Hugh Philipp's Webpage

Click the button to start/stop animation
<div class='SVGgraph' options="height:300,scales:[-2,2,-1,3],border:'black 1px dotted'">
function goforit(){
SVG.locked = !SVG.locked;
if(animate==true){
timer = setInterval(roll,100);
} else {
clearInterval(timer);
}
animate=!animate;
return false;
}

function roll(){
time+=0.1;
var theta = PI/4*sin(sqrt(4.9)*time);
rotate("line",theta,{center:[0,2],replace:true});
}

var timer;
var time=0;
var animate=true;
rect([-1.5,2],[1.5,2.25],{fill:"red",stroke:"red"});

line([0,2],[0,0],{id:"line",marker:"--*",size:50,strokewidth:2,stroke:"yellow"});
button([SVG.xmax-0.75,SVG.ymin],[SVG.xmax,SVG.ymin+0.3],"start",goforit,{fill:"green",fillopacity:0.5,rx:0.05,ry:0.05,stroke:"yellow"});
</div>

<div class='SVGgraph'>
curve([[0,0],[1,1],[0,2],[3,1]],{marker:'oso',markerfill:"yellow"});
</div>

[[Main]]

<div style='margin-right:auto;margin-left:auto' class='SVGgraph' options='width:200,height:200,scales:[-1.1,1.1]'>
a = []
n = 9
 for (i = 0; i < n; i++)
 a[i] = [cos(PI/4*(-1)*i+PI/2),
 sin(PI/4*(-1)*i+PI/2)]
path([a[0],a[3],a[6],a[1],a[4],a[7],a[2],a[5],
 a[0],a[4],a[5],a[1],a[2],a[6],a[7],a[3]])
path(a,{marker:"oo",markerfill:"orange"})
</div>
<div class='SVGgraph' options='width:250,height:250,scales:[-10,10]'>
axes({dx:2});
polarPlot("x/PI",{min:0,max:10*PI,stroke:"red"});
</div>

<div class='SVGgraph' options='width:120,height:120,scales:[-0.5,1.5,-0.5,1.5]'>
var a=[0,1];
var b=[1,1];
var c=[1,0];
var d=[0,0];
path([b,d,a,c]);
path([a,b,c,d],{marker:"ooo",markerfill:"yellow",label:["a","b","c","d"],pos:["nw","ne","se","sw"]});
text([.5,-0.5],"$K_4$",{pos:"n"});
</div>

|!Marker text |!Marker|!Description|
| {{{s}}} | <span class='SVGgraph' options='height:20'>dot([0,0],{marker:"s",size:8});</span> | Open square (can be filled using {{{markerfill}}}) |
| {{{S}}} | <span class='SVGgraph' options='height:20'>dot([0,0],{marker:"S",size:8});</span> | Filled square (using {{{markerstroke}}} colour, {{{markerfill}}} is ignored) |

<div class='SVGgraph' options="scales:[-1.5,3.5,-.6,2], border:'red 5px solid'">
 axes();
 area("pow(x,2)","0.01",{min:0, max:1, stroke:"none",fill:"#ddd",points:50});
 setOptions({stroke:"blue"});
 plot("pow(x,2)");
 text([2,0.5],"$=\\int_0^1 x^2\\,dx=\\frac{1}{3}$");
</div>

/***
|Name|InlineJavascriptPlugin|
|Source|http://www.TiddlyTools.com/#InlineJavascriptPlugin|
|Documentation|http://www.TiddlyTools.com/#InlineJavascriptPluginInfo|
|Version|1.9.6|
|Author|Eric Shulman|
|License|http://www.TiddlyTools.com/#LegalStatements|
|~CoreVersion|2.1|
|Type|plugin|
|Description|Insert Javascript executable code directly into your tiddler content.|
''Call directly into TW core utility routines, define new functions, calculate values, add dynamically-generated TiddlyWiki-formatted output'' into tiddler content, or perform any other programmatic actions each time the tiddler is rendered.
!!!!!Documentation
>see [[InlineJavascriptPluginInfo]]
!!!!!Revisions
<<<
2010.12.15 1.9.6 allow (but ignore) type="..." syntax
|please see [[InlineJavascriptPluginInfo]] for additional revision details|
2005.11.08 1.0.0 initial release
<<<
!!!!!Code
***/
//{{{
version.extensions.InlineJavascriptPlugin= {major: 1, minor: 9, revision: 6, date: new Date(2010,12,15)};

config.formatters.push( {
	name: "inlineJavascript",
	match: "\\<script",
	lookahead: "\\<script(?: type=\\\"[^\\\"]*\\\")?(?: src=\\\"([^\\\"]*)\\\")?(?: label=\\\"([^\\\"]*)\\\")?(?: title=\\\"([^\\\"]*)\\\")?(?: key=\\\"([^\\\"]*)\\\")?( show)?\\>((?:.|\\n)*?)\\</script\\>",
	handler: function(w) {
		var lookaheadRegExp = new RegExp(this.lookahead,"mg");
		lookaheadRegExp.lastIndex = w.matchStart;
		var lookaheadMatch = lookaheadRegExp.exec(w.source)
		if(lookaheadMatch && lookaheadMatch.index == w.matchStart) {
			var src=lookaheadMatch[1];
			var label=lookaheadMatch[2];
			var tip=lookaheadMatch[3];
			var key=lookaheadMatch[4];
			var show=lookaheadMatch[5];
			var code=lookaheadMatch[6];
			if (src) { // external script library
				var script = document.createElement("script"); script.src = src;
				document.body.appendChild(script); document.body.removeChild(script);
			}
			if (code) { // inline code
				if (show) // display source in tiddler
					wikify("{{{\n"+lookaheadMatch[0]+"\n}}}\n",w.output);
				if (label) { // create 'onclick' command link
					var link=createTiddlyElement(w.output,"a",null,"tiddlyLinkExisting",wikifyPlainText(label));
					var fixup=code.replace(/document.write\s*\(/gi,'place.bufferedHTML+=(');
					link.code="function _out(place,tiddler){"+fixup+"\n};_out(this,this.tiddler);"
					link.tiddler=w.tiddler;
					link.onclick=function(){
						this.bufferedHTML="";
						try{ var r=eval(this.code);
							if(this.bufferedHTML.length || (typeof(r)==="string")&&r.length)
								var s=this.parentNode.insertBefore(document.createElement("span"),this.nextSibling);
							if(this.bufferedHTML.length)
								s.innerHTML=this.bufferedHTML;
							if((typeof(r)==="string")&&r.length) {
								wikify(r,s,null,this.tiddler);
								return false;
							} else return r!==undefined?r:false;
						} catch(e){alert(e.description||e.toString());return false;}
					};
					link.setAttribute("title",tip||"");
					var URIcode='javascript:void(eval(decodeURIComponent(%22(function(){try{';
					URIcode+=encodeURIComponent(encodeURIComponent(code.replace(/\n/g,' ')));
					URIcode+='}catch(e){alert(e.description||e.toString())}})()%22)))';
					link.setAttribute("href",URIcode);
					link.style.cursor="pointer";
					if (key) link.accessKey=key.substr(0,1); // single character only
				}
				else { // run script immediately
					var fixup=code.replace(/document.write\s*\(/gi,'place.innerHTML+=(');
					var c="function _out(place,tiddler){"+fixup+"\n};_out(w.output,w.tiddler);";
					try	 { var out=eval(c); }
					catch(e) { out=e.description?e.description:e.toString(); }
					if (out && out.length) wikify(out,w.output,w.highlightRegExp,w.tiddler);
				}
			}
			w.nextMatch = lookaheadMatch.index + lookaheadMatch[0].length;
		}
	}
} )
//}}}

// // Backward-compatibility for TW2.1.x and earlier
//{{{
if (typeof(wikifyPlainText)=="undefined") window.wikifyPlainText=function(text,limit,tiddler) {
	if(limit > 0) text = text.substr(0,limit);
	var wikifier = new Wikifier(text,formatter,null,tiddler);
	return wikifier.wikifyPlain();
}
//}}}

// // GLOBAL FUNCTION: $(...) -- 'shorthand' convenience syntax for document.getElementById()
//{{{
if (typeof($)=='undefined') { function $(id) { return document.getElementById(id.replace(/^#/,'')); } }
//}}}

/***
|Name|InlineJavascriptPluginInfo|
|Source|http://www.TiddlyTools.com/#InlineJavascriptPlugin|
|Documentation|http://www.TiddlyTools.com/#InlineJavascriptPluginInfo|
|Version|1.9.6|
|Author|Eric Shulman|
|License|http://www.TiddlyTools.com/#LegalStatements|
|~CoreVersion|2.1|
|Type|documentation|
|Description|Documentation for InlineJavascriptPlugin|
''Call directly into TW core utility routines, define new functions, calculate values, add dynamically-generated TiddlyWiki-formatted output'' into tiddler content, or perform any other programmatic actions each time the tiddler is rendered.
!!!!!Usage
<<<
This plugin adds wiki syntax for surrounding tiddler content with {{{<script>}}} and {{{</script>}}} markers, so that it can be recognized as embedded javascript code.  When a tiddler is rendered, the plugin automatically invokes any embedded scripts, which can be used to construct and return dynamically-generated output that is inserted into the tiddler content.
{{{
<script type="..." src="..." label="..." title="..." key="..." show>
	/* javascript code goes here... */
</script>
}}}
All parameters are //optional//.    When the ''show'' keyword is used, the plugin will also include the script source code in the output that it displays in the tiddler.  This is helpful when creating examples for documentation purposes (such as used in this tiddler!)

__''Deferred execution from an 'onClick' link''__
<script label="click here" title="mouseover tooltip text" key="X" show>
	/* javascript code goes here... */
	alert('you clicked on the link!');
</script>
By including a {{{label="..."}}} parameter in the initial {{{<script>}}} marker, the plugin will create a link to an 'onclick' script that will only be executed when that specific link is clicked, rather than running the script each time the tiddler is rendered.  You may also include a {{{title="..."}}} parameter to specify the 'tooltip' text that will appear whenever the mouse is moved over the onClick link text, and a {{{key="X"}}} parameter to specify an //access key// (which must be a //single// letter or numeric digit only).

__''Loading scripts from external source files''__
<script src="URL" show>
	/* optional javascript code goes here... */
</script>You can also load javascript directly from an external source URL, by including a src="..." parameter in the initial {{{<script>}}} marker (e.g., {{{<script src="demo.js"></script>}}}).  This is particularly useful when incorporating third-party javascript libraries for use in custom extensions and plugins.  The 'foreign' javascript code remains isolated in a separate file that can be easily replaced whenever an updated library file becomes available.

In addition to loading the javascript from the external file, you can also use this feature to invoke javascript code contained within the {{{<script>...</script>}}} markers.  This code is invoked //after// the external script file has been processed, and can make immediate use of the functions and/or global variables defined by the external script file.
>Note: To ensure that your javascript functions are always available when needed, you should load the libraries from a tiddler that is rendered as soon as your TiddlyWiki document is opened, such as MainMenu.  For example: put your {{{<script src="..."></script>}}} syntax into a separate 'library' tiddler (e.g., LoadScripts), and then add {{{<<tiddler LoadScripts>>}}} to MainMenu so that the library is loaded before any other tiddlers that rely upon the functions it defines. 
>
>Normally, loading external javascript in this way does not produce any direct output, and should not have any impact on the appearance of your MainMenu.  However, if your LoadScripts tiddler contains notes or other visible content, you can suppress this output by using 'inline CSS' in the MainMenu, like this: {{{@@display:none;<<tiddler LoadScripts>>@@}}}
<<<
!!!!!Creating dynamic tiddler content and accessing the ~TiddlyWiki DOM
<<<
An important difference between TiddlyWiki inline scripting and conventional embedded javascript techniques for web pages is the method used to produce output that is dynamically inserted into the document: in a typical web document, you use the {{{document.write()}}} (or {{{document.writeln()}}}) function to output text sequences (often containing HTML tags) that are then rendered when the entire document is first loaded into the browser window.

However, in a ~TiddlyWiki document, tiddlers (and other DOM elements) are created, deleted, and rendered "on-the-fly", so writing directly to the global 'document' object does not produce the results you want (i.e., replacing the embedded script within the tiddler content), and instead will //completely replace the entire ~TiddlyWiki document in your browser window (which is clearly not a good thing!)//.  In order to allow scripts to use {{{document.write()}}}, the plugin automatically converts and buffers all HTML output so it can be safely inserted into your tiddler content, immediately following the script.

''Note that {{{document.write()}}} can only be used to output "pure HTML" syntax.  To produce //wiki-formatted// output, your script should instead return a text value containing the desired wiki-syntax content'', which will then be automatically rendered immediately following the script.  If returning a text value is not sufficient for your needs, the plugin also provides an automatically-defined variable, 'place', that gives the script code ''direct access to the //containing DOM element//'' into which the tiddler output is being rendered.  You can use this variable to ''perform direct DOM manipulations'' that can, for example:
* generate wiki-formatted output using {{{wikify("...content...",place)}}}
* vary the script's actions based upon the DOM element in which it is embedded
* access 'tiddler-relative' DOM information using {{{story.findContainingTiddler(place)}}}
Note:
''When using an 'onclick' script, the 'place' element actually refers to the onclick //link text// itself, instead of the containing DOM element.''  This permits you to directly reference or modify the link text to reflect any 'stateful' conditions that might set by the script.  To refer to the containing DOM element from within an 'onclick' script, you can use "place.parentNode" instead.
<<<
!!!!!Instant "bookmarklets"
<<<
You can also use an 'onclick' link to define a "bookmarklet": a small piece of javascript that can be ''invoked directly from the browser without having to be defined within the current document.''  This allows you to create 'stand-alone' commands that can be applied to virtually ANY TiddlyWiki document... even remotely-hosted documents that have been written by others!!  To create a bookmarklet, simply define an 'onclick' script and then grab the resulting link text and drag-and-drop it onto your browser's toolbar (or right-click and use the 'bookmark this link' command to add it to the browser's menu).

Notes:
*When writing scripts intended for use as bookmarklets, due to the ~URI-encoding required by the browser, ''you cannot not use ANY double-quotes (") within the bookmarklet script code.''
*All comments embedded in the bookmarklet script must ''use the fully-delimited {{{/* ... */}}} comment syntax,'' rather than the shorter {{{//}}} comment syntax.
*Most importantly, because bookmarklets are invoked directly from the browser interface and are not embedded within the TiddlyWiki document, there is NO containing 'place' DOM element surrounding the script.  As a result, ''you cannot use a bookmarklet to generate dynamic output in your document,''  and using {{{document.write()}}} or returning wiki-syntax text or making reference to the 'place' DOM element will halt the script and report a "Reference Error" when that bookmarklet is invoked.  
Please see [[InstantBookmarklets]] for many examples of 'onclick' scripts that can also be used as bookmarklets.
<<<
!!!!!Special reserved function name
<<<
The plugin 'wraps' all inline javascript code inside a function, {{{_out()}}}, so that any return value you provide can be correctly handled by the plugin and inserted into the tiddler.  To avoid unpredictable results (and possibly fatal execution errors), this function should never be redefined or called from ''within'' your script code.
<<<
!!!!!$(...) 'shorthand' function
<<<
As described by Dustin Diaz [[here|http://www.dustindiaz.com/top-ten-javascript/]], the plugin defines a 'shorthand' function that allows you to write:
{{{
$(id)
}}}
in place of the normal standard javascript syntax:
{{{
document.getElementById(id)
}}}
This function is provided merely as a convenience for javascript coders that may be familiar with this abbreviation, in order to allow them to save a few bytes when writing their own inline script code.
<<<
!!!!!Examples
<<<
simple dynamic output:
><script show>
	document.write("The current date/time is: "+(new Date())+"<br>");
	return "link to current user: [["+config.options.txtUserName+"]]\n";
</script>
dynamic output using 'place' to get size information for current tiddler:
><script show>
	if (!window.story) window.story=window;
	var title=story.findContainingTiddler(place).getAttribute("tiddler");
	var size=store.getTiddlerText(title).length;
	return title+" is using "+size+" bytes";
</script>
dynamic output from an 'onclick' script, using {{{document.write()}}} and/or {{{return "..."}}}
><script label="click here" show>
	document.write("<br>The current date/time is: "+(new Date())+"<br>");
	return "link to current user: [["+config.options.txtUserName+"]]\n";
</script>
creating an 'onclick' button/link that accesses the link text AND the containing tiddler:
><script label="click here" title="clicking this link will show an 'alert' box" key="H" show>
	if (!window.story) window.story=window;
	var txt=place.firstChild.data;
	var tid=story.findContainingTiddler(place).getAttribute('tiddler');
	alert('Hello World!\nlinktext='+txt+'\ntiddler='+tid);
</script>
dynamically setting onclick link text based on stateful information:
>{{block{
{{{
<script label="click here">
	/* toggle "txtSomething" value */
	var on=(config.txtSomething=="ON");
	place.innerHTML=on?"enable":"disable";
	config.txtSomething=on?"OFF":"ON";
	return "\nThe current value is: "+config.txtSomething;
</script><script>
	/* initialize onclick link text based on current "txtSomething" value */
	var on=(config.txtSomething=="ON");
	place.lastChild.previousSibling.innerHTML=on?"disable":"enable";
</script>
}}}
<script label="click here">
	/* toggle "txtSomething" value */
	var on=(config.txtSomething=="ON");
	place.innerHTML=on?"enable":"disable";
	config.txtSomething=on?"OFF":"ON";
	return "\nThe current value is: "+config.txtSomething;
</script><script>
	/* initialize onclick link text based on current "txtSomething" value */
	var on=(config.txtSomething=="ON");
	place.lastChild.innerHTML=on?"enable":"disable";
</script>
}}}
loading a script from a source url:
>http://www.TiddlyTools.com/demo.js contains:
>>{{{function inlineJavascriptDemo() { alert('Hello from demo.js!!') } }}}
>>{{{displayMessage('InlineJavascriptPlugin: demo.js has been loaded');}}}
>note: When using this example on your local system, you will need to download the external script file from the above URL and install it into the same directory as your document.
>
><script src="demo.js" show>
	return "inlineJavascriptDemo() function has been defined"
</script>
><script label="click to invoke inlineJavascriptDemo()" key="D" show>
	inlineJavascriptDemo();
</script>
<<<
!!!!!Revisions
<<<
2010.12.15 1.9.6 allow (but ignore) type="..." syntax
2009.04.11 1.9.5 pass current tiddler object into wrapper code so it can be referenced from within 'onclick' scripts
2009.02.26 1.9.4 in $(), handle leading '#' on ID for compatibility with JQuery syntax
2008.06.11 1.9.3 added $(...) function as 'shorthand' for document.getElementById()
2008.03.03 1.9.2 corrected fallback declaration of wikifyPlainText() (fixes Safari "parse error")
2008.02.23 1.9.1 in onclick function, use string instead of array for 'bufferedHTML' (fixes IE errors)
2008.02.21 1.9.0 output from 'onclick' scripts (return value or document.write() calls) are now buffered and rendered into into a span following the script.  Also, added default 'return false' handling if no return value provided (prevents HREF from being triggered -- return TRUE to allow HREF to be processed).  Thanks to Xavier Verges for suggestion and preliminary code.
2008.02.14 1.8.1 added backward-compatibility for use of wikifyPlainText() in TW2.1.3 and earlier
2008.01.08 [*.*.*] plugin size reduction: documentation moved to ...Info tiddler
2007.12.28 1.8.0 added support for key="X" syntax to specify custom access key definitions
2007.12.15 1.7.0 autogenerate URI encoded HREF on links for onclick scripts.  Drag links to browser toolbar to create bookmarklets.  IMPORTANT NOTE: place is NOT defined when scripts are used as bookmarklets.  In addition, double-quotes will cause syntax errors.  Thanks to PaulReiber for debugging and brainstorming.
2007.11.26 1.6.2 when converting "document.write()" function calls in inline code, allow whitespace between "write" and "(" so that "document.write ( foobar )" is properly converted.
2007.11.16 1.6.1 when rendering "onclick scripts", pass label text through wikifyPlainText() to parse any embedded wiki-syntax to enable use of HTML entities or even TW macros to generate dynamic label text.
2007.02.19 1.6.0 added support for title="..." to specify mouseover tooltip when using an onclick (label="...") script
2006.10.16 1.5.2 add newline before closing '}' in 'function out_' wrapper.  Fixes error caused when last line of script is a comment.
2006.06.01 1.5.1 when calling wikify() on script return value, pass hightlightRegExp and tiddler params so macros that rely on these values can render properly
2006.04.19 1.5.0 added 'show' parameter to force display of javascript source code in tiddler output
2006.01.05 1.4.0 added support 'onclick' scripts.  When label="..." param is present, a button/link is created using the indicated label text, and the script is only executed when the button/link is clicked.  'place' value is set to match the clicked button/link element.
2005.12.13 1.3.1 when catching eval error in IE, e.description contains the error text, instead of e.toString().  Fixed error reporting so IE shows the correct response text.  Based on a suggestion by UdoBorkowski
2005.11.09 1.3.0 for 'inline' scripts (i.e., not scripts loaded with src="..."), automatically replace calls to 'document.write()' with 'place.innerHTML+=' so script output is directed into tiddler content.  Based on a suggestion by BradleyMeck
2005.11.08 1.2.0 handle loading of javascript from an external URL via src="..." syntax
2005.11.08 1.1.0 pass 'place' param into scripts to provide direct DOM access 
2005.11.08 1.0.0 initial release
<<<

|Nome|Fórmula molecular|Fórmula de estrutura condensada|h
|Met''ano''|$CH_4$|$CH_4$|
|Et''ano''|$C_2H_6$|$CH_3-CH_3$|
|Prop''ano''|$C_3H_8$|$CH_3-CH_2-CH_3$|
|But''ano''|$C_4H_{10}$|$CH_3-CH_2-CH_2 CH_3$|
|Pent''ano''|$C_5H_{12}$|$CH_3-CH_2-CH_2-CH_2-CH_3$|
|...|...|$\ldots$|

{{myMath{
$$f(x) = \left\{\begin{array}{ll}
x^2 \sin \frac1x, & \textrm{if}\, x \ne 0, \\
0, & \textrm{if}\, x = 0 .
\end{array}\right.$$
}}}
$$\begin{eqnarray} x & = & \frac{-7 \pm \sqrt{49 - 24}}{6} \\
& = & -2 \textrm{ or } -\frac13. \end{eqnarray}$$

$x_1+3-\frac{5}{4}$
$\DD\left(\frac{4}{3}\pir^3\right)=4\pir^2$ $$x_2$$
$x_1 e^{-x^2/2}$ $$x_2\in\R$$
Surround  ~LaTeX formulas with {{{$}}}-signs:  $\sum_{i=1}^n i=\frac{n(n+1)}{2}$
$$\int_0^{\pi/2} \sin x\,dx=1$$

//{{{
grab = function(theId) {
	return document.getElementById(theId);
}
//}}}

v1 : posted 06-01-07

v1 : posted 06-01-07

[img[./files/hugh.jpg]]

Welcome.  This site has a collection of information related to my research and interests, resources I find useful, and 'other stuff'.  My email is htp2'at'cornell.edu

[[Main]]
[[Research]]
[[Publications]]
[[Presentations]]
[[Resources]]
[[About Me]]
[[OtherStuff]]

[>img[figuras/MSVGlogo.png]] <div class='SVGgraph' options='width:100,height:120,scales:[0,3,-2,1.8]'>
grid({dx:0.5});
text([0,0.15],"$\\Sigma$",{fontsize:80,fontfill:"grey",pos:"e"});
text([0,0.1],"$\\Sigma$",{fontsize:76,fontfill:"#afc6e9",pos:"e"});
text([0,-1.75],"MathSVG",{fontsize:19,fill:"black",fontweight:"bold",pos:"e"});
text([1.3,0.1],"$x^2+\\frac{b}{a}=0$",{fontsize:10,fontfill:"red",pos:"e"});
text([0.05,-1.2],"$(a,b]= \\{x \\in \\R$",{fontsize:12,fontfill:"red",pos:"e"});
circle([2.5,1.1],0.4,{stroke:"orange",strokewidth:2,fill:"#eee"});
text([2.5,1.1],"1.0",{fontfill:"blue",fontsize:11});
</div>

The ~MathSVG part of the plugin in this ~TidddlyWiki is minified in order to minimize the plugin's size. The original version of that code can be download [[here|MathSVG.js]].

/***
|''Name:''|MathSVGPlugin|
|''Description:''|This plugin translates a subset of the LaTeX math notation to MathML with a customisable  image fallback when MathML is not supported. It also provides an easy way to produce mathematical SVG graphics with dynamical features and animation.|
|''Version:''|1.4.1|
|''Date:''|2010-04-01|
|''Source:''|http://www.math.ist.utl.pt/~psoares/MathSVG.html|
|''Author:''|Paulo Soares|
|''License:''|[[GNU Lesser General Public License|http://www.gnu.org/licences/lgpl.html]]|
|''~CoreVersion:''|2.5.0|
!Original copyright notice
{{{
ASCIIMathML.js
==============
Version 2.1 Oct 8, 2008, (c) Peter Jipsen http://www.chapman.edu/~jipsen
This version extends ASCIIMathML.js with LaTeXMathML.js and ASCIIsvg.js.
Latest version at http://www.chapman.edu/~jipsen/mathml/ASCIIMathML.js
If you use it on a webpage, please send the URL to jipsen@chapman.edu

The LaTeXMathML modifications were made by Douglas Woodall, June 2006.
(for details see header on the LaTeXMathML part in middle of file)
Extensive clean-up and improvements by Paulo Soares, Oct 2007.

This program is free software; you can redistribute it and/or modify
it under the terms of the GNU Lesser General Public License as published by
the Free Software Foundation; either version 2.1 of the License, or (at
your option) any later version.

This program is distributed in the hope that it will be useful, but WITHOUT 
ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS 
FOR A PARTICULAR PURPOSE. See the GNU Lesser General Public License 
(at http://www.gnu.org/licences/lgpl.html) for more details.
}}}
!~MathSVG code (minified)
***/
//{{{
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button(p,q,txt,action,options){options=options||{};options.id=(options.id||Math.randomString(8));rect(p,q,options);setAction("click",action,options.id);options.fill=null;options.fillopacity=1;options.id+="_t";text([(p[0]+q[0])*0.5,(p[1]+q[1])*0.5],txt,options);setAction("click",action,options.id)}function setMarkers(obj,options){var markerChars="o*sSx+<>|";var attributes=["marker","size","units","orient","markerstroke","markerstrokewidth","markerstrokeopacity"];var attr=getOptions(attributes,options);var node,node2,i,id,pos=["marker-start","marker-mid","marker-end"];var lim=attr.marker.length;for(i=0;i<lim;i++){var type=attr.marker.charAt(i);if(type=="-"||markerChars.indexOf(type)<0){continue}id=(options.id||Math.randomString(8))+"Marker_"+markerChars.indexOf(type);node=$("#"+SVG.id+"_"+id);if(node.length===0){node=$(getSVGElement(id,"marker").node);node.attr("class","svgMarker");node.attr("viewBox","0 0 10 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dy=(0.5*size/SVG.yunitlength)/SVG.factor;for(i=0;i<label.length;i++){options.isLabel="_label"+i;point[0]=p[i][0];point[1]=p[i][1];pos=(poslen>i)?labelpos[i].toUpperCase():pos;if(/E/.test(pos)){point[0]+=dx}if(/W/.test(pos)){point[0]-=dx}if(/N/.test(pos)){point[1]+=dy}if(/S/.test(pos)){point[1]-=dy}options.pos=pos;text(point,label[i],options)}}function line(p,q,options){options=options||{};options.closed=false;options.curve="";path([p,q],options)}function dot(p,options){options=options||{};var direction=getOptions("direction",options);var q=[p[0]+direction[0]/SVG.xunitlength,p[1]+direction[1]/SVG.yunitlength];var st="M"+toSVGPair(p)+" "+toSVGPair(q);var elmt=getSVGElement(options.id,"path");var elem=$(elmt.node);elem.attr("d",st);elem.attr("stroke","none");setMarkers(elem,options);appendSVG(elmt);if(options.label){setLabels([p],options)}}function path(list,options,append){options=options||{};var i,elmt=getSVGElement(options.id,"path");var attr=getOptions(["curve","closed"],options);var len=list.length;if(len>0){var node=$(elmt.node);var st=(append&&!elmt.newEl)?elmt.node.getAttribute("d"):"";st+="M"+toSVGPair(list[0])+" "+attr.curve;for(i=1;i<len;i++){st+=toSVGPair(list[i])+" "}if(attr.closed){st+="Z"}node.attr("d",st);setStrokeAndFill(node,options);if(options.marker){setMarkers(node,options)}appendSVG(elmt);if(options.label){setLabels(list,options)}}}function rotate(id,angle,options){if(!id||!angle){return}var node=$("#"+SVG.id+"_"+id)[0];if(node){options=options||{};var center=options.center?toSVG(options.center):SVG.origin;angle=-angle*180/Math.PI;var transform=node.getAttribute("transform")||"";transform="rotate("+angle+" "+center+") "+(options.replace?"":transform);$(node).attr("transform",transform)}}function translate(id,delta,options){if(!id||!delta){return}var node=$("#"+SVG.id+"_"+id)[0];if(node){options=options||{};delta=toSVG(delta);var transform=node.getAttribute("transform")||"";transform="translate("+(delta[0]-SVG.origin[0])+"  "+(SVG.origin[1]+delta[1]-SVG.height)+") "+(options.replace?"":transform);$(node).attr("transform",transform)}}function curve(list,options){options=options||{};options.curve=options.curve||"T";path(list,options)}function circle(center,radius,options){ellipse(center,radius,radius,options)}function loop(p,options){options=options||{};var d=options.direction||[1,0];options.curve="C";options.closed=false;path([p,[p[0]+d[0],p[1]+d[1]],[p[0]-d[1],p[1]+d[0]],p],options)}function arc(options){options=options||{};var start=options.start;var end=options.end;var center=options.center;var startangle=options.startangle;var endangle=options.endangle;var st="M",elmt=getSVGElement(options.id,"path");var attr=getOptions(["largearc","sweep","closed","sector"],options);var radius=options.radius;if(center!=null&&startangle!=null&&endangle!=null&&radius!=null){start=[radius*Math.cos(startangle)+center[0],radius*Math.sin(startangle)+center[1]];end=[radius*Math.cos(endangle)+center[0],radius*Math.sin(endangle)+center[1]]}if(start==null||end==null){return}if(!radius){var v=[end[0]-start[0],end[1]-start[1]];radius=Math.sqrt(v[0]*v[0]+v[1]*v[1])}if(attr.sector){st+=toSVGPair(center)+" "}st+=toSVGPair(start)+" A"+radius*SVG.xunitlength+","+radius*SVG.yunitlength+" 0 "+attr.largearc+","+attr.sweep+" "+toSVGPair(end);if(attr.sector||attr.closed){st+=" z"}var node=$(elmt.node);node.attr("d",st);setStrokeAndFill(node,options);if(options.marker){setMarkers(node,options)}appendSVG(elmt);if(options.label){setLabels([start,end],options)}}function sector(options){if(!options.center||!options.startangle||!options.endangle||!options.radius){return}options.sector=true;arc(options)}function ellipse(center,rx,ry,options){options=options||{};var elmt=getSVGElement(options.id,"ellipse");center=toSVG(center);var node=$(elmt.node);node.attr("cx",center[0]);node.attr("cy",center[1]);node.attr("rx",rx*SVG.xunitlength);node.attr("ry",ry*SVG.yunitlength);setStrokeAndFill(node,options);appendSVG(elmt)}function polygon(list,options){options=options||{};options.closed=true;path(list,options)}function rect(p,q,options){options=options||{};var elmt=getSVGElement(options.id,"rect");var attr=getOptions(["rx","ry"],options);var node=$(elmt.node);node.attr("x",toSVG(p)[0]);node.attr("y",toSVG(q)[1]);node.attr("width",(q[0]-p[0])*SVG.xunitlength);node.attr("height",(q[1]-p[1])*SVG.yunitlength);node.attr("rx",attr.rx*SVG.xunitlength);node.attr("ry",attr.ry*SVG.yunitlength);setStrokeAndFill(node,options);appendSVG(elmt)}function text(p,st,options){options=options||{};var id=options.id;var attr=getOptions(["fontstyle","fontfamily","fontweight","fontfill","fontsize","fixed","pos"],options);if(id&&options.isLabel){id+=options.isLabel}var pos=attr.pos.toUpperCase();if(!attr.fixed){attr.fontsize/=SVG.factor}var elem,node,dx,dy,latex=false,str=$.trim(st.toString()),q=toSVG(p);if(str.charAt(0)=="$"){str=str.substr(1,str.length-2);latex=true}if(latex){if(p[0]>SVG.xmax||p[0]<SVG.xmin||p[1]>SVG.ymax||p[1]<SVG.ymin){return}node=createElementXHTML("div");node.style.position="absolute";node.style.left="-1000px";node.style.top="-1000px";$("body").append(node);var math=MSVG.parseMath(str,true,attr.fontsize+"px",attr.fontfill);var mathNode=$(node);mathNode.append($(math).clone());dx=-node.offsetWidth/2;dy=-node.offsetHeight/2;if(/N/.test(pos)){dy=-node.offsetHeight}if(/S/.test(pos)){dy=0}if(/E/.test(pos)){dx=0}if(/W/.test(pos)){dx=-node.offsetWidth}var width=mathNode.width(),height=mathNode.height();mathNode.remove();q[0]+=dx;q[1]+=dy;var elmt=getSVGElement(id,"foreignObject");elem=$(elmt.node);elem.empty().append(math);elem.attr("width",width);elem.attr("height",height)}else{var baseline="middle",textanchor="middle";if(/E/.test(pos)){textanchor="start"}if(/W/.test(pos)){textanchor="end"}if(/N/.test(pos)){baseline="text-after-edge"}if(/S/.test(pos)){baseline="text-before-edge"}var elmt=getSVGElement(id,"text");elem=$(elmt.node);elem.empty().text(str);elem.attr("font-style",attr.fontstyle);elem.attr("font-family",attr.fontfamily);elem.attr("font-weight",attr.fontweight);elem.attr("font-size",attr.fontsize);elem.attr("text-anchor",textanchor);elem.attr("dominant-baseline",baseline);setStrokeAndFill(elem,options,"font")}elem.attr("x",q[0]);elem.attr("y",q[1]);appendSVG(elmt)}function image(url,options){options=options||{};var elmt=getSVGElement(options.id,"image");var elem=$(elmt.node);var height=options.height?options.height/SVG.factor:SVG.height;var width=options.width?options.width/SVG.factor:SVG.width;var origin=toSVG(options.origin||[SVG.xmin,SVG.ymin]);var pos=(options.pos||"").toUpperCase();var x=origin[0]-width*0.5;var y=origin[1]-height*0.5;if(/N/.test(pos)){y-=height*0.5}if(/S/.test(pos)){y+=height*0.5}if(/E/.test(pos)){x+=width*0.5}if(/W/.test(pos)){x-=width*0.5}elem.attr("x",x);elem.attr("y",y);elem.attr("width",width);elem.attr("height",height);elem.attr("preserveAspectRatio","none");elmt.node.setAttributeNS("http://www.w3.org/1999/xlink","xlink:href",url);appendSVG(elmt)}function grid(options){options=options||{};var dx,dy,x,y,k;var orig=options.origin||[0,0];var id=options.id||"Grid";options.stroke=options.stroke||"grey";options.strokewidth=(options.strokewidth||SVG.attr.strokewidth*0.5);var coords=options.coords||SVG.coords;var lim=getScales(options.scales);openGroup(id,true);lim[2]=(typeof lim[2]=="number")?lim[2]:SVG.ymin;lim[3]=(typeof lim[3]=="number")?lim[3]:SVG.ymax;if(coords=="polar"){dx=options.dx||1;dy=options.dy||3;var limit=Math.max(Math.abs(lim[0]),Math.abs(lim[1]),Math.abs(lim[2]),Math.abs(lim[3]));for(x=dx;x<limit;x+=dx){circle(orig,x,options)}if(dy>1){for(y=1;y<dy;y++){k=Math.tan(y*Math.PI/(2*dy));line([lim[0],(lim[0]-orig[0])*k+orig[1]],[SVG.xmax,(lim[1]-orig[0])*k+orig[1]],options);line([lim[0],-(lim[0]-orig[0])*k+orig[1]],[SVG.xmax,-(lim[1]-orig[0])*k+orig[1]],options)}}}else{dx=options.dx||1;dy=options.dy||dx;for(x=orig[0];x<SVG.xmax;x+=dx){if(x>lim[0]&&x<lim[1]){line([x,lim[2]],[x,lim[3]],options)}}for(x=orig[0]-dx;x>SVG.xmin;x-=dx){if(x>lim[0]&&x<lim[1]){line([x,lim[2]],[x,lim[3]],options)}}for(y=orig[1];y<SVG.ymax;y+=dy){if(y>lim[2]&&y<lim[3]){line([lim[0],y],[lim[1],y],options)}}for(y=orig[1]-dy;y>SVG.ymin;y-=dy){if(y>lim[2]&&y<lim[3]){line([lim[0],y],[lim[1],y],options)}}}closeGroup()}function axes(options){options=options||{};options.marker="-|"+(options.marker?options.marker.charAt(0):"-");var i,x,y,start,stop,label;var dx=options.dx||1;var dy=options.dy||dx;var id=options.id||"Axes";var fontsize=getOptions("fontsize",options);var coords=options.coords||SVG.coords;var orig=(coords=="polar")?[0,0]:(options.origin||[0,0]);var ddx=options.decx||Math.max(0,-Math.floor(Math.log(dx)/Math.log(10)));var ddy=options.decy||Math.max(0,-Math.floor(Math.log(dy)/Math.log(10)));options.stroke=options.stroke||"black";options.strokewidth=(options.strokewidth||SVG.attr.strokewidth*0.5);options.markerstroke=options.stroke;options.markerstrokewidth=options.strokewidth;openGroup(id,true);var lim=getScales(options.scales);lim[2]=lim[2]||SVG.ymin;lim[3]=lim[3]||SVG.ymax;if($.isArray(options.xticks)){var xticks=options.xticks.sort();var list2=[[lim[0],orig[1]]];label=[""];for(i=0;i<xticks.length;i++){list2.push([xticks[i],orig[1]]);label.push(String(xticks[i].toFixed(ddx)))}list2.push([lim[1],orig[1]]);label.push("")}else{var list1=[],label1=[];var list2=[],label2=[];start=SVG.xmin+0.25*dx;stop=SVG.xmax-0.25*dx;i=1;var cand,leftExit=0,rightExit=0;while(leftExit*rightExit==0){cand=orig[0]+i*dx;if(cand>start){if(cand<stop){list1.push([cand,orig[1]]);label1.push(String(cand.toFixed(ddx)))}else{rightExit=1}}cand=orig[0]-i*dx;if(cand<stop){if(cand>start){list2.push([cand,orig[1]]);label=(coords=="polar")?"":cand.toFixed(ddx);label2.push(String(label))}else{leftExit=1}}i++}list1.push([lim[1],orig[1]]);label1.push("");list2.push([lim[0],orig[1]]);label2.push("");list2.reverse();list2=list2.concat(list1);label2.reverse();label=label2.concat(label1)}if(options.ticklabels!=false){options.label=label;options.pos="S"}path(list2,options);if($.isArray(options.yticks)){var yticks=options.yticks.sort();var list2=[[orig[0],lim[2]]];label=[""];for(i=0;i<yticks.length;i++){list2.push([orig[0],yticks[i]]);label.push(String(yticks[i].toFixed(ddy)))}list2.push([orig[0],lim[3]]);label.push("")}else{list1=[],label1=[];list2=[];label2=[];start=SVG.ymin+0.25*dy;stop=SVG.ymax-0.25*dy;i=1;leftExit=0;rightExit=0;while(leftExit*rightExit==0){cand=orig[1]+i*dy;if(cand>start){if(cand<stop){list1.push([orig[0],cand]);label1.push(String(cand.toFixed(ddy)))}else{rightExit=1}}cand=orig[1]-i*dy;if(cand<stop){if(cand>start){list2.push([orig[0],cand]);label=(coords=="polar")?"":cand.toFixed(ddy);label2.push(String(label))}else{leftExit=1}}i++}list1.push([orig[0],lim[3]]);label1.push("");list2.push([orig[0],lim[2]]);label2.push("");list2.reverse();list2=list2.concat(list1);label2.reverse();label=label2.concat(label1)}if(options.ticklabels!=false){options.label=label;options.pos="W"}options.stroke=options.markerstroke;path(list2,options);closeGroup()}function list(fun,tmin,tmax,options){var inc=(tmax-tmin)/getOptions("points",options);if(inc<=0||fun.length==0){return}var t,pth,g=[],xt,yt;for(t=1;t>=0;t--){if($.isFunction(fun[t])){g[t]=fun[t]}else{if(typeof fun[t]=="string"){with(Math){eval("g["+t+"] = function(x){return "+fun[t]+"}")}}else{return}}}if(g.length<2){return}pth=[];for(t=tmin;t<=tmax;t+=inc){xt=g[0](t);yt=g[1](t);if(isFinite(xt)&&isFinite(yt)){pth[pth.length]=[xt,yt]}}return pth}function plot(fun,options){options=options||{};var append,pth,steps=options.steps||[];var n_steps=steps.length;options.closed=false;options.curve="";var xmin=(options.min==null)?SVG.xmin:Math.max(SVG.xmin,options.min);var xmax=(options.max==null)?SVG.xmax:Math.min(SVG.xmax,options.max);if(n_steps===0){pth=list(["x",fun],xmin,xmax,options);if(pth){path(pth,options)}}else{options.id=options.id||Math.randomString(6);steps.sort();var steps_a=[];steps_a.push(xmin);for(i=0;i<n_steps;i++){if(steps[i]>xmin&&steps[i]<xmax){steps_a.push(steps[i])}}steps_a.push(xmax);n_steps=steps_a.length-1;for(i=0;i<n_steps;i++){xmax=steps_a[i+1];xmin=steps_a[i];pth=list(["x",fun],xmin,xmax,options);append=(i>0);if(pth){path(pth,options,append)}}}}function area(fun1,fun2,options){options=options||{};options.curve="";options.closed=true;var xmin=(options.min==null)?SVG.xmin:options.min;var xmax=(options.max==null)?SVG.xmax:options.max;var pth1=list(["x",fun1],xmin,xmax,options);var pth2=list(["x",fun2],xmin,xmax,options);if(pth1&&pth2){pth1=pth1.concat(pth2.reverse());path(pth1,options)}}function polarPlot(fun,options){var g1,g2;if(typeof fun=="string"){with(Math){eval("g1 = function(x){return ("+fun+")*cos(x)}");eval("g2 = function(x){return ("+fun+")*sin(x)}")}}else{if($.isFunction(fun)){with(Math){eval("g1 = function(x){return fun(x)*cos(x)}");eval("g2 = function(x){return fun(x)*sin(x)}")}}}parametricPlot(g1,g2,options)}function parametricPlot(fun1,fun2,options){options=options||{};options.closed=false;options.curve="";var xmin=(options.min==null)?0:options.min;var xmax=(options.max==null)?2*Math.PI:options.max;var pth=list([fun1,fun2],xmin,xmax,options);if(pth){path(pth,options)}}function slopeField(fun,options){options=options||{};var g=fun;if(typeof fun=="string"){with(Math){eval("g = function(x,y){return "+fun+"}")}}var gxy,x,y,u,v,dz;var dx=(options.dx==null)?1:options.dx;var dy=(options.dy==null)?1:options.dy;dz=Math.sqrt(dx*dx+dy*dy)/6;var xmin=Math.ceil(SVG.xmin/dx);var ymin=Math.ceil(SVG.ymin/dy);for(x=xmin;x<=SVG.xmax;x+=dx){for(y=ymin;y<=SVG.ymax;y+=dy){gxy=g(x,y);if(!isNaN(gxy)){if(Math.abs(gxy)=="Infinity"){u=0;v=dz}else{u=dz/Math.sqrt(1+gxy*gxy);v=gxy*u}line([x-u,y-v],[x+u,y+v],options)}}}}return{showFormulaOnMouseOver:false,latexImages:false,latexConverter:"http://chart.apis.google.com/chart?cht=tx&chs=1x0&chf=bg,s,FFFFFF00&chco=000000&chl=",mathColor:"",mathFontSize:"",mathFontFamily:"",define:function(oldstr,newstr){if(MSVG.latexImages){return}if((typeof oldstr)=="string"){oldstr=[oldstr];newstr=[newstr]}var i,len=oldstr.length;if(len!=newstr.length){return}for(i=0;i<len;i++){symbols=symbols.concat([{input:"\\"+oldstr[i],tag:"mo",output:newstr[i],ttype:DEFINITION}])}refreshSymbols()},parseMath:function(str,displaystyle,size,color){if(str===null){return null}var frag=parseExpr(str.replace(/^\s+/g,""),false,false)[0];var node=createMmlNode("mstyle",frag);if(displaystyle){$(node).attr({displaystyle:"true"})}$(node).attr({mathcolor:color||MSVG.mathColor,fontsize:size||MSVG.mathFontSize,fontfamily:MSVG.mathFontFamily});node=createMmlNode("math",node);if(MSVG.showFormulaOnMouseOver){$(node).attr({title:str.replace(/\s+/g," ")})}return node},parseMathExternal:function(str,displaystyle,size,color){if(str===null){return null}var node=createElementXHTML("img");var snip=MSVG.latexConverter+str;$(node).attr({src:snip});if(MSVG.showFormulaOnMouseOver){$(node).attr({title:str.replace(/\s+/g," ")})}return node},generic:function(){if(!$.browser.mozilla){MSVG.latexImages=true}if(MSVG.latexImages){MSVG.parseMath=MSVG.parseMathExternal}else{refreshSymbols()}if(!document.implementation.hasFeature("http://www.w3.org/TR/SVG11/feature#BasicStructure","1.1")){MSVG.initPictures=MSVG.removePictures}},removePictures:function(obj){var pictures=obj?$(obj):$(".SVGgraph");$(pictures).each(function(){var that=$(this);this.id=null;that.empty();that.css({color:"red",background:"yellow"});that.text("Missing picture: your  browser does not support inline SVG");window.setTimeout(function(){that.remove()},10000)})},initPictures:function(obj){var options,scales,qnode,node,node2,status,offline,elem;var pictures=obj?$(obj):$(".SVGgraph");$(pictures).each(function(){var that=$(this);offline=!(this.nodeName=="SPAN");status=0;SVG=new pictureObject();options=$(this).attr("options");that.removeAttr("id");if(options){with(Math){eval("options={"+options+"}")}setOptions(options)}else{options={}}if(options.pan==false){SVG.pan=false}SVG.coords=options.coords||SVG.coords;SVG.src=$.trim($(this).text());that.empty();if(typeof options.width=="number"&&options.width>0){SVG.width=options.width;status+=1}if(typeof options.height=="number"&&options.height>0){SVG.height=options.height;status+=2}var scales=getScales(options.scales);SVG.xmin=scales[0];SVG.xmax=scales[1];SVG.ymin=scales[2];SVG.ymax=scales[3];status+=scales[4];SVG.height=options.height;if(status%4!=0){SVG.width=options.width}if(!SVG.width){SVG.width=1.6*SVG.height}else{if(!SVG.height){SVG.height=0.625*SVG.width}}if(status<8){SVG.ymax=0.5*SVG.height*(SVG.xmax-SVG.xmin)/SVG.width;SVG.ymin=-SVG.ymax}else{if(status<12){SVG.xmax=0.5*SVG.width*(SVG.ymax-SVG.ymin)/SVG.height;SVG.xmin=-SVG.xmax}}if(status==12||status==13){SVG.height=SVG.width*(SVG.ymax-SVG.ymin)/(SVG.xmax-SVG.xmin)}else{if(status==14){SVG.width=SVG.height*(SVG.xmax-SVG.xmin)/(SVG.ymax-SVG.ymin)}}SVG.id=Math.randomString(16);qnode=createSVGElement("svg");elem=$(qnode);qnode.id=SVG.id;elem.attr("xmlns","http://www.w3.org/2000/svg");elem.attr("xmlns:ev","http://www.w3.org/2001/xml-events");elem.attr("xmlns:xlink","http://www.w3.org/1999/xlink");elem.attr("version","1.1");elem.attr("baseProfile","full");if(options.border){elem.attr("style","border:"+options.border)}node=createSVGElement("clipPath");node.id=SVG.id+"ClipPath";node2=createSVGElement("path");$(node).append(node2);elem.attr("clip-path","url(#"+SVG.id+"ClipPath)");node2=createSVGElement("defs");node2.id=SVG.id+"_Defs";$(node2).append(node);$(qnode).append(node2);node=createSVGElement("rect");elem=$(node);elem.attr("x","0");elem.attr("y","0");elem.attr("width","100%");elem.attr("height","100%");elem.attr("fill","none");elem.attr("pointer-events","all");$(qnode).append(node);node2=createSVGElement("g");node2.id=SVG.id+"_Canvas";$(qnode).append(node2);that.append(qnode);this.style.position="relative";if(offline){setAction("mousemove",updatePosition);if(SVG.pan){setAction("mouseup",onDrop)}if(window.addEventListener){var evt=$.browser.mozilla?"DOMMouseScroll":"mousewheel";qnode.addEventListener(evt,onWheel,false)}}setAction("mousedown",onClick);setAction("mouseover",switchTo);canvas=$("#"+SVG.id+"_Canvas")[0];resize(1)});if(pictures.length>0&&$("#SVGtoolbar").length===0){node=createElementXHTML("span");node.id="SVGtoolbar";node.style.position="absolute";node.style.textAlign="left";node.style.zIndex=10;node=addButton(node,"X","Close editor",closeEditor);node=addButton(node,"Update","Update picture",updateButton,"SVGupdateButton");node=addButton(node,"SVG","View SVG code",exportSVG);node=addButton(node,"-","Zoom out",function(){zoom(1.25,true)});node=addButton(node,"+","Zoom in",function(){zoom(0.8,true)});node=addButton(node,"\u2191","Enlarge picture",function(){resize(0.8)});node=addButton(node,"\u2193","Reduce picture",function(){resize(1.25)});$(node).append("<br />");node2=createElementXHTML("textarea");$(node2).attr({id:"SVGsrc",rows:8,cols:60});$(node).append(node2);$(node).hide();$("body").append(node)}}}}(jQuery);
//}}}
/***
!~TiddlyWiki formatters
***/
//{{{
if(!version.extensions.MathSVGPlugin) { //# ensure that the plugin is only installed once
version.extensions.MathSVGPlugin = {installed: true};
MSVG.generic();

config.formatterHelpers.MathSVGHelper = function(w) {
  if(MSVG.noMathTag && jQuery.inArray(MSVG.noMathTag,w.tiddler.tags)>-1) return;
  this.lookaheadRegExp.lastIndex = w.matchStart;
  var lookaheadMatch = this.lookaheadRegExp.exec(w.source);
  if(lookaheadMatch){
    var eq = MSVG.parseMath(lookaheadMatch[1],this.displaystyle);
    if(this.displaystyle){
      var node = createTiddlyElement(w.output,"div");
      node.style.textAlign='center';
      node.appendChild(eq);
      w.output.appendChild(node);
    } else {w.output.appendChild(eq);}
    w.nextMatch = lookaheadMatch.index + lookaheadMatch[0].length;
  }
}

config.formatters.push( {
  name: "clatex",
  match: "\\$\\$",
  lookaheadRegExp: /\$\$((?:.|\n)*?)\$\$/mg,
  displaystyle: true,
  handler: config.formatterHelpers.MathSVGHelper
})

config.formatters.push( {
  name: "clatex2",
  match: "\\\\\\\[",
  lookaheadRegExp: /\\\[((?:.|\n)*?)\\\]/mg,
  displaystyle: true,
  handler: config.formatterHelpers.MathSVGHelper
})

config.formatters.push( {
  name: "latex",
  match: "\\$",
  lookaheadRegExp: /\$((?:.|\n)*?)\$/mg,
  displaystyle: false,
  handler: config.formatterHelpers.MathSVGHelper
})

config.formatters.push( {
  name: "latex2",
  match: "\\\\\\\(",
  lookaheadRegExp: /\\\(((?:.|\n)*?)\\\)/mg,
  displaystyle: false,
  handler: config.formatterHelpers.MathSVGHelper
})

config.formatters.push( {
  name: "graph",
  match: "<div",
  lookaheadRegExp: /<div.+SVGgraph.+?>((?:.|\n)*?)<\/div>/mg,
  handler: function(w){
    if(MSVG.noSvgTag && jQuery.inArray(MSVG.noSvgTag,w.tiddler.tags)>-1) return;
    this.lookaheadRegExp.lastIndex = w.matchStart;
    var lookaheadMatch = this.lookaheadRegExp.exec(w.source);
    if(lookaheadMatch){
      var text = lookaheadMatch[0].replace('<div','<div id="currentGraph"');
      jQuery(w.output).append(text);
      MSVG.initPictures("#currentGraph");
      w.nextMatch = lookaheadMatch.index + lookaheadMatch[0].length;
    }
  }
})

config.formatters.push( {
  name: "inlineGraph",
  match: "<span",
  lookaheadRegExp: /<span.+SVGgraph.+?>((?:.|\n)*?)<\/span>/mg,
  handler: function(w){
    if(MSVG.noSvgTag && jQuery.inArray(MSVG.noSvgTag,w.tiddler.tags)>-1) return;
    this.lookaheadRegExp.lastIndex = w.matchStart;
    var lookaheadMatch = this.lookaheadRegExp.exec(w.source);
    if(lookaheadMatch){
      var text = lookaheadMatch[0].replace('<span','<span id="currentGraph"');
      jQuery(w.output).append(text);
      MSVG.initPictures("#currentGraph");
      w.nextMatch = lookaheadMatch.index + lookaheadMatch[0].length;
    }
  }
})

}
//}}}

/***
The script should not be edited. All available options can be set by the following variables:
***/
//{{{
//MSVG.showFormulaOnMouseOver = false; //show LaTeX code on mouse over the equation
//MSVG.latexImages = false; //set to true to force the use of an external converter
//MSVG.latexConverter = "http://www.yourequations.com/eq.latex?"; //link to external converter
//MSVG.mathColor = "green"; //font color
//MSVG.mathFontSize = ""; //font size
//MSVG.mathFontFamily = ""; //font family
MSVG.noMathTag = null;
MSVG.noSvgTag = 'noSVG';
//}}}
/***
New symbols or commands can be defined here:
***/
//{{{
 var commands = ["nle","R","diagup","varnothing","ind","DD"];
 var symbols = ["\u2270","\u211D","\u2571","\u2205","\u2AEB","\\frac{d}{dr}"];
 MSVG.define(commands,symbols);
//}}}
/***
External javascript code can be loaded here:
***/
//{{{
 jQuery.getScript("demo.js");
//}}}

!''Music''
[[Music Theory Online| http://www.dolmetsch.com/theoryintro.htm]]

!''Linux''
[[Debian|http://www.debian.org]]

<!--{{{-->
<div class='header'>
     <div class='gradient' macro='gradient vert #FF8614 #DA4A2D '>
	<div class='titleLine' >
		<span class='siteTitle' refresh='content' tiddler='SiteTitle'></span>&nbsp;
		<span class='siteSubtitle' refresh='content' tiddler='SiteSubtitle'></span>
	</div>
<div id='topMenu' refresh='content' tiddler='MainMenu'></div>
    </div>
</div>
<div id='bodywrapper'>
<div id='sidebar'>
	<div id='sidebarOptions' refresh='content' 	tiddler='SideBarOptions'></div>
	<div id='sidebarTabs' refresh='content' force='true' tiddler='SideBarTabs'></div>
</div>
<div id='displayArea'>
	<div id='messageArea'></div>
	<div id='tiddlerDisplay'></div>
</div>
<div id='contentFooter'>TiddlyWiki</div>
</div>

<!--}}}-->

!A cardioid
<div class='SVGgraph' options='width:200,height:200,scales:[-1.2,2.2,-1.7,1.7],coords:"polar"'>
function moveit() {
var angle = getAngle([0.5,0]);
var p = [0.5+cos(angle),sin(angle)];
var q = [cos(angle)*(1+cos(angle)),sin(angle)*(1+cos(angle))];
rotate("roll",angle,{center:[0.5,0],replace:true});
line(p,q,{id:"radius",marker:"*-*",size:10});
}

axes({dx:0.5,dy:0.5});
grid({dx:0.5,dy:3});
setAction("mousemove",moveit);
circle([0.5,0],0.5);
circle([0.5,0],1);
setOptions({stroke:'red', strokewidth:2});
polarPlot("1+cos(x)");
setOptions({stroke:"green"});
circle([1.5,0],0.5,{id:"roll"});
line([1.5,0],[2,0],{id:"radius",marker:"*-*",markerstroke:"green",size:10});
</div>

<div class='SVGgraph' options='width:200,height:200,scales:[-1.2,2.2,-1.7,1.7],coords:"polar"'>
axes();
setOptions({stroke:'red'});
polarPlot("1+cos(x)");
</div>

[img[./files/iworid13.jpg][./files/iWoRID13Philipp-Fine.pdf]][[IWoRID13|./files/iWoRID13Philipp-Fine.pdf]]
[img[./files/SRI2010.jpg][./files/Philipp2010SRI_c.pdf]][[Philipp SRI 2010|./files/Philipp2010SRI_c.pdf]]
[img[./files/FLS2010.jpg][./files/Philipp_FLS2010.pdf]][[FLS 2010|./files/Philipp_FLS2010.pdf]]
[img[./files/may2009.jpg][./files/May2009-Take3.pdf]][[May2009|./files/May2009-Take3.pdf]]
[img[./files/Chess2008.jpg][./files/Poster-rev2-CHESS2008.pdf]][[CHESS User Meeting 2008 Poster|./files/Poster-rev2-CHESS2008.pdf]]

<html>
<head>
<title>JabRef references</title>
<meta http-equiv="Content-Type" content="text/html; charset=windows-1252">
<script type="text/javascript">
<!--
// QuickSearch script for JabRef HTML export 
// Version: 3.0
//
// Copyright (c) 2006-2011, Mark Schenk
//
// This software is distributed under a Creative Commons Attribution 3.0 License
// http://creativecommons.org/licenses/by/3.0/
//
// Features:
// - intuitive find-as-you-type searching
//    ~ case insensitive
//    ~ ignore diacritics (optional)
//
// - search with/without Regular Expressions
// - match BibTeX key
//

// Search settings
var searchAbstract = true;	// search in abstract
var searchReview = true;	// search in review

var noSquiggles = true; 	// ignore diacritics when searching
var searchRegExp = false; 	// enable RegExp searches


if (window.addEventListener) {
	window.addEventListener("load",initSearch,false); }
else if (window.attachEvent) {
	window.attachEvent("onload", initSearch); }

function initSearch() {
	// check for quick search table and searchfield
	if (!document.getElementById('qs_table')||!document.getElementById('quicksearch')) { return; }

	// load all the rows and sort into arrays
	loadTableData();
	
	//find the query field
	qsfield = document.getElementById('qs_field');

	// previous search term; used for speed optimisation
	prevSearch = '';

	//find statistics location
	stats = document.getElementById('stat');
	setStatistics(-1);
	
	// set up preferences
	initPreferences();

	// shows the searchfield
	document.getElementById('quicksearch').style.display = 'block';
	document.getElementById('qs_field').onkeyup = quickSearch;
}

function loadTableData() {
	// find table and appropriate rows
	searchTable = document.getElementById('qs_table');
	var allRows = searchTable.getElementsByTagName('tbody')[0].getElementsByTagName('tr');

	// split all rows into entryRows and infoRows (e.g. abstract, review, bibtex)
	entryRows = new Array(); infoRows = new Array(); absRows = new Array(); revRows = new Array();

	// get data from each row
	entryRowsData = new Array(); absRowsData = new Array(); revRowsData = new Array(); 
	
	BibTeXKeys = new Array();
	
	for (var i=0, k=0, j=0; i<allRows.length;i++) {
		if (allRows[i].className.match(/entry/)) {
			entryRows[j] = allRows[i];
			entryRowsData[j] = stripDiacritics(getTextContent(allRows[i]));
			allRows[i].id ? BibTeXKeys[j] = allRows[i].id : allRows[i].id = 'autokey_'+j;
			j ++;
		} else {
			infoRows[k++] = allRows[i];
			// check for abstract/review
			if (allRows[i].className.match(/abstract/)) {
				absRows.push(allRows[i]);
				absRowsData[j-1] = stripDiacritics(getTextContent(allRows[i]));
			} else if (allRows[i].className.match(/review/)) {
				revRows.push(allRows[i]);
				revRowsData[j-1] = stripDiacritics(getTextContent(allRows[i]));
			}
		}
	}
	//number of entries and rows
	numEntries = entryRows.length;
	numInfo = infoRows.length;
	numAbs = absRows.length;
	numRev = revRows.length;
}

function quickSearch(){
	
	tInput = qsfield;

	if (tInput.value.length == 0) {
		showAll();
		setStatistics(-1);
		qsfield.className = '';
		return;
	} else {
		t = stripDiacritics(tInput.value);

		if(!searchRegExp) { t = escapeRegExp(t); }
			
		// only search for valid RegExp
		try {
			textRegExp = new RegExp(t,"i");
			closeAllInfo();
			qsfield.className = '';
		}
			catch(err) {
			prevSearch = tInput.value;
			qsfield.className = 'invalidsearch';
			return;
		}
	}
	
	// count number of hits
	var hits = 0;

	// start looping through all entry rows
	for (var i = 0; cRow = entryRows[i]; i++){

		// only show search the cells if it isn't already hidden OR if the search term is getting shorter, then search all
		if(cRow.className.indexOf('noshow')==-1 || tInput.value.length <= prevSearch.length){
			var found = false; 

			if (entryRowsData[i].search(textRegExp) != -1 || BibTeXKeys[i].search(textRegExp) != -1){ 
				found = true;
			} else {
				if(searchAbstract && absRowsData[i]!=undefined) {
					if (absRowsData[i].search(textRegExp) != -1){ found=true; } 
				}
				if(searchReview && revRowsData[i]!=undefined) {
					if (revRowsData[i].search(textRegExp) != -1){ found=true; } 
				}
			}
			
			if (found){
				cRow.className = 'entry show';
				hits++;
			} else {
				cRow.className = 'entry noshow';
			}
		}
	}

	// update statistics
	setStatistics(hits)
	
	// set previous search value
	prevSearch = tInput.value;
}


// Strip Diacritics from text
// http://stackoverflow.com/questions/990904/javascript-remove-accents-in-strings

// String containing replacement characters for stripping accents 
var stripstring = 
    'AAAAAAACEEEEIIII'+
    'DNOOOOO.OUUUUY..'+
    'aaaaaaaceeeeiiii'+
    'dnooooo.ouuuuy.y'+
    'AaAaAaCcCcCcCcDd'+
    'DdEeEeEeEeEeGgGg'+
    'GgGgHhHhIiIiIiIi'+
    'IiIiJjKkkLlLlLlL'+
    'lJlNnNnNnnNnOoOo'+
    'OoOoRrRrRrSsSsSs'+
    'SsTtTtTtUuUuUuUu'+
    'UuUuWwYyYZzZzZz.';

function stripDiacritics(str){

    if(noSquiggles==false){
        return str;
    }

    var answer='';
    for(var i=0;i<str.length;i++){
        var ch=str[i];
        var chindex=ch.charCodeAt(0)-192;   // Index of character code in the strip string
        if(chindex>=0 && chindex<stripstring.length){
            // Character is within our table, so we can strip the accent...
            var outch=stripstring.charAt(chindex);
            // ...unless it was shown as a '.'
            if(outch!='.')ch=outch;
        }
        answer+=ch;
    }
    return answer;
}

// http://stackoverflow.com/questions/3446170/escape-string-for-use-in-javascript-regex
// NOTE: must escape every \ in the export code because of the JabRef Export...
function escapeRegExp(str) {
  return str.replace(/[-\[\]\/\{\}\(\)\*\+\?\.\\\^\$\|]/g, "\\$&");
}

function toggleInfo(articleid,info) {

	var entry = document.getElementById(articleid);
	var abs = document.getElementById('abs_'+articleid);
	var rev = document.getElementById('rev_'+articleid);
	var bib = document.getElementById('bib_'+articleid);
	
	if (abs && info == 'abstract') {
		abs.className.indexOf('noshow') == -1?abs.className = 'abstract noshow':abs.className = 'abstract show';
	} else if (rev && info == 'review') {
		rev.className.indexOf('noshow') == -1?rev.className = 'review noshow':rev.className = 'review show';
	} else if (bib && info == 'bibtex') {
		bib.className.indexOf('noshow') == -1?bib.className = 'bibtex noshow':bib.className = 'bibtex show';
	} else { 
		return;
	}

	// check if one or the other is available
	var revshow; var absshow; var bibshow;
	(abs && abs.className.indexOf('noshow') == -1)? absshow = true: absshow = false;
	(rev && rev.className.indexOf('noshow') == -1)? revshow = true: revshow = false;	
	(bib && bib.className.indexOf('noshow') == -1)? bibshow = true: bibshow = false;
	
	// highlight original entry
	if(entry) {
		if (revshow || absshow || bibshow) {
		entry.className = 'entry highlight show';
		} else {
		entry.className = 'entry show';
		}
	}
	
	// When there's a combination of abstract/review/bibtex showing, need to add class for correct styling
	if(absshow) {
		(revshow||bibshow)?abs.className = 'abstract nextshow':abs.className = 'abstract';
	} 
	if (revshow) {
		bibshow?rev.className = 'review nextshow': rev.className = 'review';
	}	
	
}

function setStatistics (hits) {
	if(hits < 0) { hits=numEntries; }
	if(stats) { stats.firstChild.data = hits + '/' + numEntries}
}

function getTextContent(node) {
	// Function written by Arve Bersvendsen
	// http://www.virtuelvis.com
	
	if (node.nodeType == 3) {
	return node.nodeValue;
	} // text node
	if (node.nodeType == 1 && node.className != "infolinks") { // element node
	var text = [];
	for (var chld = node.firstChild;chld;chld=chld.nextSibling) {
		text.push(getTextContent(chld));
	}
	return text.join("");
	} return ""; // some other node, won't contain text nodes.
}

function showAll(){
	closeAllInfo();
	for (var i = 0; i < numEntries; i++){ entryRows[i].className = 'entry show'; }
}

function closeAllInfo(){
	for (var i=0; i < numInfo; i++){
		if (infoRows[i].className.indexOf('noshow') ==-1) {
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<table id="qs_table" border="1">
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<tr id="Ayyer2014" class="entry">
	<td>Ayyer K, Philipp HT, Tate MW, Elser V and Gruner SM (2014), <i>"Real-Space x-ray tomographic reconstruction of randomly oriented objects with sparse data frames"</i>, Opt. Express., Feb, 2014.  Vol. 22(3), pp. 2403-2413. OSA.
	<p class="infolinks">[<a href="javascript:toggleInfo('Ayyer2014','abstract')">Abstract</a>] [<a href="javascript:toggleInfo('Ayyer2014','bibtex')">BibTeX</a>] [<a href="http://dx.doi.org/10.1364/OE.22.002403" target="_blank">DOI</a>] [<a href="http://www.opticsexpress.org/abstract.cfm?URI=oe-22-3-2403" target="_blank">URL</a>]</p>
	</td>
</tr>
<tr id="abs_Ayyer2014" class="abstract noshow">
	<td><b>Abstract</b>: Schemes for X-ray imaging single protein molecules using new x-ray sources, like x-ray free electron lasers (XFELs), require processing many frames of data that are obtained by taking temporally short snapshots of identical molecules, each with a random and unknown orientation. Due to the small size of the molecules and short exposure times, average signal levels of much less than 1 photon/pixel/frame are expected, much too low to be processed using standard methods. One approach to process the data is to use statistical methods developed in the EMC algorithm (Loh &amp;x00026; Elser, Phys. Rev. E, 2009) which processes the data set as a whole. In this paper we apply this method to a real-space tomographic reconstruction using sparse frames of data (below 10&amp;x02212;2 photons/pixel/frame) obtained by performing x-ray transmission measurements of a low-contrast, randomly-oriented object. This extends the work by Philipp et al. (Optics Express, 2012) to three dimensions and is one step closer to the single molecule reconstruction problem.</td>
</tr>
<tr id="bib_Ayyer2014" class="bibtex noshow">
<td><b>BibTeX</b>:
<pre>
@article{Ayyer2014,
  author = {Kartik Ayyer and Hugh T. Philipp and Mark W. Tate and Veit Elser and Sol M. Gruner},
  title = {Real-Space x-ray tomographic reconstruction of randomly oriented objects with sparse data frames},
  journal = {Opt. Express},
  publisher = {OSA},
  year = {2014},
  volume = {22},
  number = {3},
  pages = {2403--2413},
  url = {http://www.opticsexpress.org/abstract.cfm?URI=oe-22-3-2403},
  doi = {10.1364/OE.22.002403}
}
</pre></td>
</tr>
<tr id="ayyer2013real" class="entry">
	<td>Ayyer K, Philipp HT, Tate MW, Elser V and Gruner SM (2013), <i>"Real-Space x-ray tomographic reconstruction of randomly oriented objects with sparse data frames"</i>, arXiv preprint.  Vol. physics.data-an, pp. arXiv:1311.1776.
	<p class="infolinks"> [<a href="javascript:toggleInfo('ayyer2013real','bibtex')">BibTeX</a>]</p>
	</td>
</tr>
<tr id="bib_ayyer2013real" class="bibtex noshow">
<td><b>BibTeX</b>:
<pre>
@article{ayyer2013real,
  author = {Ayyer, Kartik and Philipp, Hugh T and Tate, Mark W and Elser, Veit and Gruner, Sol M},
  title = {Real-Space x-ray tomographic reconstruction of randomly oriented objects with sparse data frames},
  journal = {arXiv preprint},
  year = {2013},
  volume = {physics.data-an},
  pages = {arXiv:1311.1776}
}
</pre></td>
</tr>
<tr id="green2013calibration" class="entry">
	<td>Green KS, Philipp HT, Tate MW, Weiss JT and Gruner SM (2013), <i>"Calibration and post-processing for photon-integrating pixel array detectors"</i>, Journal of Physics: Conference Series.  Vol. 425(6), pp. 062009. IOP Publishing.
	<p class="infolinks">[<a href="javascript:toggleInfo('green2013calibration','abstract')">Abstract</a>] [<a href="javascript:toggleInfo('green2013calibration','bibtex')">BibTeX</a>]</p>
	</td>
</tr>
<tr id="abs_green2013calibration" class="abstract noshow">
	<td><b>Abstract</b>: We have developed calibration and data processing techniques optimized specifically for photon-integrating pixel array detectors (PADs). Primary effects to be calibrated are pixel gain variation and pixel area variation. Gain variations originate in pixel electronics and may be corrected for via a multiplicative factor. In contrast, area variations result from doping inhomogeneities in the sensor diode, which induce lateral fields that disturb the path of charge carriers as they traverse the diode, resulting in variation in the area mapped to each pixel, depending on the x-ray energy. Methods for measuring both effects are described. Additionally, the single-photon sensitivity used in the gain calibration enables flexible thresholding of events in low-fluence data.</td>
</tr>
<tr id="bib_green2013calibration" class="bibtex noshow">
<td><b>BibTeX</b>:
<pre>
@article{green2013calibration,
  author = {Green, Katherine S and Philipp, Hugh T and Tate, Mark W and Weiss, Joel T and Gruner, Sol M},
  title = {Calibration and post-processing for photon-integrating pixel array detectors},
  journal = {Journal of Physics: Conference Series},
  publisher = {IOP Publishing},
  year = {2013},
  volume = {425},
  number = {6},
  pages = {062009}
}
</pre></td>
</tr>
<tr id="Hromalik2013" class="entry">
	<td>Hromalik MS, Green KS, Philipp HT, Tate MW and Gruner SM (2013), <i>"The FPGA Pixel Array Detector "</i>, Nuclear Instruments and Methods in Physics Research Section A: Accelerators, Spectrometers, Detectors and Associated Equipment .  Vol. 701, pp. 7 - 16.
	<p class="infolinks">[<a href="javascript:toggleInfo('Hromalik2013','abstract')">Abstract</a>] [<a href="javascript:toggleInfo('Hromalik2013','bibtex')">BibTeX</a>] [<a href="http://dx.doi.org/10.1016/j.nima.2012.10.024" target="_blank">DOI</a>] [<a href="http://www.sciencedirect.com/science/article/pii/S0168900212011564" target="_blank">URL</a>]</p>
	</td>
</tr>
<tr id="abs_Hromalik2013" class="abstract noshow">
	<td><b>Abstract</b>: A proposed design for a reconfigurable x-ray Pixel Array Detector (PAD) is described. It operates by integrating a high-end commercial field programmable gate array (FPGA) into a 3-layer device along with a high-resistivity diode detection layer and a custom, application-specific integrated circuit (ASIC) layer. The ASIC layer contains an energy-discriminating photon-counting front end with photon hits streamed directly to the FPGA via a massively parallel, high-speed data connection. FPGA resources can be allocated to perform user defined tasks on the pixel data streams, including the implementation of a direct time autocorrelation function (ACF) with time resolution down to 100 ns. Using the FPGA at the front end to calculate the ACF reduces the required data transfer rate by several orders of magnitude when compared to a fast framing detector. The FPGA-ASIC high-speed interface, as well as the in-FPGA implementation of a real-time ACF for x-ray photon correlation spectroscopy experiments has been designed and simulated. A 16×16 pixel prototype of the ASIC has been fabricated and is being tested.</td>
</tr>
<tr id="bib_Hromalik2013" class="bibtex noshow">
<td><b>BibTeX</b>:
<pre>
@article{Hromalik2013,
  author = {Marianne S. Hromalik and Katherine S. Green and Hugh T. Philipp and Mark W. Tate and Sol M. Gruner},
  title = {The FPGA Pixel Array Detector },
  journal = {Nuclear Instruments and Methods in Physics Research Section A: Accelerators, Spectrometers, Detectors and Associated Equipment },
  year = {2013},
  volume = {701},
  pages = {7 - 16},
  url = {http://www.sciencedirect.com/science/article/pii/S0168900212011564},
  doi = {10.1016/j.nima.2012.10.024}
}
</pre></td>
</tr>
<tr id="philipp2013recovering" class="entry">
	<td>Philipp H, Ayyer K, Tate M, Elser V and Gruner S (2013), <i>"Recovering structure from many low-information 2-D images of randomly-oriented samples"</i>, Journal of Physics: Conference Series.  Vol. 425(19), pp. 192016. IOP Publishing.
	<p class="infolinks"> [<a href="javascript:toggleInfo('philipp2013recovering','bibtex')">BibTeX</a>]</p>
	</td>
</tr>
<tr id="bib_philipp2013recovering" class="bibtex noshow">
<td><b>BibTeX</b>:
<pre>
@article{philipp2013recovering,
  author = {Philipp, HT and Ayyer, K and Tate, MW and Elser, V and Gruner, SM},
  title = {Recovering structure from many low-information 2-D images of randomly-oriented samples},
  journal = {Journal of Physics: Conference Series},
  publisher = {IOP Publishing},
  year = {2013},
  volume = {425},
  number = {19},
  pages = {192016}
}
</pre></td>
</tr>
<tr id="tate2013medium" class="entry">
	<td>Tate M, Chamberlain D, Green K, Philipp H, Purohit P, Strohman C and Gruner S (2013), <i>"A Medium-Format, Mixed-Mode Pixel Array Detector for Kilohertz X-ray Imaging"</i>, Journal of Physics: Conference Series.  Vol. 425(6), pp. 062004. IOP Publishing.
	<p class="infolinks"> [<a href="javascript:toggleInfo('tate2013medium','bibtex')">BibTeX</a>]</p>
	</td>
</tr>
<tr id="bib_tate2013medium" class="bibtex noshow">
<td><b>BibTeX</b>:
<pre>
@article{tate2013medium,
  author = {Tate, MW and Chamberlain, D and Green, KS and Philipp, HT and Purohit, P and Strohman, C and Gruner, SM},
  title = {A Medium-Format, Mixed-Mode Pixel Array Detector for Kilohertz X-ray Imaging},
  journal = {Journal of Physics: Conference Series},
  publisher = {IOP Publishing},
  year = {2013},
  volume = {425},
  number = {6},
  pages = {062004}
}
</pre></td>
</tr>
<tr id="boutet2012high" class="entry">
	<td>Boutet S&eacute;, Lomb L, Williams GJ, Barends TR, Aquila A, Doak RB, Weierstall U, DePonte DP, Steinbrener J, Shoeman RL and others (2012), <i>"High-resolution protein structure determination by serial femtosecond crystallography"</i>, Science.  Vol. 337(6092), pp. 362-364. American Association for the Advancement of Science.
	<p class="infolinks"> [<a href="javascript:toggleInfo('boutet2012high','bibtex')">BibTeX</a>]</p>
	</td>
</tr>
<tr id="bib_boutet2012high" class="bibtex noshow">
<td><b>BibTeX</b>:
<pre>
@article{boutet2012high,
  author = {Boutet, S&eacute;bastien and Lomb, Lukas and Williams, Garth J and Barends, Thomas RM and Aquila, Andrew and Doak, R Bruce and Weierstall, Uwe and DePonte, Daniel P and Steinbrener, Jan and Shoeman, Robert L and others},
  title = {High-resolution protein structure determination by serial femtosecond crystallography},
  journal = {Science},
  publisher = {American Association for the Advancement of Science},
  year = {2012},
  volume = {337},
  number = {6092},
  pages = {362--364}
}
</pre></td>
</tr>
<tr id="hromalik2012asynchronous" class="entry">
	<td>Hromalik MS, Green K, Philipp H, Tate MW and Gruner SM (2012), <i>"Asynchronous and synchronous implementations of the autocorrelation function for the FPGA X-ray pixel array detector"</i>, In Real Time Conference (RT), 2012 18th IEEE-NPSS. , pp. 1-8.
	<p class="infolinks"> [<a href="javascript:toggleInfo('hromalik2012asynchronous','bibtex')">BibTeX</a>]</p>
	</td>
</tr>
<tr id="bib_hromalik2012asynchronous" class="bibtex noshow">
<td><b>BibTeX</b>:
<pre>
@inproceedings{hromalik2012asynchronous,
  author = {Hromalik, Marianne S and Green, Kate and Philipp, Hugh and Tate, Mark W and Gruner, Sol M},
  title = {Asynchronous and synchronous implementations of the autocorrelation function for the FPGA X-ray pixel array detector},
  booktitle = {Real Time Conference (RT), 2012 18th IEEE-NPSS},
  year = {2012},
  pages = {1--8}
}
</pre></td>
</tr>
<tr id="meshot2012high" class="entry">
	<td>Meshot ER, Verploegen E, Bedewy M, Tawfick S, Woll AR, Green KS, Hromalik M, Koerner LJ, Philipp HT, Tate MW and others (2012), <i>"High-speed in situ X-ray scattering of carbon nanotube film nucleation and self-organization"</i>, Acs Nano.  Vol. 6(6), pp. 5091-5101. ACS Publications.
	<p class="infolinks"> [<a href="javascript:toggleInfo('meshot2012high','bibtex')">BibTeX</a>]</p>
	</td>
</tr>
<tr id="bib_meshot2012high" class="bibtex noshow">
<td><b>BibTeX</b>:
<pre>
@article{meshot2012high,
  author = {Meshot, Eric R and Verploegen, Eric and Bedewy, Mostafa and Tawfick, Sameh and Woll, Arthur R and Green, Katherine S and Hromalik, Marianne and Koerner, Lucas J and Philipp, Hugh T and Tate, Mark W and others},
  title = {High-speed in situ X-ray scattering of carbon nanotube film nucleation and self-organization},
  journal = {Acs Nano},
  publisher = {ACS Publications},
  year = {2012},
  volume = {6},
  number = {6},
  pages = {5091--5101}
}
</pre></td>
</tr>
<tr id="philipp2012solving" class="entry">
	<td>Philipp HT, Ayyer K, Tate MW, Elser V and Gruner SM (2012), <i>"Solving structure with sparse, randomly-oriented x-ray data"</i>, Optics express.  Vol. 20(12), pp. 13129-13137. Optical Society of America.
	<p class="infolinks">[<a href="javascript:toggleInfo('philipp2012solving','abstract')">Abstract</a>] [<a href="javascript:toggleInfo('philipp2012solving','bibtex')">BibTeX</a>]</p>
	</td>
</tr>
<tr id="abs_philipp2012solving" class="abstract noshow">
	<td><b>Abstract</b>: Single-particle imaging experiments of biomolecules at x-ray free-electron lasers (XFELs) require processing hundreds of thousands of images that contain very few x-rays. Each low-fluence image of the diffraction pattern is produced by a single, randomly oriented particle, such as a protein. We demonstrate the feasibility of recovering structural information at these extremes using low-fluence images of a randomly oriented 2D x-ray mask. Successful reconstruction is obtained with images averaging only 2.5 photons per frame, where it seems doubtful there could be information about the state of rotation, let alone the image contrast. This is accomplished with an expectation maximization algorithm that processes the low-fluence data in aggregate, and without any prior knowledge of the object or its orientation. The versatility of the method promises, more generally, to redefine what measurement scenarios can provide useful signal.</td>
</tr>
<tr id="bib_philipp2012solving" class="bibtex noshow">
<td><b>BibTeX</b>:
<pre>
@article{philipp2012solving,
  author = {Philipp, Hugh T and Ayyer, Kartik and Tate, Mark W and Elser, Veit and Gruner, Sol M},
  title = {Solving structure with sparse, randomly-oriented x-ray data},
  journal = {Optics express},
  publisher = {Optical Society of America},
  year = {2012},
  volume = {20},
  number = {12},
  pages = {13129--13137}
}
</pre></td>
</tr>
<tr id="philipp2011low" class="entry">
	<td>Philipp HT, Tate MW and Gruner SM (2011), <i>"Low-flux measurements with Cornell's LCLS integrating pixel array detector"</i>, Journal of Instrumentation.  Vol. 6(11), pp. C11006. IOP Publishing.
	<p class="infolinks"> [<a href="javascript:toggleInfo('philipp2011low','bibtex')">BibTeX</a>]</p>
	</td>
</tr>
<tr id="bib_philipp2011low" class="bibtex noshow">
<td><b>BibTeX</b>:
<pre>
@article{philipp2011low,
  author = {Philipp, Hugh T and Tate, Mark W and Gruner, Sol M},
  title = {Low-flux measurements with Cornell's LCLS integrating pixel array detector},
  journal = {Journal of Instrumentation},
  publisher = {IOP Publishing},
  year = {2011},
  volume = {6},
  number = {11},
  pages = {C11006}
}
</pre></td>
</tr>
<tr id="philipp2011pixel" class="entry">
	<td>Philipp HT, Hromalik M, Tate M, Koerner L and Gruner SM (2011), <i>"Pixel array detector for x-ray free electron laser experiments"</i>, Nuclear Instruments and Methods in Physics Research Section A: Accelerators, Spectrometers, Detectors and Associated Equipment.  Vol. 649(1), pp. 67-69. North-Holland.
	<p class="infolinks"> [<a href="javascript:toggleInfo('philipp2011pixel','bibtex')">BibTeX</a>]</p>
	</td>
</tr>
<tr id="bib_philipp2011pixel" class="bibtex noshow">
<td><b>BibTeX</b>:
<pre>
@article{philipp2011pixel,
  author = {Philipp, Hugh T and Hromalik, Marianne and Tate, Mark and Koerner, Lucas and Gruner, Sol M},
  title = {Pixel array detector for x-ray free electron laser experiments},
  journal = {Nuclear Instruments and Methods in Physics Research Section A: Accelerators, Spectrometers, Detectors and Associated Equipment},
  publisher = {North-Holland},
  year = {2011},
  volume = {649},
  number = {1},
  pages = {67--69}
}
</pre></td>
</tr>
<tr id="philipp2010femtosecond" class="entry">
	<td>Philipp HT, Koerner LJ, Hromalik MS, Tate MW and Gruner SM (2010), <i>"Femtosecond radiation experiment detector for x-ray free-electron laser (XFEL) coherent x-ray imaging"</i>, Nuclear Science, IEEE Transactions on.  Vol. 57(6), pp. 3795-3799. IEEE.
	<p class="infolinks"> [<a href="javascript:toggleInfo('philipp2010femtosecond','bibtex')">BibTeX</a>]</p>
	</td>
</tr>
<tr id="bib_philipp2010femtosecond" class="bibtex noshow">
<td><b>BibTeX</b>:
<pre>
@article{philipp2010femtosecond,
  author = {Philipp, Hugh T and Koerner, Lucas J and Hromalik, Marianne S and Tate, Mark W and Gruner, Sol M},
  title = {Femtosecond radiation experiment detector for x-ray free-electron laser (XFEL) coherent x-ray imaging},
  journal = {Nuclear Science, IEEE Transactions on},
  publisher = {IEEE},
  year = {2010},
  volume = {57},
  number = {6},
  pages = {3795--3799}
}
</pre></td>
</tr>
<tr id="koerner2009x" class="entry">
	<td>Koerner L, Philipp H, Hromalik M, Tate M and Gruner S (2009), <i>"X-ray tests of a Pixel Array Detector for coherent x-ray imaging at the Linac Coherent Light Source"</i>, Journal of Instrumentation.  Vol. 4(03), pp. P03001. IOP Publishing.
	<p class="infolinks"> [<a href="javascript:toggleInfo('koerner2009x','bibtex')">BibTeX</a>]</p>
	</td>
</tr>
<tr id="bib_koerner2009x" class="bibtex noshow">
<td><b>BibTeX</b>:
<pre>
@article{koerner2009x,
  author = {Koerner, LJ and Philipp, HT and Hromalik, MS and Tate, MW and Gruner, SM},
  title = {X-ray tests of a Pixel Array Detector for coherent x-ray imaging at the Linac Coherent Light Source},
  journal = {Journal of Instrumentation},
  publisher = {IOP Publishing},
  year = {2009},
  volume = {4},
  number = {03},
  pages = {P03001}
}
</pre></td>
</tr>
<tr id="hromalik2007data" class="entry">
	<td>Hromalik MS, Philipp HT, Koerner LJ, Tate MW and Gruner SM (2007), <i>"Data acquisition and control for the LCLS pixel array detector"</i>, In Nuclear Science Symposium Conference Record, 2007. NSS'07. IEEE.  Vol. 3, pp. 1744-1750.
	<p class="infolinks"> [<a href="javascript:toggleInfo('hromalik2007data','bibtex')">BibTeX</a>]</p>
	</td>
</tr>
<tr id="bib_hromalik2007data" class="bibtex noshow">
<td><b>BibTeX</b>:
<pre>
@inproceedings{hromalik2007data,
  author = {Hromalik, Marianne S and Philipp, Hugh T and Koerner, Lucas J and Tate, Mark W and Gruner, Sol M},
  title = {Data acquisition and control for the LCLS pixel array detector},
  booktitle = {Nuclear Science Symposium Conference Record, 2007. NSS'07. IEEE},
  year = {2007},
  volume = {3},
  pages = {1744--1750}
}
</pre></td>
</tr>
<tr id="ou2007ultra" class="entry">
	<td>Ou H, Rottwitt K and Philipp HT (2007), <i>"Ultra-compact silica-on-silicon microresonators by etching deep trenches"</i>, European Conferenc on Integrated Optics: April 25-27., In European Conferenc on Integrated Optics (ECIO). 
	<p class="infolinks"> [<a href="javascript:toggleInfo('ou2007ultra','bibtex')">BibTeX</a>]</p>
	</td>
</tr>
<tr id="bib_ou2007ultra" class="bibtex noshow">
<td><b>BibTeX</b>:
<pre>
@inproceedings{ou2007ultra,
  author = {Ou, Haiyan and Rottwitt, Karsten and Philipp, Hugh Taylor},
  title = {Ultra-compact silica-on-silicon microresonators by etching deep trenches},
  booktitle = {European Conferenc on Integrated Optics (ECIO)},
  journal = {European Conferenc on Integrated Optics: April 25-27},
  year = {2007}
}
</pre></td>
</tr>
<tr id="Philipp2007" class="entry">
	<td>Philipp HT, Koerner LJ, Hromalik M, Tate MW and Gruner SM (2007), <i>"Pixel array detector for the capture of femtosecond duration x-ray images"</i>, In Optical Engineering+ Applications. , pp. 67030O-67030O.
	<p class="infolinks"> [<a href="javascript:toggleInfo('Philipp2007','bibtex')">BibTeX</a>]</p>
	</td>
</tr>
<tr id="bib_Philipp2007" class="bibtex noshow">
<td><b>BibTeX</b>:
<pre>
@inproceedings{Philipp2007,
  author = {Philipp, Hugh T and Koerner, Lucas J and Hromalik, Marianne and Tate, Mark W and Gruner, Sol M},
  title = {Pixel array detector for the capture of femtosecond duration x-ray images},
  booktitle = {Optical Engineering+ Applications},
  year = {2007},
  pages = {67030O--67030O}
}
</pre></td>
</tr>
<tr id="philipp2007pixel" class="entry">
	<td>Philipp H, Koerner L, Hromalik M, Tate M and Gruner S (2007), <i>"Pixel array detector for the capture of femtosecond duration x-ray images [6703-22]"</i>, PROCEEDINGS-SPIE THE INTERNATIONAL SOCIETY FOR OPTICAL ENGINEERING.  Vol. 6703, pp. 6703. International Society for Optical Engineering; 1999.
	<p class="infolinks"> [<a href="javascript:toggleInfo('philipp2007pixel','bibtex')">BibTeX</a>]</p>
	</td>
</tr>
<tr id="bib_philipp2007pixel" class="bibtex noshow">
<td><b>BibTeX</b>:
<pre>
@article{philipp2007pixel,
  author = {Philipp, HT and Koerner, LJ and Hromalik, M and Tate, MW and Gruner, SM},
  title = {Pixel array detector for the capture of femtosecond duration x-ray images [6703-22]},
  journal = {PROCEEDINGS-SPIE THE INTERNATIONAL SOCIETY FOR OPTICAL ENGINEERING},
  publisher = {International Society for Optical Engineering; 1999},
  year = {2007},
  volume = {6703},
  pages = {6703}
}
</pre></td>
</tr>
<tr id="liu2006quantitative" class="entry">
	<td>Liu X, Im K-S, Wang Y, Wang J, Hung DL, Winkelman JR, Tate MW, Ercan A, Koerner LJ, Caswell T and others (2006), <i>"Quantitative characterization of near-field fuel sprays by multi-orifice direct injection using ultrafast x-tomography technique"</i>, SAE Paper., In SAE. , pp. 01-1041.
	<p class="infolinks"> [<a href="javascript:toggleInfo('liu2006quantitative','bibtex')">BibTeX</a>]</p>
	</td>
</tr>
<tr id="bib_liu2006quantitative" class="bibtex noshow">
<td><b>BibTeX</b>:
<pre>
@conference{liu2006quantitative,
  author = {Liu, Xin and Im, Kyoung-Su and Wang, Yujie and Wang, Jin and Hung, David LS and Winkelman, James R and Tate, Mark W and Ercan, Alper and Koerner, Lucas J and Caswell, Thomas and others},
  title = {Quantitative characterization of near-field fuel sprays by multi-orifice direct injection using ultrafast x-tomography technique},
  booktitle = {SAE},
  journal = {SAE Paper},
  year = {2006},
  pages = {01--1041}
}
</pre></td>
</tr>
<tr id="ou2006deep" class="entry">
	<td>Ou H, Rottwitt K and Philipp H (2006), <i>"Deep glass etched microring resonators based on silica-on-silicon technology"</i>, Electronics Letters.  Vol. 42(10), pp. 581-583. unknown.
	<p class="infolinks"> [<a href="javascript:toggleInfo('ou2006deep','bibtex')">BibTeX</a>]</p>
	</td>
</tr>
<tr id="bib_ou2006deep" class="bibtex noshow">
<td><b>BibTeX</b>:
<pre>
@article{ou2006deep,
  author = {Ou, Haiyan and Rottwitt, Karsten and Philipp, H},
  title = {Deep glass etched microring resonators based on silica-on-silicon technology},
  journal = {Electronics Letters},
  publisher = {unknown},
  year = {2006},
  volume = {42},
  number = {10},
  pages = {581--583}
}
</pre></td>
</tr>
<tr id="ou2006novel" class="entry">
	<td>Ou H, Rottwitt K and Philipp H (2006), <i>"Novel deep glass etched microring resonators based on silica-on-silicon technology"</i>, Integrated Photonics Research and Applications (IPRA), Topical meeting or the Nanophotonics Topical Meeting., In Integrated Photonics Research and Applications (IPRA). 
	<p class="infolinks"> [<a href="javascript:toggleInfo('ou2006novel','bibtex')">BibTeX</a>]</p>
	</td>
</tr>
<tr id="bib_ou2006novel" class="bibtex noshow">
<td><b>BibTeX</b>:
<pre>
@inproceedings{ou2006novel,
  author = {Ou, Haiyan and Rottwitt, Karsten and Philipp, Hugh},
  title = {Novel deep glass etched microring resonators based on silica-on-silicon technology},
  booktitle = {Integrated Photonics Research and Applications (IPRA)},
  journal = {Integrated Photonics Research and Applications (IPRA), Topical meeting or the Nanophotonics Topical Meeting},
  year = {2006}
}
</pre></td>
</tr>
<tr id="dyvelkovlow" class="entry">
	<td>Dyvelkov KN, Ou H, Philipp HT and Svendsen WE (2004), <i>"Low-loss silicon rich silicon nitride waveguides for high density integrated optics"</i> (JWB28)
	<p class="infolinks"> [<a href="javascript:toggleInfo('dyvelkovlow','bibtex')">BibTeX</a>]</p>
	</td>
</tr>
<tr id="bib_dyvelkovlow" class="bibtex noshow">
<td><b>BibTeX</b>:
<pre>
@proceedings{dyvelkovlow,
  author = {Dyvelkov, Karin Nordstr&ouml;m and Ou, Haiyan and Philipp, Hugh Taylor and Svendsen, Winnie Edith},
  title = {Low-loss silicon rich silicon nitride waveguides for high density integrated optics},
  year = {2004},
  number = {JWB28}
}
</pre></td>
</tr>
<tr id="olsen2004measurement" class="entry">
	<td>Olsen JH (2004), <i>"Measurement of nonlinear refraction of waveguide materials"</i>. Thesis at: Technical University of Denmark, DTU, DK-2800 Kgs. Lyngby, Denmark. 
	<p class="infolinks"> [<a href="javascript:toggleInfo('olsen2004measurement','bibtex')">BibTeX</a>]</p>
	</td>
</tr>
<tr id="bib_olsen2004measurement" class="bibtex noshow">
<td><b>BibTeX</b>:
<pre>
@phdthesis{olsen2004measurement,
  author = {Olsen, Johnny Hartvig},
  title = {Measurement of nonlinear refraction of waveguide materials},
  school = {Technical University of Denmark, DTU, DK-2800 Kgs. Lyngby, Denmark},
  year = {2004}
}
</pre></td>
</tr>
<tr id="Philipp2004" class="entry">
	<td>Philipp HT, Andersen KN, Svendsen WE and Svalgaard M (2004), <i>"High density high index contrast integrated optics developments and applications at COM"</i>, DOPS-Nyt.  Vol. 19, pp. 10-14. unknown.
	<p class="infolinks"> [<a href="javascript:toggleInfo('Philipp2004','bibtex')">BibTeX</a>]</p>
	</td>
</tr>
<tr id="bib_Philipp2004" class="bibtex noshow">
<td><b>BibTeX</b>:
<pre>
@article{Philipp2004,
  author = {Philipp, Hugh T and Andersen, Karin Nordstr&ouml;m and Svendsen, Winnie Edith and Svalgaard, Mikael},
  title = {High density high index contrast integrated optics developments and applications at COM},
  journal = {DOPS-Nyt},
  publisher = {unknown},
  year = {2004},
  volume = {19},
  pages = {10--14}
}
</pre></td>
</tr>
<tr id="philipp2004amorphous" class="entry">
	<td>Philipp HT, Andersen KN, Svendsen W and Ou H (2004), <i>"Amorphous silicon rich silicon nitride optical waveguides for high density integrated optics"</i>, Electronics Letters.  Vol. 40(7), pp. 419-421. IET.
	<p class="infolinks"> [<a href="javascript:toggleInfo('philipp2004amorphous','bibtex')">BibTeX</a>]</p>
	</td>
</tr>
<tr id="bib_philipp2004amorphous" class="bibtex noshow">
<td><b>BibTeX</b>:
<pre>
@article{philipp2004amorphous,
  author = {Philipp, Hugh T and Andersen, Karin Nordstr&ouml;m and Svendsen, W and Ou, H},
  title = {Amorphous silicon rich silicon nitride optical waveguides for high density integrated optics},
  journal = {Electronics Letters},
  publisher = {IET},
  year = {2004},
  volume = {40},
  number = {7},
  pages = {419--421}
}
</pre></td>
</tr>
<tr id="philipp2004high" class="entry">
	<td>Philipp HT, Rottwitt K and Povlsen JoH (2004), <i>"High-Index Contrast Silicon Rich Silicon Nitride Optical Waveguides and Devices"</i>. Thesis at: Technical University of DenmarkDanmarks Tekniske Universitet, Department of Photonics EngineeringInstitut for Fotonik, Fibers &amp; Nonlinear OpticsFiber-&amp; uline&aelig;r optik. 
	<p class="infolinks"> [<a href="javascript:toggleInfo('philipp2004high','bibtex')">BibTeX</a>]</p>
	</td>
</tr>
<tr id="bib_philipp2004high" class="bibtex noshow">
<td><b>BibTeX</b>:
<pre>
@phdthesis{philipp2004high,
  author = {Philipp, Hugh Taylor and Rottwitt, Karsten and Povlsen, J&oslash;rn Hedegaard},
  title = {High-Index Contrast Silicon Rich Silicon Nitride Optical Waveguides and Devices},
  school = {Technical University of DenmarkDanmarks Tekniske Universitet, Department of Photonics EngineeringInstitut for Fotonik, Fibers &amp; Nonlinear OpticsFiber-&amp; uline&aelig;r optik},
  year = {2004}
}
</pre></td>
</tr>
<tr id="philipp2004low" class="entry">
	<td>Philipp HT, Andersen KN, Svendsen WE and Ou H (2004), <i>"Low-loss silicon rich silicon nitride waveguides for high density integrated optics"</i>, In Integrated Photonics Research. 
	<p class="infolinks"> [<a href="javascript:toggleInfo('philipp2004low','bibtex')">BibTeX</a>]</p>
	</td>
</tr>
<tr id="bib_philipp2004low" class="bibtex noshow">
<td><b>BibTeX</b>:
<pre>
@inproceedings{philipp2004low,
  author = {Philipp, Hugh T and Andersen, Karin N and Svendsen, Winnie E and Ou, Haiyan},
  title = {Low-loss silicon rich silicon nitride waveguides for high density integrated optics},
  booktitle = {Integrated Photonics Research},
  year = {2004}
}
</pre></td>
</tr>
<tr id="andersen2003silicon" class="entry">
	<td>Andersen KN, Svendsen WE, Sandberg RK, Philipp HT and H&uuml;bner J (2003), <i>"Silicon-rich nitride micro-resonators"</i>, ECIO, Paper WeA2., In European Conference on Integrated Optics (ECIO).  Vol. 2(WeA2)
	<p class="infolinks"> [<a href="javascript:toggleInfo('andersen2003silicon','bibtex')">BibTeX</a>]</p>
	</td>
</tr>
<tr id="bib_andersen2003silicon" class="bibtex noshow">
<td><b>BibTeX</b>:
<pre>
@inproceedings{andersen2003silicon,
  author = {Andersen, Karin Nordstr&ouml;m and Svendsen, Winnie Edith and Sandberg, Rasmus Kousholt and Philipp, Hugh Taylor and H&uuml;bner, Jorg},
  title = {Silicon-rich nitride micro-resonators},
  booktitle = {European Conference on Integrated Optics (ECIO)},
  journal = {ECIO, Paper WeA2},
  year = {2003},
  volume = {2},
  number = {WeA2}
}
</pre></td>
</tr>
<tr id="philipp2003measurement" class="entry">
	<td>Philipp HT, Svendsen W, Andersen KN, Hubner J and Povlsen JH (2003), <i>"Measurement of optical nonlinearity in silicon rich nitride waveguide ring resonators"</i>, Electronics letters.  Vol. 39(16), pp. 1184-1185. IET.
	<p class="infolinks"> [<a href="javascript:toggleInfo('philipp2003measurement','bibtex')">BibTeX</a>]</p>
	</td>
</tr>
<tr id="bib_philipp2003measurement" class="bibtex noshow">
<td><b>BibTeX</b>:
<pre>
@article{philipp2003measurement,
  author = {Philipp, Hugh Taylor and Svendsen, W and Andersen, Karin Nordstr&ouml;m and Hubner, J and Povlsen, J Hedegaard},
  title = {Measurement of optical nonlinearity in silicon rich nitride waveguide ring resonators},
  journal = {Electronics letters},
  publisher = {IET},
  year = {2003},
  volume = {39},
  number = {16},
  pages = {1184--1185}
}
</pre></td>
</tr>
<tr id="mertens2002optical" class="entry">
	<td>Mertens H, Svendsen WE, Andersen KN and Philipp H (2002), <i>"Optical loss analysis of silicon rich nitride waveguides and their applications"</i>, Danish Physical Society annual meeting 2002. (FF70P)
	<p class="infolinks"> [<a href="javascript:toggleInfo('mertens2002optical','bibtex')">BibTeX</a>]</p>
	</td>
</tr>
<tr id="bib_mertens2002optical" class="bibtex noshow">
<td><b>BibTeX</b>:
<pre>
@proceedings{mertens2002optical,
  author = {Mertens, H and Svendsen, Winnie Edith and Andersen, Karin Nordstr&ouml;m and Philipp, H},
  title = {Optical loss analysis of silicon rich nitride waveguides and their applications},
  journal = {Danish Physical Society annual meeting 2002},
  year = {2002},
  number = {FF70P}
}
</pre></td>
</tr>
<tr id="svendsen2002high" class="entry">
	<td>Svendsen WE, Philipp HT, Svalgaard M, Mertens H and Andersen KN (2002), <i>"High index ring resonator coupled to UV-written waveguide"</i>, In Optical Communication, 2002. ECOC 2002. 28th European Conference on.  Vol. 2, pp. 1-2.
	<p class="infolinks"> [<a href="javascript:toggleInfo('svendsen2002high','bibtex')">BibTeX</a>]</p>
	</td>
</tr>
<tr id="bib_svendsen2002high" class="bibtex noshow">
<td><b>BibTeX</b>:
<pre>
@inproceedings{svendsen2002high,
  author = {Svendsen, Winnie Edith and Philipp, Hugh Taylor and Svalgaard, Mikael and Mertens, Hans and Andersen, Karin Nordstr&ouml;m},
  title = {High index ring resonator coupled to UV-written waveguide},
  booktitle = {Optical Communication, 2002. ECOC 2002. 28th European Conference on},
  year = {2002},
  volume = {2},
  pages = {1--2}
}
</pre></td>
</tr>
</tbody>
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<footer>
 <small>Created by <a href="http://jabref.sourceforge.net">JabRef</a> on 29/01/2014.</small>
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My research at Cornell has concentrated on the development CMOS based X-ray detectors known as Pixel Array Detectors.  My first project was the LCLS detector for coherent x-ray imaging ([[look here|http://bigbro.biophys.cornell.edu/publications/246b%20Philipp.pdf]] and in Publications and Presentations).

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[[X-Ray Data Book|./files/XrayDataBook.pdf]]

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	}
}

if (Story.prototype.SPM_coreDisplayTiddlers==undefined)
	Story.prototype.SPM_coreDisplayTiddlers=Story.prototype.displayTiddlers;
Story.prototype.displayTiddlers = function() {
	// suspend single/top/bottom modes when showing multiple tiddlers
	var opt=config.options;
	var saveSPM=opt.chkSinglePageMode; opt.chkSinglePageMode=false;
	var saveTPM=opt.chkTopOfPageMode; opt.chkTopOfPageMode=false;
	var saveBPM=opt.chkBottomOfPageMode; opt.chkBottomOfPageMode=false;
	this.SPM_coreDisplayTiddlers.apply(this,arguments);
	opt.chkBottomOfPageMode=saveBPM;
	opt.chkTopOfPageMode=saveTPM;
	opt.chkSinglePageMode=saveSPM;
}
//}}}

@@coolr(#ff8614):<<tiddler ToggleRightSidebar with: ".">>@@

Hugh Philipp's Webpage

[[SideBarWG]]

/***
!Top Menu Styles
***/
/*{{{*/
#topMenu br {display:none; }
#topMenu { background: #000 ; color:#fff;padding: 1em 1em;}
/*}}}*/

/***
!General
***/
/*{{{*/
body {
 background: #222;
 margin: 0 auto;
}

 #contentWrapper{
 background: #fff;
 border: 0;
 margin: 0 auto;
 width: 792px;
 padding:0;
}
/*}}}*/

/***
!Header rules
***/
/*{{{*/
.titleLine{
 margin: 80px auto 0em ;
margin-left:1.7em;
margin-bottom: 40px;
 padding: 0;
 text-align: left;
 color: #fff;
}

.siteTitle {
	font-size: 2em;
        font-weight: bold;
}

.siteSubtitle {
	font-size: 1.1em;
        display: block;
        margin: .5em auto 1em;
}

.gradient {margin: 0 auto;}



.header {
 background: #fff; 
 margin: 0 auto;
 padding:0 12px;
 width: 768px;
}
/*}}}*/

/***
!Display Area
***/
/*{{{*/
#bodywrapper {margin:0 12px; padding:0;background:#fff; height:1%}

#displayArea{
 margin: 0em 16em 0em 1em;
 text-align: left;
}

.tiddler {
	padding: 1em 1em 0em 0em;
}

h1,h2,h3,h4,h5 { color: #000; background: transparent; padding-bottom:2px; border-bottom: 1px dotted #666; }
.title {color:black; font-size:1.8em; border-bottom:1px solid #333; padding-bottom:0.3px;}
.subtitle { font-size:90%; color:#ccc; padding-left:0.25em; margin-top:0.1em; }

.shadow .title {
	color: #aaa;
}

.tagClear{
	clear: none; 
}

* html .viewer pre {
	margin-left: 0em;
}

* html .editor textarea, * html .editor input {
	width: 98%;
}

.tiddler {margin-bottom:1em; padding-bottom:0em;}


.toolbar .button {color:#bbb; border:none;}
.toolbar .button:hover, .toolbar .highlight, .toolbar .marked, .toolbar a.button:active {background:transparent; color:#111; border:none; text-decoration:underline;}

#sidebar .highlight, #sidebar .marked {background:transparent;}

.tagging, .tagged {
	border: 1px solid #eee;
	background-color: #F7F7F7;
}

.selected .tagging, .selected .tagged {
	background-color: #eee;
	border: 1px solid #bbb;
}

 .tagging .listTitle, .tagged .listTitle {
	color: #bbb;
}

.selected .tagging .listTitle, .selected .tagged .listTitle {
	color: #222; 
}


.tagging .button:hover, .tagged .button:hover {
		border: none; background:transparent; text-decoration:underline; color:#000;
}

.tagging .button, .tagged .button {
		color:#aaa;
}

.selected .tagging .button, .selected .tagged .button {
		color:#000;
}

.viewer blockquote {
	border-left: 3px solid #000;
}

.viewer pre, .viewer code {
	border: 1px dashed #ccc;
	background: #eee;}

.viewer hr {
	border: 0;
	border-top: solid 1px #333;
 margin: 0 8em;
	color: #333;
}

.highlight, .marked {background:transparent; color:#111; border:none; text-decoration:underline;}

.viewer .highlight, .viewer .marked {text-decoration:none;}

#sidebarTabs .highlight, #sidebarTabs .marked {color:#000; text-decoration:none;}

.tabSelected {
 color: #000;
 background: #fff;
 border-top: solid 1px #ccc;
 border-left: solid 1px #ccc;
 border-right: solid 1px #ccc;
 border-bottom: none;
}

.viewer .tabSelected:hover{color:#000;}

.viewer .tabSelected {font-weight:bold;}

.tabUnselected {
 color: #999;
 background: #eee;
 border-top: solid 1px #ccc;
 border-left: solid 1px #ccc;
 border-right: solid 1px #ccc;
 border-bottom: solid 1px #ccc;
 padding-bottom:1px;
}

.tabContents {
 background: #fff;
  color: #000;
}
/*}}}*/
/***
!!!Tables
***/
/*{{{*/
.viewer table {
	border: 1px solid #000;
}

.viewer th, thead td {
	background: #000;
	border: 1px solid #000;
	color: #fff;
}

.viewer td, .viewer tr {
	border: 1px solid #111;
}
/*}}}*/


/***
!!!Editor area
***/
/*{{{*/
.editor input, .editor textarea {
	border: 1px solid #ccc;
}

.editor {padding-top:0.3em;}

.editor textarea:focus, .editor input:focus {
	border: 1px solid #333;
}
/*}}}*/

/***
!Sidebar
***/
/*{{{*/
#sidebar{
position:relative;
float:right;
margin-bottom:1em;
display:inline;
width: 16em;
}

#sidebarOptions .sliderPanel {
	background: #eee; border:1px solid #ccc;
}

/*}}}*/

/***
!Body Footer rules
***/
/*{{{*/
#contentFooter {
 text-align: left;
 clear: both;
 color:#fff;
 background: #000;
 padding: 1em 2em;
font-weight:bold;
}

/*}}}*/
/***
!Link Styles
***/
/*{{{*/
a{
	color: #000;
}

a:hover{
        color: #FF6600;
        background:#fff;
}


.button {
	color: #000;
	border: 1px solid #fff;
}

.button:hover {
	color: #fff;
	background: #ff8614;
	border-color: #000;
}

.button:active {
	color: #fff;
	background: #ff8614;
	border: 1px solid #000;
}

.tiddlyLink {border-bottom: 1px dotted #000;}
.tiddlyLink:hover {border-bottom: 1px dotted #FF6600;} 

.titleLine a {border-bottom: 1px dotted #FF9900;}

.titleLine a:hover {border-bottom: 1px dotted #fff;}

.siteTitle a, .siteSubtitle a{
 color: #fff;
}

.viewer .button {border: 1px solid #ff8614; font-weight:bold;}
.viewer .button:hover, .viewer .marked, .viewer .highlight{background:#ff8614; color:#fff; font-weight:bold; border: 1px solid #000;}

#topMenu .button, #topMenu .tiddlyLink {
 margin-left:0.5em; margin-right:0.5em;
 padding-left:3px; padding-right:3px;
 color:white;
}
#topMenu .button:hover, #topMenu .tiddlyLink:hover { background:#000; color:#FF8814}

#topMenu a{border:none;}
/*}}}*/

/***
!Message Area /%=================================================%/
***/
/*{{{*/
#messageArea {
	border: 4px dotted #ff8614;
	background: #000;
	color: #fff;
        font-size:90%;
}

#messageArea .button {
	padding: 0.2em;
	color: #000;
	background: #fff;
        text-decoration:none;
        font-weight:bold;
        border:1px solid #000; 
}

#messageArea a {color:#fff;}

#messageArea a:hover {color:#ff8614; background:transparent;}

#messageArea .button:hover {background: #FF8614; color:#fff; border:1px solid #fff; }

/*}}}*/

/***
!Popup /%=================================================%/
***/
/*{{{*/
.popup {
	background: #ff8814;
	border: 1px solid #333;
}

.popup hr {
	color: #333;
	background: #333;
	border-bottom: 1px;
}

.popup li.disabled {
	color: #333;
}

.popup li a, .popup li a:visited {
	color: #eee;
	border: none;
}

.popup li a:hover {
	background: #ff8614;
	color: #fff;
	border: none;
        text-decoration:underline;
}
/*}}}*/

.blog h2, .blog h3, .blog h4{
  margin:0;
  padding:0;
border-bottom:none;
}
.blog {margin-left:1.5em;}  


.blog .excerpt {
  margin:0;
margin-top:0.3em;
  padding: 0;
  margin-left:1em;
  padding-left:1em;
  font-size:90%;
  border-left:1px solid #ddd;
}

#tiddlerWhatsNew h1, #tiddlerWhatsNew h2 {border-bottom:none;}
div[tags~="RecentUpdates"], div[tags~="lewcidExtension"] {margin-bottom: 2em;}

#hoverMenu  .button, #hoverMenu  .tiddlyLink {border:none; font-weight:bold; background:#f37211; color:#fff; padding:0 5px; float:right; margin-bottom:4px;}
#hoverMenu .button:hover, #hoverMenu .tiddlyLink:hover {font-weight:bold; border:none; color:#f37211; background:#000; padding:0 5px; float:right; margin-bottom:4px;}

#topMenu .fontResizer {float:right;}

#topMenu .fontResizer .button{border:1px solid #000;}
#topMenu .fontResizer .button:hover {border:1px solid #f37211; color:#fff;}
#sidebarTabs .txtMainTab .tiddlyLinkExisting {
 font-weight: normal;
 font-style: normal;
}

#sidebarTabs .txtMoreTab .tiddlyLinkExisting {
 font-weight: bold;
 font-style: normal;
}

.blog h2, .blog h3, .blog h4{
  margin:0;
  padding:0;
border-bottom:none;
}
.blog {margin-left:1.5em;}  


.blog .excerpt {
  margin:0;
margin-top:0.3em;
  padding: 0;
  margin-left:1em;
  padding-left:1em;
  font-size:90%;
  border-left:1px solid #ddd;
}

#tiddlerWhatsNew h1, #tiddlerWhatsNew h2 {border-bottom:none;}
div[tags~="RecentUpdates"], div[tags~="lewcidExtension"] {margin-bottom: 2em;}

#hoverMenu {background:transparent;}
#hoverMenu  .button, #hoverMenu  .tiddlyLink {border:none; font-weight:bold; background:#f37211; color:#fff; padding:0 5px; float:right; margin-bottom:4px;}
#hoverMenu .button:hover, #hoverMenu .tiddlyLink:hover {font-weight:bold; border:none; color:#f37211; background:#000; padding:0 5px; float:right; margin-bottom:4px;}

#topMenu .fontResizer {float:right;}

#topMenu .fontResizer .button{border:1px solid #000;}
#topMenu .fontResizer .button:hover {border:1px solid #f37211; color:#fff;}
#sidebarTabs .txtMainTab .tiddlyLinkExisting {
 font-weight: normal;
 font-style: normal;
}

#sidebarTabs .txtMoreTab .tiddlyLinkExisting {
 font-weight: bold;
 font-style: normal;
}

/%
!info
|Name|ToggleRightSidebar|
|Source|http://www.TiddlyTools.com/#ToggleRightSidebar|
|Version|2.0.0|
|Author|Eric Shulman|
|License|http://www.TiddlyTools.com/#LegalStatements|
|~CoreVersion|2.1|
|Type|transclusion|
|Description|show/hide right sidebar (SideBarOptions)|
Usage
<<<
{{{
<<tiddler ToggleRightSidebar>>
<<tiddler ToggleRightSidebar with: label tooltip>>
}}}
Try it: <<tiddler ToggleRightSidebar##show
	with: {{config.options.chkShowRightSidebar?'►':'◄'}}>>
<<<
Configuration:
<<<
copy/paste the following settings into a tiddler tagged with <<tag systemConfig>> and then modify the values to suit your preferences:
{{{
config.options.chkShowRightSidebar=true;
config.options.txtToggleRightSideBarLabelShow="◄";
config.options.txtToggleRightSideBarLabelHide="►";
}}}
<<<
!end
!show
<<tiddler {{
	var co=config.options;
	if (co.chkShowRightSidebar===undefined) co.chkShowRightSidebar=true;
	var sb=document.getElementById('sidebar');
	var da=document.getElementById('displayArea');
	if (sb) {
		sb.style.display=co.chkShowRightSidebar?'block':'none';
		da.style.marginRight=co.chkShowRightSidebar?'':'1em';
	}
'';}}>><html><nowiki><a href='javascript:;' title="$2"
onmouseover="
	this.href='javascript:void(eval(decodeURIComponent(%22(function(){try{('
	+encodeURIComponent(encodeURIComponent(this.onclick))
	+')()}catch(e){alert(e.description?e.description:e.toString())}})()%22)))';"
onclick="
	var co=config.options;
	var opt='chkShowRightSidebar';
	var show=co[opt]=!co[opt];
	var sb=document.getElementById('sidebar');
	var da=document.getElementById('displayArea');
	if (sb) {
		sb.style.display=show?'block':'none';
		da.style.marginRight=show?'':'1em';
	}
	saveOptionCookie(opt);
	var labelShow=co.txtToggleRightSideBarLabelShow||'&#x25C4;';
	var labelHide=co.txtToggleRightSideBarLabelHide||'&#x25BA;';
	if (this.innerHTML==labelShow||this.innerHTML==labelHide) 
		this.innerHTML=show?labelHide:labelShow;
	this.title=(show?'hide':'show')+' right sidebar';
	var sm=document.getElementById('storyMenu');
	if (sm) config.refreshers.content(sm);
	return false;
">$1</a></html>
!end
%/<<tiddler {{
	var src='ToggleRightSidebar';
	src+(tiddler&&tiddler.title==src?'##info':'##show');
}} with: {{
	var co=config.options;
	var labelShow=co.txtToggleRightSideBarLabelShow||'&#x25C4;';
	var labelHide=co.txtToggleRightSideBarLabelHide||'&#x25BA;';
	'$1'!='$'+'1'?'$1':(co.chkShowRightSidebar?labelHide:labelShow);
}} {{
	var tip=(config.options.chkShowRightSidebar?'hide':'show')+' right sidebar';
	'$2'!='$'+'2'?'$2':tip;
}}>>

config.options.chkShowRightSidebar=false;
config.options.txtToggleRightSideBarLabelShow="◄";
config.options.txtToggleRightSideBarLabelHide="►";

config.options.chkSinglePageMode= true;

if(config.options.txtUserName != "hugh") {
        config.options.chkShowRightSidebar=false;
        config.options.chkSinglePageMode= true;
	readOnly = true;
	showBackstage = false;
}