Pubmed2connotea updated for Pubmed Beta.

I've updated the greasemonkey script 'pubmed2connotea'. The script alters the content of NCBI pubmed by inserting somes hyperlinks to connotea and it now works for the new pubmed beta.
I also added a hyperlink to http://del.icio.us.

see:

pubmed2connotea

Updated 2010-08-12 source code

// pubmed2connotea
// version 0.4 BETA!
// 2007-04-26
// Copyright (c) 2006, 2007, Pierre Lindenbaum PhD
// Released under the GPL license
// http://www.gnu.org/copyleft/gpl.html
// http://www.integragen.com
// --------------------------------------------------------------------
//
// This is a Greasemonkey user script. To install it, you need
// Greasemonkey 0.6.4 or later: http://greasemonkey.mozdev.org/
// and Firefox 1.5 : http://www.mozilla.com/
// Then restart Firefox and revisit this script.
// Under Tools, there will be a new menu item to "Install User Script".
// Accept the default configuration and install.
//
// To uninstall, go to Tools/Manage User Scripts,
// select "pubmed2connotea", and click Uninstall.
//
// 2006-07: changed for abstract-plus
// 2007-04: pubmed beta
//
// --------------------------------------------------------------------

// ==UserScript==
// @name pubmed2connotea
// @namespace http://www.integragen.com
// @description insert a shortcut link used to add an entry in http://www.connotea.org or http://www.citeulike.org/ when browsing NCBI pubmed
// @include http://www.ncbi.nlm.nih.gov/entrez/*
// @include http://www.ncbi.nlm.nih.gov/sites/*
// @include http://www.ncbi.nlm.nih.gov/pubmed/*

// ==/UserScript==



function gm_xpath(expression,contextNode)
{
return document.evaluate(expression,contextNode,null,XPathResult.ORDERED_NODE_SNAPSHOT_TYPE,null);
}

function getParameter(url,parameter)
{
if(url==null) return null;
parameter=parameter.toLowerCase();
var a= url.indexOf("?");
if(a==-1) return null;
if(url.toLowerCase().indexOf(parameter+"=")==-1) return null;
var params= url.substring(a+1).split("&");
var i=0;
for(i=0;i<params.length;i++)
{
b= params[i].indexOf("=");
if(b==-1) continue;
var key = params[i].substring(0,b).toLowerCase();
if(key!=parameter) continue;
return params[i].substring(b+1);
}
return null;
}

function hasParameter(url,key,value)
{
var s= getParameter(url,key);
return (s!=null && s.toLowerCase() == value.toLowerCase() );
}

function escapeURL(url)
{
var s="";
var i=0;

for(i=0;i< url.length;++i)
{
var c=url.charAt(i)
switch( c )
{
case ':': s+= '%3A'; break;
case '/': s+= '%2F'; break;
case '?': s+= '%3F'; break;
case '=': s+= '%3D'; break;
case '&': s+= '%26'; break;
default : s+= c; break;
}
}
return s;
}


function insertAnchors()
{

if(document.getElementsByTagName)
{
//hack found at http://erik.eae.net/archives/2005/06/10/22.21.42/#comment-5337
var inputElements = document.getElementsByTagName("input");
var i=0;
for (i=0; inputElements[i]!=null; i++)
{
inputElements[i].setAttribute("autocomplete","off");
}
}
}

var prefix="http://www.ncbi.nlm.nih.gov/pubmed/";
var allAnchors = gm_xpath("//a[@href]",document);

var i=0;
var prev=0;

for(i=0; i<allAnchors.snapshotLength; i++)
{
a = allAnchors.snapshotItem(i);
if(a.parentNode==null) continue;
var href=a.href;

var index=href.indexOf(prefix);


var list_uids="null";
if(index==-1){
var templocation=href.indexOf("IdsFromResult");
if(templocation!=-1){
list_uids=getParameter(href,"IdsFromResult");
index=0;
}
}

if(index==-1) continue;

if(href.indexOf("id=Limits")!=-1||
href.indexOf("id=Preview/Index")!=-1||
href.indexOf("id=History")!=-1||
href.indexOf("id=Clipboard")!=-1||
href.indexOf("id=Details")!=-1||
href.indexOf("filter=review&")!=-1
) continue;

if(list_uids=="null"){

qlocation=href.indexOf("?");
if(qlocation!=-1){
list_uids=href.substring(35,qlocation);//pmid starts at 35
}
}

if(list_uids!=prev){

href= "http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids="+list_uids;
//href= "http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&list_uids="+list_uids;
prev=list_uids;

var newanchor = document.createElement("a");
newanchor.setAttribute("title","insert into www.connotea.org");
newanchor.setAttribute("target","connotea"+i+list_uids);
//addpopup?continue=confirm
//newanchor.setAttribute("href","http://www.connotea.org/addpopup?continue=confirm&uri="+escapeURL(href)+"&button=Look%20Up");
newanchor.setAttribute("href","http://www.connotea.org/addpopup?continue=confirm&uri="+escapeURL(href));

var img = document.createElement("img");
img.setAttribute("alt","insert into www.connotea.org");
img.setAttribute("src","http://www.connotea.org/connotea_icon.png");
img.setAttribute("border","0");

newanchor.appendChild(img);
//GM_log(a.href);
a.parentNode.insertBefore(newanchor,a);
a.parentNode.insertBefore(document.createTextNode(" "),a);

//now create link for citeulike

newanchor = document.createElement("a");
newanchor.setAttribute("title","insert into www.citeulike.org");
newanchor.setAttribute("target","citeulike"+i);
newanchor.setAttribute("href","http://www.citeulike.org/posturl?url="+escapeURL(href)+"&title=Entrez%20PubMed");

img = document.createElement("img");
img.setAttribute("alt","insert into www.citeulike.org");
img.setAttribute("src","http://static.citeulike.org/img/note.gif");
img.setAttribute("border","0");

newanchor.appendChild(img);
a.parentNode.insertBefore(newanchor,a);
a.parentNode.insertBefore(document.createTextNode(" "),a);


//now create link for del.icio.us

newanchor = document.createElement("a");
newanchor.setAttribute("title","insert into del.icio.us");
newanchor.setAttribute("target","delicious"+i);
newanchor.setAttribute("href","http://del.icio.us/post?url="+escapeURL(href));

img = document.createElement("img");
img.setAttribute("alt","insert into del.icio.us");
img.setAttribute("src","http://del.icio.us/favicon.ico");
img.setAttribute("border","0");

newanchor.appendChild(img);
a.parentNode.insertBefore(newanchor,a);
a.parentNode.insertBefore(document.createTextNode(" "),a);

}
}


window.addEventListener("load", insertAnchors, false);

Playing with Connotea API (3/2 (!) )

Cool stuff can be written quickly. I simply cut and pasted some piece of javascript code I already wrote to create the following GreaseMonkey Script:

http://www.urbigene.com/gmconnoteasvg/

A GreaseMonkey Script to Display SVG TreeMaps of Tags in Connotea.
Connotea is a free online reference management service. It allows you to save links to all your favourite articles, references, websites and other online resources with one click. Connotea is also a social bookmarking tool, so you can view other people's collections to discover new, interesting content. The script I wrote is a Greasemonkey user script which alters the content of the web page, when you'browsing connotea: it inserts a treemap of the current tags using SVG. The code was inspired from [here]. As Firefox now supports the SVG format, this drawing can be displayed in your web browser. SVG is a vectorial format: Vector graphics editors allow to rotate, move, mirror, stretch, skew, generally perform affine transformations of objects, change z-order and combine the primitives into more complex objects..

A sample with the tag rotavirus

Update 2010-08-12:source code

// pubmed2connotea
// version 0.2 BETA!
// 2006-05-12
// Copyright (c) 2006, Pierre Lindenbaum PhD
// Released under the GPL license
// http://www.gnu.org/copyleft/gpl.html
// http://www.integragen.com
// http://plindenbaum.blogspot.com
// --------------------------------------------------------------------
//
// This is a Greasemonkey user script. To install it, you need
// Greasemonkey 0.6.4 or later: http://greasemonkey.mozdev.org/
// and Firefox 1.5 : http://www.mozilla.com/
// Then restart Firefox and revisit this script.
// Under Tools, there will be a new menu item to "Install User Script".
// Accept the default configuration and install.
//
// To uninstall, go to Tools/Manage User Scripts,
// select "connoteatreemap", and click Uninstall.
//
// --------------------------------------------------------------------

// ==UserScript==
// @name connoteatreemap
// @namespace http://www.integragen.com
// @description showtreemap of tags in SVG when browsing connotea
// @include http://www.connotea.org/recent
// @include http://www.connotea.org/recent?*
// @include http://www.connotea.org/user/*
// @include http://www.connotea.org/tag/*
// @include http://www.connotea.org/date/*
// @include http://www.connotea.org/uri/*
// ==/UserScript==

var Namespaces= new Object();
Namespaces.RDF="http://www.w3.org/1999/02/22-rdf-syntax-ns#";
Namespaces.RDFS ="http://www.w3.org/2000/01/rdf-schema#";
Namespaces.DC="http://purl.org/dc/elements/1.1/";
Namespaces.DCTERMS="http://purl.org/dc/terms/";
Namespaces.PRISM="http://prismstandard.org/namespaces/1.2/basic/";
Namespaces.FOAF="http://xmlns.com/foaf/0.1/";
Namespaces.CONNOTEA="http://www.connotea.org/2005/01/schema#";
Namespaces.XHTML="http://www.w3.org/1999/xhtml";
Namespaces.SVG="http://www.w3.org/2000/svg";
Namespaces.XLINK="http://www.w3.org/1999/xlink";


/**
*
* Color
* eq of java.awt.Color
*
*/
function Color(r,g,b)
{
this.r=r;
this.g=g;
this.b=b;

/* return "rgb(r,b,b)" */
Color.prototype.toSVG=function()
{
return "rgb("+this.r+","+
this.g+","+
this.b+")";
}
}

/**
*
* A Dimension
*
*/
function Dimension(w,h)
{
this.width=w;
this.height=h;

Dimension.prototype.setSize=function(width, height)
{
this.width=width;
this.height=height;
}

Dimension.prototype.setWidth=function(width)
{
this.width=width;
}

Dimension.prototype.setHeight=function(height)
{
this.height=height;
}

Dimension.prototype.getWidth=function()
{
return this.width;
}

Dimension.prototype.getHeight=function()
{
return this.height;
}
}
/**
*
* A Rectangle
*
*/

Rectangle.prototype= new Dimension(0,0);

function Rectangle(x,y,w,h)
{
//
this.x=x;
this.y=y;
this.setSize(w,h);


Rectangle.prototype.setLocation=function(x, y)
{
this.x=x;
this.y=y;
}

Rectangle.prototype.setX=function(x)
{
this.x=x;
}

Rectangle.prototype.setY=function(y)
{
this.y=y;
}



Rectangle.prototype.getX=function()
{
return this.x;
}

Rectangle.prototype.getY=function()
{
return this.y;
}


Rectangle.prototype.setRectangle=function(rect)
{
this.setBounds(
rect.getX(),
rect.getY(),
rect.getWidth(),
rect.getHeight()
);
}

Rectangle.prototype.setBounds=function(x,y,width, height)
{
this.setSize(width, height);
this.setLocation(x,y);
}



Rectangle.prototype.getCenterX=function()
{
return this.getX()+this.getWidth()/2.0;
}

Rectangle.prototype.getCenterY=function()
{
return this.getY()+this.getHeight()/2.0;
}

Rectangle.prototype.toString=function()
{
return "Rectangle("+
this.getX()+","+
this.getY()+","+
this.getWidth()+","+
this.getHeight()+
")";
}
}



/**
*
* A TreeMapItem is a "square" in the TreeMap
* it is initialized with a positive number used as
* the weight of this square
*
*/

TreeMapItem.prototype= new Rectangle(0.0,0.0,0.0,0.0);

function TreeMapItem(weight)
{
//
this.weight=weight;
this.url=null;/* url for hyperlink xml escaped */
this.label=weight;/* label for this item default is weight */
this.fill=null;/* a Color for filling */
this.stroke=new Color(255,255,255);/* a color for stroking */
this.id=null;/* optional id for xml dom */
this.title=null;
//
TreeMapItem.prototype.setFill=function(color)
{
this.fill=color;
}

TreeMapItem.prototype.setID=function(id)
{
this.id=id;
}



TreeMapItem.prototype.getRGBFill=function()
{
if(this.fill==null) return "none";
return this.fill.toSVG();
}

TreeMapItem.prototype.getRGBStroke=function()
{
if(this.stroke==null) return "none";
return this.stroke.toSVG();
}

TreeMapItem.prototype.getWeight=function()
{
return this.weight;
}

TreeMapItem.prototype.setURL=function(url)
{
this.url=url;
}

TreeMapItem.prototype.setTitle=function(title)
{
this.title=title;
}



TreeMapItem.prototype.setLabel=function(label)
{
this.label=label;
}

/* print this item as SVG using stream out and using parameters from its owner treemap */
TreeMapItem.prototype.toSVG=function(treemap,doc)
{
var fontsize= treemap.getFontSize();



var g= doc.createElementNS(Namespaces.SVG,"svg:g");
if(this.id!=null) g.setAttribute("id",this.id);

var node=g;

if(this.url!=null)
{
node= doc.createElementNS(Namespaces.SVG,"svg:a");
var t= this.title;
if(t==null) t=this.url;
g.appendChild(node);
node.setAttributeNS(Namespaces.XLINK,"xlink:title",t);
node.setAttributeNS(Namespaces.XLINK,"xlink:href",this.url);
}

var rect= doc.createElementNS(Namespaces.SVG,"svg:rect");
node.appendChild(rect);
rect.setAttribute("x",this.getX());
rect.setAttribute("y",this.getY());
rect.setAttribute("width",this.getWidth());
rect.setAttribute("height",this.getHeight());
rect.setAttribute("fill",this.getRGBFill());
rect.setAttribute("stroke",this.getRGBStroke());
rect.setAttribute("stroke","black");


if(this.label!=null)
{
while(!( this.getHeight()> fontsize && this.getWidth() > this.label.length*fontsize))
{
--fontsize;
if(fontsize<=4) break;
}
var text= doc.createElementNS(Namespaces.SVG,"svg:text");
text.setAttribute("x",this.getCenterX());
text.setAttribute("y",this.getCenterY());
text.setAttribute("stroke",this.getRGBStroke());
text.setAttribute("font-size",fontsize);
text.appendChild(doc.createTextNode(this.label));
node.appendChild(text);
}
return g;
}

TreeMapItem.prototype.setStroke= function(color)
{
this.stroke=color;
}

}



/* used to sort treeMap Item */
function treemap_item_compare(a,b)
{
if(a.getWeight()== b.getWeight())
{
return 0;
}
else if(a.getWeight()< b.getWeight())
{
return 1;
}
return -1;
}


/**
* The Treemap : a container of TreeMapItem(s)
* contains the treemap algorithm
* original java code from http://www.cs.umd.edu/hcil/treemap-history/Treemaps-Java-Algorithms.zip
* by
* - Martin Wattenberg, w(at)bewitched.com
* - Ben Bederson, bederson(at)cs.umd.edu
* University of Maryland, Human-Computer Interaction Lab
* http://www.cs.umd.edu/hcil
*
*/
TreeMap.prototype= new Dimension(0.0,0.0);
function TreeMap(w,h)
{
this.treemapitems=new Array();
this.fontsize=24;
this.setSize(w,h);


/* add a new TreeMapItem */
TreeMap.prototype.addItem=function(item)
{
if(item.getWeight()<=0) return;
this.treemapitems[this.treemapitems.length]=item;
}

TreeMap.prototype.getFontSize=function()
{
return this.fontsize;
}

TreeMap.prototype.setFontSize=function(fontsize)
{
this.fontsize=fontsize;
}

/* creates the treemap as SVG using doc */
TreeMap.prototype.toSVG=function(doc)
{

var svg = doc.createElementNS(Namespaces.SVG,"svg:svg");
svg.setAttribute("xmlns:svg",Namespaces.SVG);
svg.setAttribute("xmlns:xlink",Namespaces.XLINK);
svg.setAttribute("width",this.getWidth());
svg.setAttribute("height",this.getHeight());
svg.setAttribute("text-anchor","middle");
svg.setAttribute("font-family","monospace");
svg.setAttribute("font-size",this.getFontSize());

var tt= doc.createElementNS(Namespaces.SVG,"svg:title");
svg.appendChild(tt);
tt.appendChild(doc.createTextNode("ConnoteaTreeMap.svg"));

var desc= doc.createElementNS(Namespaces.SVG,"svg:desc");
svg.appendChild(desc);
desc.appendChild(doc.createTextNode("generated by Pierre Lindenbaum PhD 2006 Integragen plindenbaum (at) yahoo (dot) fr http://www.connotea.org/wiki/User:lindenb . Original java code from Martin Wattenberg, w(at)bewitched.com and Ben Bederson, bederson(at)cs.umd.edu University of Maryland, Human-Computer Interaction Lab http://www.cs.umd.edu/hcil"));


var rect= doc.createElementNS(Namespaces.SVG,"svg:rect");
svg.appendChild(rect);
rect.setAttribute("x","0");
rect.setAttribute("y","0");
rect.setAttribute("width",this.getWidth());
rect.setAttribute("height",this.getHeight());
rect.setAttribute("stroke","blue");
rect.setAttribute("fill","none");

if(this.treemapitems.length>0)
{
this.layout(this.treemapitems,new Rectangle(0,0,this.getWidth(),this.getHeight()));
}

for(i=0;i< this.treemapitems.length;i++ )
{
svg.appendChild(this.treemapitems[i].toSVG(this,doc));
}

return svg;
}

/* private */
TreeMap.prototype.layout=function(items, rect)
{
items.sort(treemap_item_compare);
this.layout2(items,0,items.length,rect);
}

/* private */
TreeMap.prototype.getWeight=function(items, start,end)
{
var sum=0.0;
while(start<end)
{
sum +=items[start].getWeight();
start++;
}
return sum;
}

/* private */
TreeMap.prototype.sliceLayout=function(comps,start,end,bounds)
{
var end=(comps.length<end?comps.length:end);
var total = this.getWeight(comps,start,end);
var a=0.0;
var vertical=(bounds.getWidth()<bounds.getHeight() );
var pos= (vertical==true?bounds.getY():bounds.getX());
var i;
for (i=start;i<end; i++)
{
var r=new Rectangle(0,0,0,0);
var b= comps[i].getWeight()/total;
if (vertical==true)
{
r.setX(bounds.getX());
r.setWidth(bounds.getWidth());
r.setY(pos);
var len = bounds.getHeight()*b;
r.setHeight(len);
pos+=len;
}
else
{
r.setX(pos);
var len = bounds.getWidth()*b;
r.setWidth(len);
r.setY(bounds.getY());
r.setHeight(bounds.getHeight());
pos+=len;
}
comps[i].setRectangle(r);
a+=b;
}
}

/* private */
TreeMap.prototype.layout2=function(comps,start,end,bounds)
{
if (start>=end) return;

if (end-start<2)
{
this.sliceLayout(comps,start,end,bounds);
return;
}

var x=bounds.getX();
var y=bounds.getY();
var w=bounds.getWidth();
var h=bounds.getHeight();

var total=this.getWeight(comps,start, end);
var mid=start;
var a= comps[start].getWeight()/total;
var b=a;

if (w<h)
{
// height/width
while (mid<end)
{
var aspect=this.normAspect(h,w,a,b);
var q= comps[mid].getWeight()/total;
if (this.normAspect(h,w,a,b+q)>aspect) break;
mid++;
b+=q;
}
this.sliceLayout(comps,start,mid+1,new Rectangle(x,y,w,(h*b)));
this.layout2(comps,mid+1,end,new Rectangle(x,(y+h*b),w,(h*(1-b))));
}
else
{
// width/height
while (mid<end)
{
var aspect=this.normAspect(w,h,a,b);
var q= comps[mid].getWeight()/total;
if (this.normAspect(w,h,a,b+q)>aspect) break;
mid++;
b+=q;
}
this.sliceLayout(comps,start,mid+1,new Rectangle(x,y,(w*b),h));
this.layout2(comps,mid+1,end,new Rectangle((x+w*b),y,(w*(1-b)),h));
}

}
/* private */
TreeMap.prototype.aspect=function(big,small,a,b)
{
return (big*b)/(small*a/b);
}
/* private */
TreeMap.prototype.normAspect=function(big, small,a,b)
{
x=this.aspect(big,small,a,b);
if (x<1) return 1.0/x;
return x;
}


}




function gm_xpath(expression,contextNode)
{
return document.evaluate(expression,contextNode,null,XPathResult.UNORDERED_NODE_SNAPSHOT_TYPE,null);
}

function getParameter(url,parameter)
{
if(url==null) return null;
var a= url.indexOf("?");
if(a==-1) return null;
if(url.indexOf(parameter+"=")==-1) return null;
var params= url.substring(a+1).split("&");
var i=0;
for(i=0;i<params.length;i++)
{
b= params[i].indexOf("=");
if(b==-1) continue;
var key = params[i].substring(0,b);
if(key!=parameter) continue;
return params[i].substring(b+1);
}
return null;
}

function escapeURL(url)
{
var s="";
var i=0;

for(i=0;i< url.length;++i)
{
var c=url.charAt(i)
switch( c )
{
case ':': s+= '%3A'; break;
case '/': s+= '%2F'; break;
case '?': s+= '%3F'; break;
case '=': s+= '%3D'; break;
case '&': s+= '%26'; break;
default : s+= c; break;
}
}
return s;
}

function Agent(name)
{
this.name=name;
this.count=1;
}


function insertToggle()
{

if(document.getElementsByTagName)
{
//hack found at http://erik.eae.net/archives/2005/06/10/22.21.42/#comment-5337
var inputElements = document.getElementsByTagName("input");
var i=0;
for (i=0; inputElements[i]!=null; i++)
{
inputElements[i].setAttribute("autocomplete","off");
}
}

var wrapper = document.getElementById("outer-wrapper");
if(wrapper==null)
{
GM_log('cannot find connotea div id="outer-wrapper"');
return;
}

var div1 = document.createElement("div");
div1.setAttribute("id","treemap-div");
div1.setAttribute("align","center");
div1.setAttribute("style","border:5px; margin: 5px; border: 1px solid #f00; font-family: Verdana, Arial, Helvetica, sans-serif; font-size:12pt;");
wrapper.parentNode.insertBefore(div1,wrapper);


var newanchor = document.createElement("a");
newanchor.setAttribute("title","show/hide treemap");
newanchor.setAttribute("href","javascript:void%200");
newanchor.appendChild( document.createTextNode("Treemap on/off"));
div1.appendChild(newanchor);

var div2 = document.createElement("div");
div2.setAttribute("id","treemap");
div2.setAttribute("align","center");
div1.appendChild(div2);


newanchor.addEventListener('click', function(event)
{

var treemapdiv = document.getElementById("treemap");
if(treemapdiv==null)
{
GM_log('cannot find connotea div id="treemap"');
return;
}
if(treemapdiv.hasChildNodes())
{
while(treemapdiv.hasChildNodes())
{
treemapdiv.removeChild(treemapdiv.firstChild);
}
}
else
{
var slashtagslash="/tag/";
var prefix="http://www.connotea.org"+slashtagslash;
var locationhref = window.location.href;
var ignoretag=null;
var num=getParameter(locationhref,"num");


var i=0;
var j=0;

i= locationhref.indexOf(slashtagslash);
if(i!=-1)
{
ignoretag = locationhref.substring(i+slashtagslash.length);
i= ignoretag.indexOf("?");
if(i!=-1) ignoretag= ignoretag.substring(0,i);
i= ignoretag.indexOf("/");
if(i!=-1) ignoretag= ignoretag.substring(0,i);
}


var main = document.getElementById("main");
var tags= new Array();

var wheight=window.outerHeight;
if(window.outerWidth< wheight) wheight=window.outerWidth;
wheight=wheight*0.6;
if(wheight<50) wheight=50;
var tm= new TreeMap(wheight,wheight);


if(main==null)
{
GM_log('cannot find connotea div id="main"');
return;
}
var divs= gm_xpath(".//div[@id]",main);
for(j=0; j<divs.snapshotLength; j++)
{
var d = divs.snapshotItem(j);
if(d.parentNode==null) continue;
var divid=d.id;
if(divid.indexOf("user_bookmark_")!=0) continue;

var allAnchors = gm_xpath(".//a[@href]",d);
for(i=0; i<allAnchors.snapshotLength; i++)
{
a = allAnchors.snapshotItem(i);
if(a.parentNode==null) continue;
var href=a.href;
if(href.indexOf(prefix)!=0) continue;
var tag=href.substring(prefix.length);
if( tag.length==0 ||
tag=="uploaded" ||
tag.indexOf("geo:")==0 ||
tag==ignoretag
) continue;


var k=0;
for(k=0;k< tags.length;++k)
{
if(tags[k].name==tag)
{
tags[k].count++;
break;
}
}
if(k==tags.length)
{
var newtag= new Agent(tag);
newtag.count=1;
tags.push(newtag);
}
}
}
for(i=0;i< tags.length;++i)
{
/** create a new item with weight=14 */
var item= new TreeMapItem(tags[i].count);
/* set stroke color */
item.setStroke(new Color(255,0,0));
/* set background color */
var gray= 220+ Math.floor(Math.random()*30.0);
item.setFill(new Color(gray,gray,gray));
/* set Label */
item.setLabel(tags[i].name);
//GM_log(tags[i].name+" "+tags[i].count);
/* set URL anchor */
item.setURL(prefix+tags[i].name+"?tool=gmtreemap"+(num==null?"":"&num="+num));
/* set title */
item.setTitle(tags[i].name+" ("+tags[i].count+")");
/* add the new item into the treemap */
tm.addItem(item);
}
//GM_log(tags.length);
var svg= tm.toSVG(document);
//GM_log(svg);
treemapdiv.appendChild(svg);
//GM_log("done");
}
},true);
}
window.addEventListener("load", insertToggle, false);