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Commit 9d1c22d7 authored by Gareth Tribello's avatar Gareth Tribello
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Fixed bugs in documentation 

For some reason on my local linux machine doxygen does not
replace the variables $extrastylesheet and $relpath in the
PlumedUserHeader.html file.  As we are not using these variables
I deleted them from the header files.  I think this will cause problems
if we ever choose to use a custom css file for the documentation or if
we use the CREATE_SUBDIRS option.  I cannot imagine that we will ever
use these options but I thought I would mention these problems in the
log.
parent 90c82ca4
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developer-doc/PlumedDeveloperHeader.html
+ 5
− 6
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...@@ -7,21 +7,20 @@ ...@@ -7,21 +7,20 @@
<meta name="generator" content="Doxygen $doxygenversion"/> <meta name="generator" content="Doxygen $doxygenversion"/>
<!--BEGIN PROJECT_NAME--><title>$projectname: $title</title><!--END PROJECT_NAME--> <!--BEGIN PROJECT_NAME--><title>$projectname: $title</title><!--END PROJECT_NAME-->
<!--BEGIN !PROJECT_NAME--><title>$title</title><!--END !PROJECT_NAME--> <!--BEGIN !PROJECT_NAME--><title>$title</title><!--END !PROJECT_NAME-->
<link href="$relpath^tabs.css" rel="stylesheet" type="text/css"/> <link href="tabs.css" rel="stylesheet" type="text/css"/>
<script type="text/javascript" src="$relpath^jquery.js"></script> <script type="text/javascript" src="jquery.js"></script>
<script type="text/javascript" src="$relpath^dynsections.js"></script> <script type="text/javascript" src="dynsections.js"></script>
$treeview $treeview
$search $search
$mathjax $mathjax
<link href="$relpath^$stylesheet" rel="stylesheet" type="text/css" /> <link href="$stylesheet" rel="stylesheet" type="text/css" />
$extrastylesheet
</head> </head>
<body> <body>
<div id="top"><!-- do not remove this div, it is closed by doxygen! --> <div id="top"><!-- do not remove this div, it is closed by doxygen! -->
<!--BEGIN TITLEAREA--> <!--BEGIN TITLEAREA-->
<div id="titlearea"> <div id="titlearea">
<table cellspacing="0" cellpadding="0"> <table align="center" frame="void" width="98%" cellpadding="2%">
<tbody> <tbody>
<tr style="height: 30px;"> <tr style="height: 30px;">
<td valign="center"> &nbsp; <img src="../pigeon.png" width="120"/></td> <td valign="center"> &nbsp; <img src="../pigeon.png" width="120"/></td>
......
developer-doc/PlumedFooter.html
+ 3
− 3
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...@@ -12,13 +12,13 @@ ...@@ -12,13 +12,13 @@
<!--END GENERATE_TREEVIEW--> <!--END GENERATE_TREEVIEW-->
<!--BEGIN !GENERATE_TREEVIEW--> <!--BEGIN !GENERATE_TREEVIEW-->
<hr class="footer"/><address class="footer"><small> <hr class="footer"/><address class="footer"><small>
<table> <table align="center" frame="void" width="98%" cellpadding="2%">
<tr><td align="left" valign="center"> <tr><td align="left" valign="center">
Hosted by &nbsp; Hosted by &nbsp;
<a href="http://developer.berlios.de"><img src="http://developer.berlios.de/bslogo.php?group_id=11362" width="124" height="32" alt="BerliOS Logo" /></a> <a href="http://developer.berlios.de"><img src="http://developer.berlios.de/bslogo.php?group_id=11362" width="124" height="32" alt="BerliOS Logo" /></a>
<!--$generatedby &#160; --> <a href="http://www.doxygen.org/index.html"> <!--$generatedby &#160; --> <a href="http://www.doxygen.org/index.html">
</td><td width=88% align="right"> </td><td width=90% align="right">
<img class="footer" src="$relpath^doxygen.png" alt="doxygen" align="right"/> <img class="footer" src="doxygen.png" alt="doxygen" align="right"/>
</a> $doxygenversion </a> $doxygenversion
</td> </tr> </td> </tr>
</table> </table>
......
user-doc/PlumedFooter.html
+ 3
− 3
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...@@ -12,13 +12,13 @@ ...@@ -12,13 +12,13 @@
<!--END GENERATE_TREEVIEW--> <!--END GENERATE_TREEVIEW-->
<!--BEGIN !GENERATE_TREEVIEW--> <!--BEGIN !GENERATE_TREEVIEW-->
<hr class="footer"/><address class="footer"><small> <hr class="footer"/><address class="footer"><small>
<table> <table align="center" frame="void" width="98%" cellpadding="2%">
<tr><td align="left" valign="center"> <tr><td align="left" valign="center">
Hosted by &nbsp; Hosted by &nbsp;
<a href="http://developer.berlios.de"><img src="http://developer.berlios.de/bslogo.php?group_id=11362" width="124" height="32" alt="BerliOS Logo" /></a> <a href="http://developer.berlios.de"><img src="http://developer.berlios.de/bslogo.php?group_id=11362" width="124" height="32" alt="BerliOS Logo" /></a>
<!--$generatedby &#160; --> <a href="http://www.doxygen.org/index.html"> <!--$generatedby &#160; --> <a href="http://www.doxygen.org/index.html">
</td><td width=88% align="right"> </td><td width=90% align="right">
<img class="footer" src="$relpath^doxygen.png" alt="doxygen" align="right"/> <img class="footer" src="doxygen.png" alt="doxygen" align="right"/>
</a> $doxygenversion </a> $doxygenversion
</td> </tr> </td> </tr>
</table> </table>
......
user-doc/PlumedLayout.xml
+ 0
− 1
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...@@ -21,7 +21,6 @@ ...@@ -21,7 +21,6 @@
<tab type="filelist" visible="yes" title="" intro=""/> <tab type="filelist" visible="yes" title="" intro=""/>
<tab type="globals" visible="yes" title="" intro=""/> <tab type="globals" visible="yes" title="" intro=""/>
</tab> </tab>
<tab type="dirs" visible="yes" title="" intro=""/>
<tab type="examples" visible="yes" title="" intro=""/> <tab type="examples" visible="yes" title="" intro=""/>
</navindex> </navindex>
......
user-doc/PlumedUserHeader.html
+ 5
− 6
View file @ 9d1c22d7
...@@ -7,21 +7,20 @@ ...@@ -7,21 +7,20 @@
<meta name="generator" content="Doxygen $doxygenversion"/> <meta name="generator" content="Doxygen $doxygenversion"/>
<!--BEGIN PROJECT_NAME--><title>$projectname: $title</title><!--END PROJECT_NAME--> <!--BEGIN PROJECT_NAME--><title>$projectname: $title</title><!--END PROJECT_NAME-->
<!--BEGIN !PROJECT_NAME--><title>$title</title><!--END !PROJECT_NAME--> <!--BEGIN !PROJECT_NAME--><title>$title</title><!--END !PROJECT_NAME-->
<link href="$relpath^tabs.css" rel="stylesheet" type="text/css"/> <link href="tabs.css" rel="stylesheet" type="text/css"/>
<script type="text/javascript" src="$relpath^jquery.js"></script> <script type="text/javascript" src="jquery.js"></script>
<script type="text/javascript" src="$relpath^dynsections.js"></script> <script type="text/javascript" src="dynsections.js"></script>
$treeview $treeview
$search $search
$mathjax $mathjax
<link href="$relpath^$stylesheet" rel="stylesheet" type="text/css" /> <link href="$stylesheet" rel="stylesheet" type="text/css" />
$extrastylesheet
</head> </head>
<body> <body>
<div id="top"><!-- do not remove this div, it is closed by doxygen! --> <div id="top"><!-- do not remove this div, it is closed by doxygen! -->
<!--BEGIN TITLEAREA--> <!--BEGIN TITLEAREA-->
<div id="titlearea"> <div id="titlearea">
<table cellspacing="0" cellpadding="0"> <table align="center" frame="void" width="98%" cellpadding="2%">
<tbody> <tbody>
<tr style="height: 30px;"> <tr style="height: 30px;">
<td valign="center"> &nbsp; <img src="../pigeon.png" width="120"/></td> <td valign="center"> &nbsp; <img src="../pigeon.png" width="120"/></td>
......
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