Edinburgh/4 July 2008

From 2008.igem.org

(Difference between revisions)
(New page: <html> <head> <title>Edinburgh iGEM 2008</title> <script type="text/javascript"> //Drop Down Tabs Menu- Author: Dynamic Drive (http://www.dynamicdrive.com) //Created: May 16th, 07' var ta...)
 
(2 intermediate revisions not shown)
Line 1: Line 1:
-
<html>
+
<div id="header">{{Template:Team:Edinburgh/Templates/notebook-entry/header}}</div>
-
<head>
+
-
<title>Edinburgh iGEM 2008</title>
+
-
<script type="text/javascript">
+
-
//Drop Down Tabs Menu- Author: Dynamic Drive (http://www.dynamicdrive.com)
+
-
//Created: May 16th, 07'
+
-
var tabdropdown={
+
:::: '''[[Edinburgh/3_July_2008|< Previous Entry]]'''
-
disappeardelay: 200, //set delay in miliseconds before menu disappears onmouseout
+
-
disablemenuclick: false, //when user clicks on a menu item with a drop down menu, disable menu item's link?
+
-
enableiframeshim: 1, //1 or 0, for true or false
+
-
//No need to edit beyond here////////////////////////
+
== Week 3 ==
-
dropmenuobj: null, ie: document.all, firefox: document.getElementById&&!document.all, previousmenuitem:null,
+
=== Friday 4 July 08 ===
-
currentpageurl: window.location.href.replace("http://"+window.location.hostname, "").replace(/^\//, ""), //get current page url (minus hostname, ie: http://www.dynamicdrive.com/)
+
-
 
+
-
getposOffset:function(what, offsettype){
+
-
var totaloffset=(offsettype=="left")? what.offsetLeft : what.offsetTop;
+
-
var parentEl=what.offsetParent;
+
-
while (parentEl!=null){
+
-
totaloffset=(offsettype=="left")? totaloffset+parentEl.offsetLeft : totaloffset+parentEl.offsetTop;
+
-
parentEl=parentEl.offsetParent;
+
-
}
+
-
return totaloffset;
+
-
},
+
-
 
+
-
showhide:function(obj, e, obj2){ //obj refers to drop down menu, obj2 refers to tab menu item mouse is currently over
+
-
if (this.ie || this.firefox)
+
-
this.dropmenuobj.style.left=this.dropmenuobj.style.top="-500px"
+
-
if (e.type=="click" && obj.visibility==hidden || e.type=="mouseover"){
+
-
if (obj2.parentNode.className.indexOf("default")==-1) //if tab isn't a default selected one
+
-
obj2.parentNode.className="selected"
+
-
obj.visibility="visible"
+
-
}
+
-
else if (e.type=="click")
+
-
obj.visibility="hidden"
+
-
},
+
-
 
+
-
iecompattest:function(){
+
-
return (document.compatMode && document.compatMode!="BackCompat")? document.documentElement : document.body
+
-
},
+
-
 
+
-
clearbrowseredge:function(obj, whichedge){
+
-
var edgeoffset=0
+
-
if (whichedge=="rightedge"){
+
-
var windowedge=this.ie && !window.opera? this.standardbody.scrollLeft+this.standardbody.clientWidth-15 : window.pageXOffset+window.innerWidth-15
+
-
this.dropmenuobj.contentmeasure=this.dropmenuobj.offsetWidth
+
-
if (windowedge-this.dropmenuobj.x < this.dropmenuobj.contentmeasure)  //move menu to the left?
+
-
edgeoffset=this.dropmenuobj.contentmeasure-obj.offsetWidth
+
-
}
+
-
else{
+
-
var topedge=this.ie && !window.opera? this.standardbody.scrollTop : window.pageYOffset
+
-
var windowedge=this.ie && !window.opera? this.standardbody.scrollTop+this.standardbody.clientHeight-15 : window.pageYOffset+window.innerHeight-18
+
-
this.dropmenuobj.contentmeasure=this.dropmenuobj.offsetHeight
+
-
if (windowedge-this.dropmenuobj.y < this.dropmenuobj.contentmeasure){ //move up?
+
-
edgeoffset=this.dropmenuobj.contentmeasure+obj.offsetHeight
+
-
if ((this.dropmenuobj.y-topedge)<this.dropmenuobj.contentmeasure) //up no good either?
+
-
edgeoffset=this.dropmenuobj.y+obj.offsetHeight-topedge
+
-
}
+
-
this.dropmenuobj.firstlink.style.borderTopWidth=(edgeoffset==0)? 0 : "1px" //Add 1px top border to menu if dropping up
+
-
}
+
-
return edgeoffset
+
-
},
+
-
 
+
-
dropit:function(obj, e, dropmenuID){
+
-
if (this.dropmenuobj!=null){ //hide previous menu
+
-
this.dropmenuobj.style.visibility="hidden" //hide menu
+
-
if (this.previousmenuitem!=null && this.previousmenuitem!=obj){
+
-
if (this.previousmenuitem.parentNode.className.indexOf("default")==-1) //If the tab isn't a default selected one
+
-
this.previousmenuitem.parentNode.className=""
+
-
}
+
-
}
+
-
this.clearhidemenu()
+
-
if (this.ie||this.firefox){
+
-
obj.onmouseout=function(){tabdropdown.delayhidemenu(obj)}
+
-
obj.onclick=function(){return !tabdropdown.disablemenuclick} //disable main menu item link onclick?
+
-
this.dropmenuobj=document.getElementById(dropmenuID)
+
-
this.dropmenuobj.onmouseover=function(){tabdropdown.clearhidemenu()}
+
-
this.dropmenuobj.onmouseout=function(e){tabdropdown.dynamichide(e, obj)}
+
-
this.dropmenuobj.onclick=function(){tabdropdown.delayhidemenu(obj)}
+
-
this.showhide(this.dropmenuobj.style, e, obj)
+
-
this.dropmenuobj.x=this.getposOffset(obj, "left")
+
-
this.dropmenuobj.y=this.getposOffset(obj, "top")
+
-
this.dropmenuobj.style.left=this.dropmenuobj.x-this.clearbrowseredge(obj, "rightedge")+"px"
+
-
this.dropmenuobj.style.top=this.dropmenuobj.y-this.clearbrowseredge(obj, "bottomedge")+obj.offsetHeight+1+"px"
+
-
this.previousmenuitem=obj //remember main menu item mouse moved out from (and into current menu item)
+
-
this.positionshim() //call iframe shim function
+
-
}
+
-
},
+
-
 
+
-
contains_firefox:function(a, b) {
+
-
while (b.parentNode)
+
-
if ((b = b.parentNode) == a)
+
-
return true;
+
-
return false;
+
-
},
+
-
 
+
-
dynamichide:function(e, obj2){ //obj2 refers to tab menu item mouse is currently over
+
-
var evtobj=window.event? window.event : e
+
-
if (this.ie&&!this.dropmenuobj.contains(evtobj.toElement))
+
-
this.delayhidemenu(obj2)
+
-
else if (this.firefox&&e.currentTarget!= evtobj.relatedTarget&& !this.contains_firefox(evtobj.currentTarget, evtobj.relatedTarget))
+
-
this.delayhidemenu(obj2)
+
-
},
+
-
 
+
-
delayhidemenu:function(obj2){
+
-
this.delayhide=setTimeout(function(){tabdropdown.dropmenuobj.style.visibility='hidden'; if (obj2.parentNode.className.indexOf('default')==-1) obj2.parentNode.className=''},this.disappeardelay) //hide menu
+
-
},
+
-
 
+
-
clearhidemenu:function(){
+
-
if (this.delayhide!="undefined")
+
-
clearTimeout(this.delayhide)
+
-
},
+
-
 
+
-
positionshim:function(){ //display iframe shim function
+
-
if (this.enableiframeshim && typeof this.shimobject!="undefined"){
+
-
if (this.dropmenuobj.style.visibility=="visible"){
+
-
this.shimobject.style.width=this.dropmenuobj.offsetWidth+"px"
+
-
this.shimobject.style.height=this.dropmenuobj.offsetHeight+"px"
+
-
this.shimobject.style.left=this.dropmenuobj.style.left
+
-
this.shimobject.style.top=this.dropmenuobj.style.top
+
-
}
+
-
this.shimobject.style.display=(this.dropmenuobj.style.visibility=="visible")? "block" : "none"
+
-
}
+
-
},
+
-
 
+
-
hideshim:function(){
+
-
if (this.enableiframeshim && typeof this.shimobject!="undefined")
+
-
this.shimobject.style.display='none'
+
-
},
+
-
 
+
-
isSelected:function(menuurl){
+
-
var menuurl=menuurl.replace("http://"+menuurl.hostname, "").replace(/^\//, "")
+
-
return (tabdropdown.currentpageurl==menuurl)
+
-
},
+
-
 
+
-
init:function(menuid, dselected){
+
-
this.standardbody=(document.compatMode=="CSS1Compat")? document.documentElement : document.body //create reference to common "body" across doctypes
+
-
var menuitems=document.getElementById(menuid).getElementsByTagName("a")
+
-
for (var i=0; i<menuitems.length; i++){
+
-
if (menuitems[i].getAttribute("rel")){
+
-
var relvalue=menuitems[i].getAttribute("rel")
+
-
document.getElementById(relvalue).firstlink=document.getElementById(relvalue).getElementsByTagName("a")[0]
+
-
menuitems[i].onmouseover=function(e){
+
-
var event=typeof e!="undefined"? e : window.event
+
-
tabdropdown.dropit(this, event, this.getAttribute("rel"))
+
-
}
+
-
}
+
-
if (dselected=="auto" && typeof setalready=="undefined" && this.isSelected(menuitems[i].href)){
+
-
menuitems[i].parentNode.className+=" selected default"
+
-
var setalready=true
+
-
}
+
-
else if (parseInt(dselected)==i)
+
-
menuitems[i].parentNode.className+=" selected default"
+
-
}
+
-
}
+
-
 
+
-
}
+
-
</script>
+
-
<style>
+
-
.ddcolortabs{
+
-
padding: 0;
+
-
width: 100%;
+
-
background: transparent;
+
-
voice-family: "\"}\"";
+
-
voice-family: inherit;
+
-
}
+
-
 
+
-
.ddcolortabs ul{
+
-
font: normal 11px Arial, Verdana, sans-serif;
+
-
margin:0;
+
-
padding:0;
+
-
list-style:none;
+
-
}
+
-
 
+
-
.ddcolortabs li{
+
-
display:inline;
+
-
margin:0 2px 0 0;
+
-
padding:0;
+
-
text-transform:uppercase;
+
-
}
+
-
 
+
-
 
+
-
.ddcolortabs a{
+
-
float:left;
+
-
color: white;
+
-
background: black url(media/color_tabs_left.gif) no-repeat left top;
+
-
margin:0 2px 0 0;
+
-
padding:0 0 1px 3px;
+
-
text-decoration:none;
+
-
letter-spacing: 1px;
+
-
}
+
-
 
+
-
.ddcolortabs a span{
+
-
float:left;
+
-
display:block;
+
-
background: transparent url(media/color_tabs_right.gif) no-repeat right top;
+
-
padding: 4px 8px 2px 7px;
+
-
}
+
-
 
+
-
.ddcolortabs a span{
+
-
float:none;
+
-
}
+
-
 
+
-
.ddcolortabs a:hover{
+
-
background-color: #591f20;
+
-
}
+
-
 
+
-
.ddcolortabs a:hover span{
+
-
background-color: #591f20;
+
-
}
+
-
 
+
-
.ddcolortabs .selected a, #ddcolortabs .selected a span{ /*currently selected tab*/
+
-
background-color: #591f20;
+
-
}
+
-
 
+
-
.ddcolortabsline{
+
-
clear: both;
+
-
padding: 0;
+
-
width: 100%;
+
-
height: 8px;
+
-
line-height: 8px;
+
-
background: black;
+
-
border-top: 1px solid #fff; /*Remove this to remove border between bar and tabs*/
+
-
}
+
-
 
+
-
/* ######### Style for Drop Down Menu ######### */
+
-
 
+
-
.dropmenudiv_a{
+
-
position:absolute;
+
-
top: 0;
+
-
border: 1px solid black; /*THEME CHANGE HERE*/
+
-
border-top-width: 8px; /*Top border width. Should match height of .ddcolortabsline above*/
+
-
border-bottom-width: 0;
+
-
font:normal 12px Arial;
+
-
line-height:18px;
+
-
z-index:100;
+
-
background-color: white;
+
-
width: 200px;
+
-
visibility: hidden;
+
-
}
+
-
 
+
-
 
+
-
.dropmenudiv_a a{
+
-
width: auto;
+
-
display: block;
+
-
text-indent: 5px;
+
-
border-top: 0 solid #678b3f;
+
-
border-bottom: 1px solid #678b3f; /*THEME CHANGE HERE*/
+
-
padding: 2px 0;
+
-
text-decoration: none;
+
-
color: black;
+
-
}
+
-
 
+
-
* html .dropmenudiv_a a{ /*IE only hack*/
+
-
width: 100%;
+
-
}
+
-
 
+
-
.dropmenudiv_a a:hover{ /*THEME CHANGE HERE*/
+
-
background-color: #8a3c3d;
+
-
color: white;
+
-
}
+
-
</style>
+
-
</head>
+
-
 
+
-
<!-- CSS for Drop Down Tabs Menu #1 -->
+
-
<link rel="stylesheet" type="text/css" href="ddcolortabs.css" />
+
-
 
+
-
<div id="colortab" class="ddcolortabs">
+
-
<ul>
+
-
<li><a href="https://2008.igem.org/Team:Edinburgh" title="Home"><span>Home</span></a></li>
+
-
<li><a href="https://2008.igem.org/Team:Edinburgh/Project" title="Project" rel="dropmenu1_a"><span>The Project</span></a></li>
+
-
<li><a href="https://2008.igem.org/Team:Edinburgh/Team" title="Team" ><span>The Team</span></a></li>
+
-
<li><a href="http://partsregistry.org/cgi/partsdb/pgroup.cgi?pgroup=iGEM2008&group=Edinburgh" title="Project" rel="dropmenu1_a"><span>BioBrick Parts</span></a></li>
+
-
<li><a href="https://2008.igem.org/Team:Edinburgh/Modeling" title="Modelling" rel="dropmenu2_a"><span>Modelling</span></a></li>
+
-
<li><a href="https://2008.igem.org/Team:Edinburgh/Notebook" title="Notebook"><span>Notebook</span></a></li>
+
-
</ul>
+
-
</div>
+
-
<div class="ddcolortabsline">&nbsp;</div>
+
-
<div id="dropmenu1_a" class="dropmenudiv_a">
+
-
<a href="https://2008.igem.org/Team:Edinburgh/Team">Overview</a>
+
-
<a href="https://2008.igem.org/Team:Edinburgh/Team">Step1</a>
+
-
<a href="https://2008.igem.org/Team:Edinburgh/Team">Step2</a>
+
-
</div>
+
-
<script type="text/javascript">
+
-
//SYNTAX: tabdropdown.init("menu_id", [integer OR "auto"])
+
-
tabdropdown.init("colortab", 3)
+
-
</script>
+
-
</html>
+
-
 
+
-
=== Week 3 ===
+
-
==== Friday 4 July 08 ====
+
* Repeat ''appY'' transformation has failed: no colonies on plates 15 and 16. It seems unlikely that there is a major problem with the competent cells since other transformations have worked. Other than this, the only way to get no colonies (not even recircularized vector) is if something went seriously wrong in the original digest.
* Repeat ''appY'' transformation has failed: no colonies on plates 15 and 16. It seems unlikely that there is a major problem with the competent cells since other transformations have worked. Other than this, the only way to get no colonies (not even recircularized vector) is if something went seriously wrong in the original digest.
* Mutagenic primers for ''glgC'' arrived. Prepared 500μM stock solutions and 10μM working solutions. Tried PCR with both primer pairs using M11 (0.5μl) as template, just to check that the primers are OK. Annealing was at 57°C (lowest melting temperature of a primer) and extension for 110s using KOD (PCR reactions '''P6 and P7'''). Products (5μl) were run on '''Gel 8'''. P6 (M1) shows a single rather faint band at 4.2kb; P7 (M2) shows multiple bands, with the 4.2kb band strongest. Probably both pairs are fine for MABEL. Now we just need to wait for the sequencing results on Monday.
* Mutagenic primers for ''glgC'' arrived. Prepared 500μM stock solutions and 10μM working solutions. Tried PCR with both primer pairs using M11 (0.5μl) as template, just to check that the primers are OK. Annealing was at 57°C (lowest melting temperature of a primer) and extension for 110s using KOD (PCR reactions '''P6 and P7'''). Products (5μl) were run on '''Gel 8'''. P6 (M1) shows a single rather faint band at 4.2kb; P7 (M2) shows multiple bands, with the 4.2kb band strongest. Probably both pairs are fine for MABEL. Now we just need to wait for the sequencing results on Monday.
-
* Also ran the other 5μl left from the religated L2 on gel 8. No DNA was visible. Did another digest (30μl total volume with 2μl each P2 and Edinbrick1, using Buffer E with EcoRI and SpeI, digesting at 37°C for about 5 hours, mainly because I forgot about it). Purified and ligated: Ligation '''L5'''.
+
* Also ran the other 5μl left from the religated L2 on gel 8. No DNA was visible. Did another digest (30μl total volume with 2μl each P2 and Edinbrick1, using Buffer E with EcoRI and SpeI, digesting at 37°C for about 5 hours, mainly because I forgot about it). Purified and ligated: Ligation '''L5'''.<br />
 +
<br />
 +
 
 +
:::: '''[[Edinburgh/5_July_2008|Next Entry >]]'''

Latest revision as of 14:05, 28 August 2008

< Previous Entry

Week 3

Friday 4 July 08

  • Repeat appY transformation has failed: no colonies on plates 15 and 16. It seems unlikely that there is a major problem with the competent cells since other transformations have worked. Other than this, the only way to get no colonies (not even recircularized vector) is if something went seriously wrong in the original digest.
  • Mutagenic primers for glgC arrived. Prepared 500μM stock solutions and 10μM working solutions. Tried PCR with both primer pairs using M11 (0.5μl) as template, just to check that the primers are OK. Annealing was at 57°C (lowest melting temperature of a primer) and extension for 110s using KOD (PCR reactions P6 and P7). Products (5μl) were run on Gel 8. P6 (M1) shows a single rather faint band at 4.2kb; P7 (M2) shows multiple bands, with the 4.2kb band strongest. Probably both pairs are fine for MABEL. Now we just need to wait for the sequencing results on Monday.
  • Also ran the other 5μl left from the religated L2 on gel 8. No DNA was visible. Did another digest (30μl total volume with 2μl each P2 and Edinbrick1, using Buffer E with EcoRI and SpeI, digesting at 37°C for about 5 hours, mainly because I forgot about it). Purified and ligated: Ligation L5.


Next Entry >
Retrieved from "http://2008.igem.org/Edinburgh/4_July_2008"