Extensibility
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</h4>
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<p>Since version 1.2, VIVO’s use of the Jena Semantic Web
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framework (1) has allowed implementation sites to use any database
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supported by Jena, including MySQL, PostgreSQL, and Oracle. VIVO
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Release 1.5 extends this flexibility a major step further by making
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it much easier to extend VIVO to use any triple store, and include
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an experimental feature that supports connecting to any triple store
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that exposes a SPARQL endpoint that supports SPARQL update. Initial
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tests with Sesame are quite promising.</p>
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<h4>
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<a name="VIVORelease1.5Announcement-VIVOisnowanOpenSocialcontainer"></a>VIVO
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is now an OpenSocial container
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</h4>
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<p>The OpenSocial standard (2) defines a web-based container
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environment for hosting third-party components in a web application
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and provides a set of common application programming interfaces for
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developing these components by leveraging the Google Gadgets (3)
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framework. Eric Meeks and colleagues at the University of
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California–San Francisco and other institutions have developed
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OpenSocial gadgets designed to work with RDF expressed using the
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VIVO ontology. For VIVO 1.5, Eric has adapted the Apache Shindig (4)
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OpenSocial reference implementation to communicate with VIVO and
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collaborated with the VIVO development team in extending VIVO itself
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to support OpenSocial gadgets referencing data in VIVO or bringing
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additional data to VIVO based on page being viewed.</p>
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<h4>
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<a name="VIVORelease1.5Announcement-Reasoning"></a>Reasoning
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</h4>
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<p>The simple reasoner built into VIVO now has support for sameAs
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reasoning to allow joint display of statements associated with two
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URIs that have been asserted or inferred to be sameAs each other.
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The VIVO reasoner will also now maintain inverse property statements
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based on presence or absence of inverse property declarations in an
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ontology. Although the VIVO application has previously added and
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removed property inverse statements during interactive editing, this
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feature had been requested to simplify the preparation of data for
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ingest with the VIVO Harvester or other tools. Recomputing
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inferences will trigger the reasoner to supply any missing inverse
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property statements.</p>
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<h4>
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<a name="VIVORelease1.5Announcement-Newpagetypes"></a>New page types
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</h4>
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<p>The VIVO 1.5 release expands the flexibility of VIVO as a web
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application by adding additional dynamic content features. Sites may
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create arbitrary HTML pages or web pages that display the results of
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SPARQL queries and link to those from any template in the
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application; these new pages may optionally be top-level menu pages
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and may include multiple sections featuring the results of
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parameterized SPARQL queries and static HTML content as well as data
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filtered by class group and type. New page specifications are
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typically paired with page template modifications to provide the
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desired level of control over display of dynamic content. These
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changes significantly augment VIVO's native reporting capabilities
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and enable sites to demonstrate aggregation, interconnectivity, and
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network effects in VIVO data. Queries and report templates will be
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useful to share across sites and a SPARQL resource page has already
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been established on the VIVO wiki (5).</p>
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<h4>
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<a name="VIVORelease1.5Announcement-Customizedshortviews"></a>Customized
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short views
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</h4>
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<p>Site maintainers may also customize the way that individuals
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are displayed on VIVO index pages, browse pages, or search results -
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all without modifying the basic VIVO code. Custom templates,
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populated by custom queries, can be assigned to classes of
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individuals in any of these contexts.</p>
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<h4>
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<a name="VIVORelease1.5Announcement-Languagefilter"></a>Language
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filter
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</h4>
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<p>VIVO 1.5 will respect a user's browser language preference
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setting and filter labels and data property text strings to only
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display values matching that language setting whenever versions in
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multiple languages are available. This is an important first step
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toward internationalization of the VIVO application, an effort we
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expect to continue in future releases.</p>
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<h4>
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<a name="VIVORelease1.5Announcement-Improvedediting"></a>Improved
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editing
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</h4>
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<p>VIVO 1.5 includes new forms to simplify entry and editing of
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awards, advising relationships, and additional types of
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publications. Forms make greater use of autocomplete functionality,
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and very large pick lists are converted to autocomplete
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functionality by the application on the fly.</p>
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<h4>
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<a
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name="VIVORelease1.5Announcement-ImprovedMapofSciencevisualization"></a>Improved
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Map of Science visualization
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</h4>
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<p>VIVO's Map of Science visualizations benefit from improved
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labeling and color coding as well as additional explanation; the
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maps also now support dynamic interchange between discipline and
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sub-discipline sliders.</p>
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<h4>
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<a name="VIVORelease1.5Announcement-Ontologychanges"></a>Ontology
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changes
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</h4>
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<p>
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Ontology changes from 1.4 to 1.5 include identifying primary job
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appointments, modeling citation information for publications, and
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adding new types of publications to better align with PubMed.
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Changes for each release are documented on the VIVO wiki on
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Sourceforge at <a
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href="http://sourceforge.net/apps/mediawiki/vivo/index.php?title=Ontology"
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class="external-link" rel="nofollow">http://sourceforge.net/apps/mediawiki/vivo/index.php?title=Ontology</a>.
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</p>
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<p>
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The VIVO ontology is now available via the Bioportal (<a
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href="http://www.bioontology.org/bioportal" class="external-link"
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rel="nofollow">http://www.bioontology.org/bioportal</a>), an open
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repository of ontologies hosted by the National Center for
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Biomedical Ontology.
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</p>
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<h4>
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<a name="VIVORelease1.5Announcement-Acknowledgements"></a>Acknowledgements
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</h4>
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<p>This release represents the work of the entire VIVO team and
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contributions of feature requests, requirements development and
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design, ontology design reviews, software development, and testing
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from the larger VIVO open source community.</p>
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<p>The VIVO project is funded by the National Institutes of
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Health, U24 RR029822, "VIVO: Enabling National Networking of
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Scientists".</p>
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<h4>
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<a name="VIVORelease1.5Announcement-References"></a>References
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</h4>
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<ol>
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<li><a href="http://jena.apache.org/" class="external-link"
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rel="nofollow">http://jena.apache.org/</a></li>
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<li><a href="http://docs.opensocial.org/display/OS/Home"
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class="external-link" rel="nofollow">http://docs.opensocial.org/display/OS/Home</a></li>
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<li><a href="https://developers.google.com/gadgets/"
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class="external-link" rel="nofollow">https://developers.google.com/gadgets/</a></li>
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<li><a href="http://shindig.apache.org/" class="external-link"
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rel="nofollow">http://shindig.apache.org/</a></li>
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<li><a
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href="http://sourceforge.net/apps/mediawiki/vivo/index.php?title=SPARQL_Resources"
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class="external-link" rel="nofollow">http://sourceforge.net/apps/mediawiki/vivo/index.php?title=SPARQL_Resources</a></li>
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</ol>
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</div>
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<!-- wiki content -->
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<div id="footer" role="contentinfo">
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<p class="copyright">
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<small> All Rights Reserved <a href="license.txt">see
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license</a>
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</small>
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</p>
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<div id="nav" role="navigation">
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<ul id="footer-nav" role="list">
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<li role="listitem"><a href="http://vivoweb.org/about">About</a>
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</li>
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<li role="listitem"><a href="http://vivoweb.org/contact">Contact
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Us</a></li>
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<li role="listitem"><a href="http://www.vivoweb.org/support"
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target="blank">Support</a></li>
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</ul>
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</div>
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</div>
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