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[Obo-svn-commit] SF.net SVN: obo: [314] phenote/trunk/doc/phenote-website
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From: <nl...@us...> - 2007-01-30 21:37:34
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Revision: 314
http://svn.sourceforge.net/obo/?rev=314&view=rev
Author: nlw
Date: 2007-01-30 13:34:51 -0800 (Tue, 30 Jan 2007)
Log Message:
-----------
edits to the index, adding logos
Modified Paths:
--------------
phenote/trunk/doc/phenote-website/index_text.shtml
phenote/trunk/doc/phenote-website/ssi/header.html
phenote/trunk/doc/phenote-website/ssi/navi_home.html
Added Paths:
-----------
phenote/trunk/doc/phenote-website/content/documentation/
phenote/trunk/doc/phenote-website/content/documentation/index.shtml
phenote/trunk/doc/phenote-website/images/fly_logo.png
phenote/trunk/doc/phenote-website/images/nescent_logo.gif
phenote/trunk/doc/phenote-website/images/pgkb_logo.png
phenote/trunk/doc/phenote-website/images/zfin_logo.gif
Removed Paths:
-------------
phenote/trunk/doc/phenote-website/ssi/navi_about.html
phenote/trunk/doc/phenote-website/ssi/navi_publications.html
Added: phenote/trunk/doc/phenote-website/content/documentation/index.shtml
===================================================================
--- phenote/trunk/doc/phenote-website/content/documentation/index.shtml (rev 0)
+++ phenote/trunk/doc/phenote-website/content/documentation/index.shtml 2007-01-30 21:34:51 UTC (rev 314)
@@ -0,0 +1,27 @@
+<!--#include virtual="/ssi/header.html" -->
+
+<div id="page_body">
+
+<!--#include virtual="/ssi/navi_home.html" -->
+
+<div id="main_content">
+
+<h2>Documentation</h2>
+
+<h3><a name="general">Making Annotations with Phenote</a></h3>
+<h3><a name="webstart">Running Phenote Webstart Version(s)</a></h3>
+<h3><a name="install">Downloading and Installing Phenote</a></h3>
+<p>
+</p>
+<h3><a name="config">Custom Configuration</a></h3>
+<p>
+Phenote can be customized for data entry fields, and the ontologies that are desired to be included.
+</p>
+
+
+<br />
+</p>
+</div>
+</div>
+
+<!--#include virtual="/ssi/footer.shtml" -->
Added: phenote/trunk/doc/phenote-website/images/fly_logo.png
===================================================================
(Binary files differ)
Property changes on: phenote/trunk/doc/phenote-website/images/fly_logo.png
___________________________________________________________________
Name: svn:mime-type
+ application/octet-stream
Added: phenote/trunk/doc/phenote-website/images/nescent_logo.gif
===================================================================
(Binary files differ)
Property changes on: phenote/trunk/doc/phenote-website/images/nescent_logo.gif
___________________________________________________________________
Name: svn:mime-type
+ application/octet-stream
Added: phenote/trunk/doc/phenote-website/images/pgkb_logo.png
===================================================================
(Binary files differ)
Property changes on: phenote/trunk/doc/phenote-website/images/pgkb_logo.png
___________________________________________________________________
Name: svn:mime-type
+ application/octet-stream
Added: phenote/trunk/doc/phenote-website/images/zfin_logo.gif
===================================================================
(Binary files differ)
Property changes on: phenote/trunk/doc/phenote-website/images/zfin_logo.gif
___________________________________________________________________
Name: svn:mime-type
+ application/octet-stream
Modified: phenote/trunk/doc/phenote-website/index_text.shtml
===================================================================
--- phenote/trunk/doc/phenote-website/index_text.shtml 2007-01-30 19:34:39 UTC (rev 313)
+++ phenote/trunk/doc/phenote-website/index_text.shtml 2007-01-30 21:34:51 UTC (rev 314)
@@ -1,4 +1,4 @@
-<!--#include virtual="/ssi/header.html" -->
+<!--#include virtual="/phentoe/ssi/header.html" -->
<div id="page_body">
@@ -14,30 +14,28 @@
</div>
-->
-<!--#include virtual="/ssi/navi_home.html" -->
+<!--#include virtual="/phenote/ssi/navi_home.html" -->
<div id="main_content">
-<h2>Welcome...</h2>
+<h2>Phenotype Annotation Tools</h2>
<p>
</p>
<p>
-...to the Berkeley Bioinformatics and Ontologies Project.
-</p>
+Phenote is a software tool currently being developed by the National Center for Biomedical Ontology to facilitate the annotation of biological phenotypes. Its development is being driven by several groups, including:
+<ul>
+<li><a href="http://flybase.bio.indiana.edu/"><a img="/phenote/images/fly_logo.png"></a><h3>Flybase: The Drosophila Genome Database.</h3></li>
+<li><a href="http://zfin.org/"><a img="/phenote/images/zfin_logo.gif"></a>ZFIN: The Zebrafish Genome Database</li>
+<li><a href="http://www.nescent.org/"><img class="portrait" border="0" src="/phenote/images/nescent_logo.gif" alt="NESCENT"></a></a>NESCENT: The National Evolultionary Synthesis Center</li>
-<p>
-<a href="/content/jobs/">We're hiring!</a>
+
</p>
<p>
-The BBOP, located at the Lawrence Berkeley National Labs, is a diverse group of scientific researchers and software engineers dedicated to developing tools and applying computational technologies to solve biological problems. Members of the group contribute to a number of projects, including <a href="http://geneontology.org/">The Gene Ontology</a>, <a href="http://bioontology.org">The National Center for Biomedical Ontology</a>, and the <a href="http://gmod.org">Generic Model Organism Database Project</a>. Learn more about our projects <a href="/content/projects/">[here ...]</a>
-</p>
-<p>
-Since our group is focused on the development, use, and integration of ontolgies into biological data analysis, we've set up a <a href="content/faq/">FAQ</a> with answers to some common questions about ontologies.
</p>
</div>
</div>
-<!--#include virtual="/ssi/footer.shtml" -->
+<!--#include virtual="/phenote/ssi/footer.shtml" -->
Modified: phenote/trunk/doc/phenote-website/ssi/header.html
===================================================================
--- phenote/trunk/doc/phenote-website/ssi/header.html 2007-01-30 19:34:39 UTC (rev 313)
+++ phenote/trunk/doc/phenote-website/ssi/header.html 2007-01-30 21:34:51 UTC (rev 314)
@@ -5,6 +5,8 @@
<head>
<meta http-equiv="Content-Type" content="text/html; charset=UTF-8" />
+<meta name="description" content="Phenote Home Page">
+<meta name="keywords" content="Phenotype, Annotation, Phenote, NCBO, National Center for Biomedical Ontology, Ontology, Berkeley Bioinformatics and Ontology Project, BBOP, Curation, EQ model, entities and qualities, phenotype annotation, PATO, phenotype and trait ontology, OBO, Open Biomedical Ontologies" />
<!-- TODO: need an icon -->
<link rel="icon" href="" type="image/png" />
@@ -19,7 +21,7 @@
<script type="text/javascript" src="/javascript/obfuscate.js"></script>
-<title>Phenote: A Phenotype Annotation Tool</title>
+<title>Phenote: A Phenotype Annotation Tool using Ontologies</title>
<!-- My comments! -->
@@ -30,7 +32,7 @@
<div id="page_head">
<div class="ehead">
-<h1>Phenote</h1>
+<h1>Phenote: A Phenotype Annotation Tool using Ontologies</h1>
</div>
<div class="jhead">
Deleted: phenote/trunk/doc/phenote-website/ssi/navi_about.html
===================================================================
--- phenote/trunk/doc/phenote-website/ssi/navi_about.html 2007-01-30 19:34:39 UTC (rev 313)
+++ phenote/trunk/doc/phenote-website/ssi/navi_about.html 2007-01-30 21:34:51 UTC (rev 314)
@@ -1,47 +0,0 @@
-<div id="navi">
-<div class="navi_head"></div>
-<ul>
- <li>
- <a href="/">Home</a>
- </li>
- <li>
- <a href="/content/projects/">Projects</a>
- </li>
- <li>
- <a href="/content/software/">Software</a>
- </li>
- <li>
- <a href="/content/publications/">Publications</a>
- </li>
- <li>
- <a href="/content/jobs/">Jobs</a>
- </li>
- <li>
- <a href="/content/about/">About</a>
- <ul>
- <li>
- <a href="/content/people/">BBOP people</a>
- </li>
- <li>
- <a href="/content/about/contact.shtml">Contact us</a>
- </li>
- <li>
- <a href="/content/about/directions.shtml">Directions</a>
- </li>
- <li>
- <a href="/content/about/area.shtml">Area Info</a>
- </li>
- </ul>
- </li>
- <li>
- <a href="/mediawiki">Wiki</a>
- </li>
- <li>
- <a href="/content/links/">Links</a>
- </li>
- <li>
- <a href="/content/faq/">FAQ</a>
- </li>
-</ul>
-</div>
-
Modified: phenote/trunk/doc/phenote-website/ssi/navi_home.html
===================================================================
--- phenote/trunk/doc/phenote-website/ssi/navi_home.html 2007-01-30 19:34:39 UTC (rev 313)
+++ phenote/trunk/doc/phenote-website/ssi/navi_home.html 2007-01-30 21:34:51 UTC (rev 314)
@@ -8,16 +8,16 @@
<a href="/">Home</a>
</li>
<li>
- <a href="/content/projects/">Background</a>
+ <a href="/content/background/">Background</a>
</li>
<li>
<a href="/content/software/">Downloads</a>
</li>
<li>
- <a href="/content/software/">Documentation</a>
+ <a href="/content/docs/">Documentation</a>
</li>
<li>
- <a href="/content/publications/">References</a>
+ <a href="/content/refs/">References</a>
</li>
<li>
<a href="/content/faq/">FAQ</a>
@@ -29,7 +29,7 @@
<a href="/content/links/">Links</a>
</li>
<li>
- <a href="/mediawiki">Wiki</a>
+ <a href="http://www.bioontology.org/wiki-internal/index.php/Phenote_-_A_Phenotype_Annotation_Tool">Internal Wiki</a>
</li>
</ul>
</div>
Deleted: phenote/trunk/doc/phenote-website/ssi/navi_publications.html
===================================================================
--- phenote/trunk/doc/phenote-website/ssi/navi_publications.html 2007-01-30 19:34:39 UTC (rev 313)
+++ phenote/trunk/doc/phenote-website/ssi/navi_publications.html 2007-01-30 21:34:51 UTC (rev 314)
@@ -1,30 +0,0 @@
-<div id="navi">
-<div class="navi_head"></div>
-<ul>
- <li>
- <a href="/">Home</a>
- </li>
- <li>
- <a href="/content/projects/">Projects</a>
- </li>
- <li>
- <a href="/content/people/">People</a>
- </li>
- <li>
- <a href="/content/publications/">Publications</a>
- </li>
- <li>
- <a href="/content/jobs/">Jobs</a>
- </li>
- <li>
- <a href="/content/about/">Contact</a>
- </li>
- <li>
- <a href="/mediawiki">Wiki</a>
- </li>
- <li>
- <a href="/content/faq/">FAQ</a>
- </li>
-</ul>
-</div>
-
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