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Fixed links for TOC.

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ejc12 2011-02-02 04:01:34 +00:00
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doc/upgrade-1.2.html
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January 28, 2011 - Upgrading from Release 1 v1.1 to Release 1 January 28, 2011 - Upgrading from Release 1 v1.1 to Release 1
v1.2 v1.2
</small> </small>
<blockquote>
<b>Missing pieces and fixes</b>
<ul>
<li>
Link to install pdf online at SF
</li>
<li>
<br>
</li>
</ul>
</blockquote>
<toc> <toc>
<ul> <ul>
<li> <li>
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<a href="#fileSystem">File Storage System Upgrade</a> <a href="#fileSystem">File Storage System Upgrade</a>
<ol class="roman2"> <ol class="roman2">
<li> <li>
<a href="#verify_ontology_upgrade">Changes to the File <a href="#changes_to_storage">Changes to the File
Storage System</a> Storage System</a>
</li> </li>
<li> <li>
<a href="#verify_ontology_upgrade">Verify File Storage <a href="#verify_file_upgrade">Verify File Storage
System upgrade process</a> System upgrade process</a>
</li> </li>
</ol> </ol>
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below for more information. below for more information.
</li> </li>
</ul> </ul>
<h3 id="upgrade_process">The Upgrade Process</h3> <h3 id="upgrade_process">II. The Upgrade Process</h3>
<p> <p>
1. Download the new distribution file and unpack it into a new 1. Download the new distribution file and unpack it into a new
source directory. source directory.
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6. Start Apache Tomcat and log in to VIVO. 6. Start Apache Tomcat and log in to VIVO.
</p> </p>
<h3 id="ontology">III. Ontology Changes</h3> <h3 id="ontology">III. Ontology Changes</h3>
<h4>A. Verify Ontology upgrade process</h4> <h4 id="verify_ontology_upgrade">i. Verify Ontology upgrade process</h4>
<p> <p>
After Apache Tomcat is started, these files should be reviewed to After Apache Tomcat is started, these files should be reviewed to
verify that the automated upgrade process was executed verify that the automated upgrade process was executed
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knowledge base. knowledge base.
</dd> </dd>
</dl> </dl>
<h4>B. Ontology knowledge base manual review</h4> <h4 id="ontology_knowledge_base">ii. Ontology knowledge base manual review</h4>
<p> <p>
Changes to the VIVO core ontology may require corresponding Changes to the VIVO core ontology may require corresponding
modifications of the knowledge base instance data and local ontology modifications of the knowledge base instance data and local ontology
@ -723,7 +712,7 @@
</dl> </dl>
<h3 id="fileSystem">IV. File Storage System Upgrade</h3> <h3 id="fileSystem">IV. File Storage System Upgrade</h3>
<h4>A. Changes to the File Storage System</h4> <h4 id="changes_to_storage">i. Changes to the File Storage System</h4>
<p> <p>
Each uploaded file exists as an individual entity in VIVO. When the Each uploaded file exists as an individual entity in VIVO. When the
browser requests an upload file from VIVO, the data model is queried to browser requests an upload file from VIVO, the data model is queried to
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it will initiate a process to calculate the "Alias URL" it will initiate a process to calculate the "Alias URL"
for each existing file and store it in the data model for fast access. for each existing file and store it in the data model for fast access.
</p> </p>
<h4>B. Verify File Storage System upgrade process</h4> <h4 id="verify_file_upgrade">ii. Verify File Storage System upgrade process</h4>
<p> <p>
The File Storage upgrade process will create a log file in the The File Storage upgrade process will create a log file in the
VIVO upload directory. You should review this file to ensure that VIVO upload directory. You should review this file to ensure that
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</dd> </dd>
</dl> </dl>
<h3>V. Theme Changes</h3> <h3 id="theme">V. Theme Changes</h3>
<h4 style="color:red">Need Nick to help with this section</h4>
<p> <p>
VIVO 1.2 comes with a new theme called "wilma" that uses the FreeMarker template VIVO 1.2 comes with a new theme called "wilma" that uses the FreeMarker template
engine for generating web pages. The theme is located in /vivo/themes/wilma and engine for generating web pages. The theme is located in /vivo/themes/wilma and
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the vivo-basic theme in its original directory, you need not take any the vivo-basic theme in its original directory, you need not take any
action in order to convert your site to the VIVO 1.1 theme. action in order to convert your site to the VIVO 1.1 theme.
</p> </p>
<h1>I THINK THIS SECTION NEEDS MAJOR CHANGING AND I NEED HELP WITH IT, Por Favor</h1>
<p> <p>
B. If you created your own theme directory in VIVO 1.1, follow the steps below B. If you created your own theme directory in VIVO 1.1, follow the steps below
under sections "Templates," "Stylesheets," and "Site Icons" to upgrade your under sections "Templates," "Stylesheets," and "Site Icons" to upgrade your