First version of Stork

Makefile

+###############################################################################
+################### MOOSE Application Standard Makefile #######################
+###############################################################################
+#
+# Required Make variables
+# APP_NAME	- the name of this application (all lower case)
+# MOOSE_DIR	- location of the MOOSE framework
+# ELK_DIR	- location of ELK (if enabled)
+# BISON_DIR	- location of BISON
+# MARMOT_DIR	- location of MARMOT
+#
+# Optional Environment variables
+# CURR_DIR	- current directory (DO NOT MODIFY THIS VARIABLE)
+#
+#
+# Note: Make sure that there is no whitespace after the word 'yes' if enabling
+# an application
+###############################################################################
+CURR_DIR        ?= $(shell pwd)
+ROOT_DIR        ?= $(shell dirname `pwd`)
+
+ifeq ($(MOOSE_DEV),true)
+	MOOSE_DIR ?= $(ROOT_DIR)/devel/moose
+else
+	MOOSE_DIR ?= $(ROOT_DIR)/moose
+endif
+
+ELK_DIR         ?= $(ROOT_DIR)/elk
+STORK_DIR     ?= $(ROOT_DIR)/stork
+
+APPLICATION_NAME := stork
+
+DEP_APPS    ?= $(shell $(MOOSE_DIR)/scripts/find_dep_apps.py $(APPLICATION_NAME))
+
+################################## ELK MODULES ################################
+ALL_ELK_MODULES := yes
+###############################################################################
+
+
+include $(MOOSE_DIR)/build.mk
+
+include $(MOOSE_DIR)/moose.mk
+include $(ELK_DIR)/elk.mk
+include $(STORK_DIR)/stork.mk
+
+###############################################################################
+# Additional special case targets should be added here

doc/doxygen/blank.html

+<style type="text/css">
+        h1 { text-align: center; }
+</style>

doc/doxygen/doxygen.css

+/* The standard CSS for doxygen */
+
+body, table, div, p, dl {
+	font-family: Lucida Grande, Verdana, Geneva, Arial, sans-serif;
+	font-size: 14px;
+}
+
+/* @group Heading Levels */
+
+h1 {
+	font-size: 150%;
+}
+
+h2 {
+	font-size: 120%;
+}
+
+h3 {
+	font-size: 100%;
+}
+
+dt {
+	font-weight: bold;
+}
+
+div.multicol {
+	-moz-column-gap: 1em;
+	-webkit-column-gap: 1em;
+	-moz-column-count: 3;
+	-webkit-column-count: 3;
+}
+
+p.startli, p.startdd, p.starttd {
+	margin-top: 2px;
+}
+
+p.endli {
+	margin-bottom: 0px;
+}
+
+p.enddd {
+	margin-bottom: 4px;
+}
+
+p.endtd {
+	margin-bottom: 2px;
+}
+
+/* @end */
+
+caption {
+	font-weight: bold;
+}
+
+span.legend {
+        font-size: 70%;
+        text-align: center;
+}
+
+h3.version {
+        font-size: 90%;
+        text-align: center;
+}
+
+div.qindex, div.navtab{
+	background-color: #EBEFF6;
+	border: 1px solid #A3B4D7;
+	text-align: center;
+	margin: 2px;
+	padding: 2px;
+}
+
+div.qindex, div.navpath {
+	width: 100%;
+	line-height: 140%;
+}
+
+div.navtab {
+	margin-right: 15px;
+}
+
+/* @group Link Styling */
+
+a {
+	color: #3D578C;
+	font-weight: normal;
+	text-decoration: none;
+}
+
+.contents a:visited {
+	color: #4665A2;
+}
+
+a:hover {
+	text-decoration: underline;
+}
+
+a.qindex {
+	font-weight: bold;
+}
+
+a.qindexHL {
+	font-weight: bold;
+	background-color: #9CAFD4;
+	color: #ffffff;
+	border: 1px double #869DCA;
+}
+
+.contents a.qindexHL:visited {
+        color: #ffffff;
+}
+
+a.el {
+	font-weight: bold;
+}
+
+a.elRef {
+}
+
+a.code {
+	color: #4665A2;
+}
+
+a.codeRef {
+	color: #4665A2;
+}
+
+/* @end */
+
+dl.el {
+	margin-left: -1cm;
+}
+
+.fragment {
+	font-family: monospace, fixed;
+	font-size: 105%;
+}
+
+pre.fragment {
+	border: 1px solid #C4CFE5;
+	background-color: #FBFCFD;
+	padding: 4px 6px;
+	margin: 4px 8px 4px 2px;
+	overflow: auto;
+	word-wrap: break-word;
+	font-size:  11pt;
+	line-height: 125%;
+}
+
+div.ah {
+	background-color: black;
+	font-weight: bold;
+	color: #ffffff;
+	margin-bottom: 3px;
+	margin-top: 3px;
+	padding: 0.2em;
+	border: solid thin #333;
+	border-radius: 0.5em;
+	-webkit-border-radius: .5em;
+	-moz-border-radius: .5em;
+	box-shadow: 2px 2px 3px #999;
+	-webkit-box-shadow: 2px 2px 3px #999;
+	-moz-box-shadow: rgba(0, 0, 0, 0.15) 2px 2px 2px;
+	background-image: -webkit-gradient(linear, left top, left bottom, from(#eee), to(#000),color-stop(0.3, #444));
+	background-image: -moz-linear-gradient(center top, #eee 0%, #444 40%, #000);
+}
+
+div.groupHeader {
+	margin-left: 16px;
+	margin-top: 12px;
+	font-weight: bold;
+}
+
+div.groupText {
+	margin-left: 16px;
+	font-style: italic;
+}
+
+body {
+	background: white;
+	color: black;
+        margin: 0;
+}
+
+div.contents {
+	margin-top: 10px;
+	margin-left: 10px;
+	margin-right: 10px;
+}
+
+td.indexkey {
+	background-color: #EBEFF6;
+	font-weight: bold;
+	border: 1px solid #C4CFE5;
+	margin: 2px 0px 2px 0;
+	padding: 2px 10px;
+}
+
+td.indexvalue {
+	background-color: #EBEFF6;
+	border: 1px solid #C4CFE5;
+	padding: 2px 10px;
+	margin: 2px 0px;
+}
+
+tr.memlist {
+	background-color: #EEF1F7;
+}
+
+p.formulaDsp {
+	text-align: center;
+}
+
+img.formulaDsp {
+	
+}
+
+img.formulaInl {
+	vertical-align: middle;
+}
+
+div.center {
+	text-align: center;
+        margin-top: 0px;
+        margin-bottom: 0px;
+        padding: 0px;
+}
+
+div.center img {
+	border: 0px;
+}
+
+address.footer {
+	text-align: right;
+	padding-right: 12px;
+}
+
+img.footer {
+	border: 0px;
+	vertical-align: middle;
+}
+
+/* @group Code Colorization */
+
+span.keyword {
+	color: #008000
+}
+
+span.keywordtype {
+	color: #604020
+}
+
+span.keywordflow {
+	color: #e08000
+}
+
+span.comment {
+	color: #800000
+}
+
+span.preprocessor {
+	color: #806020
+}
+
+span.stringliteral {
+	color: #002080
+}
+
+span.charliteral {
+	color: #008080
+}
+
+span.vhdldigit { 
+	color: #ff00ff 
+}
+
+span.vhdlchar { 
+	color: #000000 
+}
+
+span.vhdlkeyword { 
+	color: #700070 
+}
+
+span.vhdllogic { 
+	color: #ff0000 
+}
+
+/* @end */
+
+/*
+.search {
+	color: #003399;
+	font-weight: bold;
+}
+
+form.search {
+	margin-bottom: 0px;
+	margin-top: 0px;
+}
+
+input.search {
+	font-size: 75%;
+	color: #000080;
+	font-weight: normal;
+	background-color: #e8eef2;
+}
+*/
+
+td.tiny {
+	font-size: 75%;
+}
+
+.dirtab {
+	padding: 4px;
+	border-collapse: collapse;
+	border: 1px solid #A3B4D7;
+}
+
+th.dirtab {
+	background: #EBEFF6;
+	font-weight: bold;
+}
+
+hr {
+	height: 0px;
+	border: none;
+	border-top: 1px solid #4A6AAA;
+}
+
+hr.footer {
+	height: 1px;
+}
+
+/* @group Member Descriptions */
+
+table.memberdecls {
+	border-spacing: 0px;
+	padding: 0px;
+}
+
+.mdescLeft, .mdescRight,
+.memItemLeft, .memItemRight,
+.memTemplItemLeft, .memTemplItemRight, .memTemplParams {
+	background-color: #F9FAFC;
+	border: none;
+	margin: 4px;
+	padding: 1px 0 0 8px;
+}
+
+.mdescLeft, .mdescRight {
+	padding: 0px 8px 4px 8px;
+	color: #555;
+}
+
+.memItemLeft, .memItemRight, .memTemplParams {
+	border-top: 1px solid #C4CFE5;
+}
+
+.memItemLeft, .memTemplItemLeft {
+        white-space: nowrap;
+}
+
+.memTemplParams {
+	color: #4665A2;
+        white-space: nowrap;
+}
+
+/* @end */
+
+/* @group Member Details */
+
+/* Styles for detailed member documentation */
+
+.memtemplate {
+	font-size: 80%;
+	color: #4665A2;
+	font-weight: normal;
+	margin-left: 9px;
+}
+
+.memnav {
+	background-color: #EBEFF6;
+	border: 1px solid #A3B4D7;
+	text-align: center;
+	margin: 2px;
+	margin-right: 15px;
+	padding: 2px;
+}
+
+.memitem {
+	padding: 0;
+	margin-bottom: 10px;
+}
+
+.memname {
+        white-space: nowrap;
+        font-weight: bold;
+        margin-left: 6px;
+}
+
+.memproto {
+        border-top: 1px solid #A8B8D9;
+        border-left: 1px solid #A8B8D9;
+        border-right: 1px solid #A8B8D9;
+        padding: 6px 0px 6px 0px;
+        color: #253555;
+        font-weight: bold;
+        text-shadow: 0px 1px 1px rgba(255, 255, 255, 0.9);
+        /* opera specific markup */
+        box-shadow: 5px 5px 5px rgba(0, 0, 0, 0.15);
+        border-top-right-radius: 8px;
+        border-top-left-radius: 8px;
+        /* firefox specific markup */
+        -moz-box-shadow: rgba(0, 0, 0, 0.15) 5px 5px 5px;
+        -moz-border-radius-topright: 8px;
+        -moz-border-radius-topleft: 8px;
+        /* webkit specific markup */
+        -webkit-box-shadow: 5px 5px 5px rgba(0, 0, 0, 0.15);
+        -webkit-border-top-right-radius: 8px;
+        -webkit-border-top-left-radius: 8px;
+        background-image:url('nav_f.png');
+        background-repeat:repeat-x;
+        background-color: #E2E8F2;
+
+}
+
+.memdoc {
+        border-bottom: 1px solid #A8B8D9;      
+        border-left: 1px solid #A8B8D9;      
+        border-right: 1px solid #A8B8D9; 
+        padding: 2px 5px;
+        background-color: #FBFCFD;
+        border-top-width: 0;
+        /* opera specific markup */
+        border-bottom-left-radius: 8px;
+        border-bottom-right-radius: 8px;
+        box-shadow: 5px 5px 5px rgba(0, 0, 0, 0.15);
+        /* firefox specific markup */
+        -moz-border-radius-bottomleft: 8px;
+        -moz-border-radius-bottomright: 8px;
+        -moz-box-shadow: rgba(0, 0, 0, 0.15) 5px 5px 5px;
+        background-image: -moz-linear-gradient(center top, #FFFFFF 0%, #FFFFFF 60%, #F7F8FB 95%, #EEF1F7);
+        /* webkit specific markup */
+        -webkit-border-bottom-left-radius: 8px;
+        -webkit-border-bottom-right-radius: 8px;
+        -webkit-box-shadow: 5px 5px 5px rgba(0, 0, 0, 0.15);
+        background-image: -webkit-gradient(linear,center top,center bottom,from(#FFFFFF), color-stop(0.6,#FFFFFF), color-stop(0.60,#FFFFFF), color-stop(0.95,#F7F8FB), to(#EEF1F7));
+}
+
+.paramkey {
+	text-align: right;
+}
+
+.paramtype {
+	white-space: nowrap;
+}
+
+.paramname {
+	color: #602020;
+	white-space: nowrap;
+}
+.paramname em {
+	font-style: normal;
+}
+
+.params, .retval, .exception, .tparams {
+        border-spacing: 6px 2px;
+}       
+
+.params .paramname, .retval .paramname {
+        font-weight: bold;
+        vertical-align: top;
+}
+        
+.params .paramtype {
+        font-style: italic;
+        vertical-align: top;
+}       
+        
+.params .paramdir {
+        font-family: "courier new",courier,monospace;
+        vertical-align: top;
+}
+
+
+
+
+/* @end */
+
+/* @group Directory (tree) */
+
+/* for the tree view */
+
+.ftvtree {
+	font-family: sans-serif;
+	margin: 0px;
+}
+
+/* these are for tree view when used as main index */
+
+.directory {
+	font-size: 10pt;
+	font-weight: bold;
+	margin: 5px;
+}
+
+.directory h3 {
+	margin: 0px;
+	margin-top: 1em;
+	font-size: 11pt;
+}
+
+/*
+The following two styles can be used to replace the root node title
+with an image of your choice.  Simply uncomment the next two styles,
+specify the name of your image and be sure to set 'height' to the
+proper pixel height of your image.
+*/
+
+/*
+.directory h3.swap {
+	height: 61px;
+	background-repeat: no-repeat;
+	background-image: url("yourimage.gif");
+}
+.directory h3.swap span {
+	display: none;
+}
+*/
+
+.directory > h3 {
+	margin-top: 0;
+}
+
+.directory p {
+	margin: 0px;
+	white-space: nowrap;
+}
+
+.directory div {
+	display: none;
+	margin: 0px;
+}
+
+.directory img {
+	vertical-align: -30%;
+}
+
+/* these are for tree view when not used as main index */
+
+.directory-alt {
+	font-size: 100%;
+	font-weight: bold;
+}
+
+.directory-alt h3 {
+	margin: 0px;
+	margin-top: 1em;
+	font-size: 11pt;
+}
+
+.directory-alt > h3 {
+	margin-top: 0;
+}
+
+.directory-alt p {
+	margin: 0px;
+	white-space: nowrap;
+}
+
+.directory-alt div {
+	display: none;
+	margin: 0px;
+}
+
+.directory-alt img {
+	vertical-align: -30%;