diff --git a/docs/README.txt b/docs/install_examples/README.txt
similarity index 100%
rename from docs/README.txt
rename to docs/install_examples/README.txt
diff --git a/tools/Makefile.in b/tools/Makefile.in
index 287cddbd2..18c8e502d 100644
--- a/tools/Makefile.in
+++ b/tools/Makefile.in
@@ -35,9 +35,6 @@ clean:
 	cd src; @MAKE@ clean
 	cd testtools; @MAKE@ clean
 
-docs:
-	cd doc; doxygen Cantera.cfg
-
 depends:
 	cd src; @MAKE@ depends
 	cd testtools; @MAKE@ depends
diff --git a/tools/doc/.cvsignore b/tools/doc/.cvsignore
deleted file mode 100644
index ffc15abf8..000000000
--- a/tools/doc/.cvsignore
+++ /dev/null
@@ -1,2 +0,0 @@
-Makefile
-Cantera.cfg
diff --git a/tools/doc/README b/tools/doc/README
deleted file mode 100644
index 036298805..000000000
--- a/tools/doc/README
+++ /dev/null
@@ -1,15 +0,0 @@
-Doxygen information:
-
-
-The current version is 1.4.7: 
-I have version 1.3.9.1
-
-Support is provided in the following versions for the following features
-
-SEPARATE_MEMBER_PAGES = 1.4.2
-FILE_VERSION_FILTER   = 1.4.0
-WARN_NO_PARAMDOC      = 1.4.0
-GROUP_GRAPHS          = 1.4.0
-DIRECTORY_GRAPHS      = 1.4.0
-DOT_TRANSPARENT       = 1.4.0
-DOT_MULTI_TARGET      =1.4.0
diff --git a/tools/doc/ct.css b/tools/doc/ct.css
deleted file mode 100755
index ba2a320e5..000000000
--- a/tools/doc/ct.css
+++ /dev/null
@@ -1,52 +0,0 @@
-A.qindex{  font-family: Verdana, Arial, Helvetica, sans-serif; font-weight: bold; color: #663366; text-decoration: none; font-size: smaller; }
-A.qindexRef{  font-family: Verdana, Arial, Helvetica, sans-serif; color: #333366; text-decoration: none; font-size: smaller; }
-BODY { font-family: Arial, Helvetica, sans-serif; font-weight: normal; }
-H1 { font-family: Arial, Helvetica, sans-serif; font-weight: normal; text-align: center; font-size: large}
-H2 { font-family: Arial, Helvetica, sans-serif; font-weight: normal; font-size: large}
-H3 { font-family: Arial, Helvetica, sans-serif; font-weight: normal }
-A.el { text-decoration: none; font-weight: bold }
-A.elRef { font-weight: bold }
-A.code { text-decoration: none; font-weight: normal; }
-A.codeRef { font-weight: normal;}
-a.headerref {color: #ffffff; text-decoration: none }
-DL.el { margin-left: -1cm }
-DIV.fragment { width: 100%; border: none; background-color: #eeeeee }
-DIV.ah { background-color: #663333; margin-bottom: 3 px; margin-top: 3 px }
-TD.md { background-color: #f2f2ff; font-weight: bold; }
-TD.mdname1 { background-color: #f2f2ff; font-weight: bold; color: #602020; }
-TD.mdname { background-color: #f2f2ff; font-weight: bold; color: #602020; width: 600px; }
-DIV.groupHeader { margin-left: 16px; margin-top: 12px; margin-bottom: 6px; font-weight: bold }
-DIV.groupText { margin-left: 16px; font-style: italic; font-size: smaller }
-
-TD.indexkey { 
-   background-color: #eeeeff; 
-   font-weight: bold; 
-   padding-right  : 10px; 
-   padding-top    : 2px; 
-   padding-left   : 10px; 
-   padding-bottom : 2px; 
-   margin-left    : 0px; 
-   margin-right   : 0px; 
-   margin-top     : 2px; 
-   margin-bottom  : 2px  
-}
-TD.indexvalue { 
-   background-color: #eeeeff; 
-   font-style: italic; 
-   padding-right  : 10px; 
-   padding-top    : 2px; 
-   padding-left   : 10px; 
-   padding-bottom : 2px; 
-   margin-left    : 0px; 
-   margin-right   : 0px; 
-   margin-top     : 2px; 
-   margin-bottom  : 2px  
-}
-FONT.keyword       { color: #008000 }
-FONT.keywordtype   { color: #604020 }
-FONT.keywordflow   { color: #e08000 }
-FONT.comment       { color: #800000 }
-FONT.preprocessor  { color: #806020 }
-FONT.stringliteral { color: #002080 }
-FONT.charliteral   { color: #008080 }
-
diff --git a/tools/doc/footer.html b/tools/doc/footer.html
deleted file mode 100755
index 30ddd178a..000000000
--- a/tools/doc/footer.html
+++ /dev/null
@@ -1,16 +0,0 @@
-</td></tr></table>
-<hr>
-<table cellspacing="0" cellpadding="0" border="0" bgcolor="#ffffff" width=100%>
-   <tr>
-      <td><div align="center"><i><font face="Arial, Helvetica, sans-serif" color="#66333" size=-1>created by <a href="mailto:dgoodwin@caltech.edu">Prof. David G. Goodwin</a></font> </i></div></td></tr>
-      <td><div align="center"><i><font face="Arial, Helvetica, sans-serif" color="#66333" size=-1>Copyright (c) 2005 California Institute of Technology</font> </i></div></td></tr></table>
-
-
-
-
-
-
-
-
-
-
diff --git a/tools/doc/header.html b/tools/doc/header.html
deleted file mode 100755
index 17e4b8b0f..000000000
--- a/tools/doc/header.html
+++ /dev/null
@@ -1,25 +0,0 @@
-<!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.0 Transitional//EN">
-<html><head><meta name="robots" content="noindex">
-<meta http-equiv="Content-Type" content="text/html;charset=iso-8859-1">
-<title>Cantera Reference Manual</title>
-<link href="ct.css" rel="stylesheet" type="text/css">
-
-</head>
-<body  topmargin="0" leftmargin="0" marginwidth="0" marginheight="0"  
-bgcolor="#FFFFFF" text="#000000" link="#663333" vlink="#663333" alink="#666600">
- 
-<table cellspacing="0" cellpadding="2" border="0" bgcolor="#753400" width=100%>
-   <tr>
-      <td><div align="left"><b><font face="Arial, Helvetica, sans-serif" color="#fffff">
-    <a href="http://www.cantera.org" class=headerref>C a n t e r a</a> </font> </b></div></td>
-  </tr>
-</table>
-
-
-
-
-
-
-
-
-