Editorial changes.

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ejc12 2011-02-10 17:09:09 +00:00
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</li> </li>
</ul> </ul>
<p> <p>
Be sure to setup the environment variables for <code java_home=""></code> Be sure to set up the environment variables for <code java_home="">JAVA_HOME</code>
and <code>ANT_HOME</code> and <code>ANT_HOME</code>
and add the executables to your path per and add the executables to your path per
your operating system and installation directions from the software your operating system and installation directions from the software
@ -231,7 +231,7 @@
<h3 id="triple_store">IV. Choose Triple Store</h3> <h3 id="triple_store">IV. Choose Triple Store</h3>
<p> <p>
VIVO 1.2 offers a choice of two triple store technologies: in-memory models backed by VIVO 1.2 offers a choice of two triple store technologies: in-memory models backed by
Jena's legacy relational database store (RDB) and Jena's SPARQL database (SDB). RDB was Jena's legacy relational database store (RDB), and Jena's SPARQL database (SDB). RDB was
used by VIVO 1.1.1 and earlier. This mode offers fast response, but only by caching the used by VIVO 1.1.1 and earlier. This mode offers fast response, but only by caching the
entire RDF model in the server's main memory. The memory available to VIVO limits the entire RDF model in the server's main memory. The memory available to VIVO limits the
number of RDF statements that may be stored. number of RDF statements that may be stored.
@ -289,7 +289,7 @@
RDF resources available for harvest using linked data. Requests for RDF RDF resources available for harvest using linked data. Requests for RDF
resource URIs redirect to HTML or RDF representations as specified by resource URIs redirect to HTML or RDF representations as specified by
the client. To make this possible, VIVO's default namespace must have the client. To make this possible, VIVO's default namespace must have
certain structure and begin with the public web address of the VIVO a certain structure and begin with the public web address of the VIVO
installation. For example, if the web address of a VIVO installation is installation. For example, if the web address of a VIVO installation is
"http://vivo.example.edu/" the default namespace must be set to "http://vivo.example.edu/" the default namespace must be set to
"http://vivo.example.edu/individual/" in order to support linked data. "http://vivo.example.edu/individual/" in order to support linked data.
@ -351,7 +351,7 @@
<tr> <tr>
<td colspan="2"> <td colspan="2">
Directory where uploaded files will be stored. Directory where uploaded files will be stored.
Be sure this directory exists and is writable by the user that Be sure this directory exists and is writable by the user who
the Tomcat service is running as. the Tomcat service is running as.
</td> </td>
</tr> </tr>
@ -366,7 +366,7 @@
<tr> <tr>
<td colspan="2"> <td colspan="2">
Directory where the Lucene search index will be Directory where the Lucene search index will be
built. Be sure this directory exists and is writable by the user that built. Be sure this directory exists and is writable by the user who
the Tomcat service is running as. the Tomcat service is running as.
</td> </td>
</tr> </tr>
@ -681,7 +681,7 @@
menu of editing options. Here you can create OWL classes, object menu of editing options. Here you can create OWL classes, object
properties, data properties, and configure the display of data. properties, data properties, and configure the display of data.
Currently, any classes you wish to make visible on your website must be Currently, any classes you wish to make visible on your website must be
part of a class group, and there a number of visibility and display part of a class group, and there are a number of visibility and display
options available for each ontology entity. VIVO comes with a core VIVO options available for each ontology entity. VIVO comes with a core VIVO
ontology, but you may also upload other ontologies from an RDF file. ontology, but you may also upload other ontologies from an RDF file.
</p> </p>
@ -689,7 +689,7 @@
Under the "Advanced Data Tools" click "Add/Remove RDF Data." Note Under the "Advanced Data Tools" click "Add/Remove RDF Data." Note
that Vitro currently works best with OWL-DL ontologies and has only that Vitro currently works best with OWL-DL ontologies and has only
limited support for pure RDF data. You can enter a URL pointing to the limited support for pure RDF data. You can enter a URL pointing to the
RDF data you wish to load or upload a file on your local machine. RDF data you wish to load or upload from a file on your local machine.
Ensure that the "add RDF" radio button is selected. You will also Ensure that the "add RDF" radio button is selected. You will also
likely want to check "create classgroups automatically." likely want to check "create classgroups automatically."
</p> </p>
@ -707,7 +707,7 @@
If you have configured your application to use the "Contact Us" If you have configured your application to use the "Contact Us"
feature in Step IV (<code>Vitro.smtpHost</code>), you will also need to feature in Step IV (<code>Vitro.smtpHost</code>), you will also need to
add an email address to the VIVO application.&nbsp; This is the email add an email address to the VIVO application.&nbsp; This is the email
that the contact form submits to. It can be a list server or an to which the contact form will submit. It can be a list server or an
individual's email address. individual's email address.
</p> </p>
<p> <p>
@ -715,7 +715,7 @@
table of contents (link in the right side of the header). Go to "Site table of contents (link in the right side of the header). Go to "Site
Information" (under "Site Configuration"). In the "Site Information Information" (under "Site Configuration"). In the "Site Information
Editing Form," enter a functional email address in the field "Contact Editing Form," enter a functional email address in the field "Contact
Email Address." and submit the change. Email Address" and submit the change.
</p> </p>
<p> <p>
If you set the <code>Vitro.smtpHost</code> If you set the <code>Vitro.smtpHost</code>
@ -872,7 +872,8 @@
line like this in the deploy.properties file: line like this in the deploy.properties file:
</p> </p>
<pre>externalAuth.netIdHeaderName = [the header name]</pre> <pre>externalAuth.netIdHeaderName = [the header name]</pre>
For example:<pre>externalAuth.netIdHeaderName = remote_userID</pre> <p>For example:</p>
<pre>externalAuth.netIdHeaderName = remote_userID</pre>
</li> </li>
<li> <li>
<h5>The text for the Login button.</h5> <h5>The text for the Login button.</h5>