Difference between revisions of "Team:Fudan-TSI/Notebook"

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/* DEFAULT WIKI SETTINGS */
 
/* DEFAULT WIKI SETTINGS */
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/**************************************************************************************************************************************************************************************************/
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  #sideMenu, #top_title, .patrollink { display:none; }
−
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  #content { margin-left: 0; padding:0px; width:100%;}
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#content { margin-left:0px; margin-top:-7px; padding:0px; width:100%;}
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/* css clean * */
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  #FudanTSIBody li { list-style: none; }
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#bodyContent a[href ^="https://"], .link-https { padding-right:0px;}
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    </style>
−
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    <title>Notebook | 2019 iGEM Team:Fudan-TSI</title>
−
+
</head>
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+
<body>
−
 
+
<div id="FudanTSIdivWrapper"><div id="FudanTSIBody">
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/**************************************************************************************************************************************************************************************************/
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  <header>
−
/* MENU */
+
  <div id="emptyBar" style="position:relative;width: 100%;"></div><nav id="topNav" class="black z-depth-0_5"><div class="nav-wrapper"><div id="teamLogo" class="brand-logo"> <a href="/Team:Fudan-TSI" target="_self"><img alt="2019 team logo" src="https://static.igem.org/mediawiki/2019/d/d3/T--Fudan-TSI--HomepageLogo.gif"></a></div><ul id="nav-mobile" class="right">
−
/**************************************************************************************************************************************************************************************************/
+
    <li class="hide-on-med-and-down"><a class="dropdown-trigger" data-target="dropdown1">Project</a></li><li class="hide-on-med-and-down"><a class="dropdown-trigger" data-target="dropdown2">Results</a></li><li class="hide-on-med-and-down"><a class="dropdown-trigger" data-target="dropdown3">Model</a></li><li class="hide-on-med-and-down"><a class="dropdown-trigger" data-target="dropdown4">Parts</a></li><li class="hide-on-med-and-down"><a class="dropdown-trigger" data-target="dropdown5">Human&nbsp;practices</a></li><li class="hide-on-med-and-down"><a class="dropdown-trigger" data-target="dropdown6">Team</a></li>
−
 
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    <li class="hide-on-med-and-down"><a href="/Team:Fudan-TSI/Judging">Judging</a></li>
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/*wrapping for the menu*/
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    <li> <a id="navList" data-target="slide-out" class="waves-effect waves-light sidenav-trigger right"> <i class="fa fa-navicon" style="font-size: 24px"></i> </a></li></ul></div> </nav>
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.igem_2019_team_menu {  
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  <ul id="dropdown1" class="dropdown-content">
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border-left: 1px solid #635d5d;
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      <li><a href="/Team:Fudan-TSI/Description">Background</a></li>
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float:right;
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      <li><a href="/Team:Fudan-TSI/Design">Design</a></li>
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height:100vh;
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      <li><a href="/Team:Fudan-TSI/Experiments">Experiments</a></li>
−
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+
      <li><a href="/Team:Fudan-TSI/Applied_Design">Applied&nbsp;design</a></li>
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+
  </ul>
−
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+
  <ul id="dropdown2" class="dropdown-content">
−
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+
      <li><a href="/Team:Fudan-TSI/Demonstrate#ReverseTranscription">Reverse&nbsp;transcription</a></li>
−
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      <li><a href="/Team:Fudan-TSI/Demonstrate#Recombination">Recombination</a></li>
−
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−
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+
      <li><a href="/Team:Fudan-TSI/Measurement">Measurement</a></li>
−
width: 15%;  
+
      <li><a href="/Team:Fudan-TSI/Notebook">Notebook</a></li>
−
}
+
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/*controlling menu visibility*/
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  </ul>
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  <ul id="dropdown4" class="dropdown-content">
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/*links in the menu*/
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−
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−
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      <li><a href="/Team:Fudan-TSI/Part_Collection">Part&nbsp;collection</a></li>
−
}
+
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−
 
+
  <ul id="dropdown5" class="dropdown-content">
−
/*images in the menu*/
+
      <li><a href="/Team:Fudan-TSI/Public_Engagement">Public&nbsp;engagement</a></li>
−
.igem_2019_team_menu img {
+
      <li><a href="/Team:Fudan-TSI/Human_Practices#IntegratedHumanPractice">Integrated&nbsp;HP</a></li>
−
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+
      <li><a href="/Team:Fudan-TSI/Collaborations">Collaborations</a></li>
−
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−
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−
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.igem_2019_team_content .igem_2019_team_column_wrapper h3,
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.igem_2019_team_content .igem_2019_team_column_wrapper h4,
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.igem_2019_team_content .igem_2019_team_column_wrapper h5,
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/*font sizing within list nesting*/
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.igem_2019_team_content .igem_2019_team_column_wrapper ul ul li, .igem_2019_team_content .igem_2019_team_column_wrapper ul ul ul li,
+
−
.igem_2019_team_content .igem_2019_team_column_wrapper ul ol li, .igem_2019_team_content .igem_2019_team_column_wrapper ul ul ol li,
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−
.igem_2019_team_content .igem_2019_team_column_wrapper ol ol li, .igem_2019_team_content .igem_2019_team_column_wrapper ul ol ul li,
+
−
.igem_2019_team_content .igem_2019_team_column_wrapper ol ul li, .igem_2019_team_content .igem_2019_team_column_wrapper ul ol ol li,
+
−
.igem_2019_team_content .igem_2019_team_column_wrapper ol ul ul li, .igem_2019_team_content .igem_2019_team_column_wrapper ol ol ul li,
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.igem_2019_team_content .igem_2019_team_column_wrapper ol ol ol li, .igem_2019_team_content .igem_2019_team_column_wrapper ol ul ol li{ font-size: 76%; }
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−
 
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/*layout classes*/
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+
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/*main layout class */
+
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.igem_2019_team_content .igem_2019_team_column_wrapper .column  {
+
−
float:left;
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−
margin: 1% 2%;
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padding: 0px;
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}
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/* 100% */
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.igem_2019_team_content .igem_2019_team_column_wrapper .column.full_size { width:96%; }
+
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/* 66% */
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/* 33% */
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.igem_2019_team_content .igem_2019_team_column_wrapper .column.third_size { width: 29.3%; }
+
−
 
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−
 
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−
 
+
−
 
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/*all images*/
+
−
.igem_2019_team_content .igem_2019_team_column_wrapper .column.full_size img,
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−
.igem_2019_team_content .igem_2019_team_column_wrapper .column.two_thirds_size img,
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−
.igem_2019_team_content .igem_2019_team_column_wrapper .column.third_size img {
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margin-bottom: 15px;
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width: 100%;
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/* page break */
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.igem_2019_team_content .igem_2019_team_column_wrapper .clear {
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/*add extra space to page break with clear class*/
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.igem_2019_team_content .igem_2019_team_column_wrapper .clear.extra_space {
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/* horizontal line to divide the page*/
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−
.igem_2019_team_content .igem_2019_team_column_wrapper .line_divider {
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−
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−
  margin: auto;
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 +
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    <li>
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      <ul class="collapsible expandable">
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        <li class="onThisPageNav"><span>On this page</span></li>
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        <li class="onThisPageNav"><a href="#section1">section1</a></li>
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        <li class="onThisPageNav"><a href="#section2">section2</a></li>
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        <li class="onThisPageNav"><a href="#section3">section3</a></li>
 +
        <li class="onThisPageNav"><a href="#section4">section4</a></li>
  
 +
        <li><span class="pageSidebar">Team: Fudan-TSI</span></li><li><div class="collapsible-header"><span class="pageSidebar">Project</span></div><div class="collapsible-body"><ul><li><a class="pageSidebar" href="/Team:Fudan-TSI/Description">Background</a></li><li><a class="pageSidebar" href="/Team:Fudan-TSI/Design">Design</a></li><li><a class="pageSidebar" href="/Team:Fudan-TSI/Experiments">Experiments</a></li><li><a class="pageSidebar" href="/Team:Fudan-TSI/Applied_Design">Applied design</a></li><li><a class="pageSidebar" href="/Team:Fudan-TSI/Judging">Judging</a></li></ul></div></li><li><div class="collapsible-header active"><span class="pageSidebar">Results</span></div><div class="collapsible-body"><ul><li><a class="pageSidebar" href="/Team:Fudan-TSI/Demonstrate#ReverseTranscription">Reverse transcription</a></li><li><a class="pageSidebar" href="/Team:Fudan-TSI/Demonstrate#Recombination">Recombination</a></li><li><a class="pageSidebar" href="/Team:Fudan-TSI/Demonstrate">Demonstration</a></li><li><a class="pageSidebar" href="/Team:Fudan-TSI/Measurement">Measurement</a></li><li><a class="pageSidebar" href="/Team:Fudan-TSI/Notebook">Notebook</a></li></ul></div></li><li><div class="collapsible-header"><span class="pageSidebar">Model</span></div><div class="collapsible-body"><ul><li><a class="pageSidebar" href="/Team:Fudan-TSI/Model">Modeling</a></li><li><a class="pageSidebar" href="/Team:Fudan-TSI/Software">Software</a></li><li><a class="pageSidebar" href="/Team:Fudan-TSI/Hardware">Hardware</a></li></ul></div></li><li><div class="collapsible-header"><span class="pageSidebar">Parts</span></div><div class="collapsible-body"><ul><li><a class="pageSidebar" href="/Team:Fudan-TSI/Basic_Part">Basic parts</a></li><li><a class="pageSidebar" href="/Team:Fudan-TSI/Composite_Part">Composite parts</a></li><li><a class="pageSidebar" href="/Team:Fudan-TSI/Improve">Part improvement</a></li><li><a class="pageSidebar" href="/Team:Fudan-TSI/Part_Collection">Part collection</a></li></ul></div></li><li><div class="collapsible-header"><span class="pageSidebar">Human practices</span></div><div class="collapsible-body"><ul><li><a class="pageSidebar" href="/Team:Fudan-TSI/Public_Engagement">Public engagement</a></li><li><a class="pageSidebar" href="/Team:Fudan-TSI/Human_Practices#IntegratedHumanPractice">Integrated HP</a></li><li><a class="pageSidebar" href="/Team:Fudan-TSI/Collaborations">Collaborations</a></li><li><a class="pageSidebar" href="/Team:Fudan-TSI/Safety">Safety</a></li></ul></div></li><li><div class="collapsible-header"><span class="pageSidebar">Team</span></div><div class="collapsible-body"><ul><li><a class="pageSidebar" href="/Team:Fudan-TSI/Team">Members</a></li><li><a class="pageSidebar" href="/Team:Fudan-TSI/Attributions">Attributions</a></li><li><a class="pageSidebar" href="/Team:Fudan-TSI/Heritage">Heritage</a></li></ul></div></li>
 +
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          <div class="row">
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                  <h1><br/>Notebook</h1>
 +
                  <p class="flow-text">We hereby present a toolbox for <i>in vivo</i> continuous mutation library construction. Our toolbox is orthogonal and provides a wide range of applications among various species.</p>
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<link rel="stylesheet" href="https://2019.igem.org/wiki/index.php?title=Template:Fudan-TSI/materialize.css&amp;action=raw&amp;ctype=text/css">
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<style>
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−
+
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body{
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−
margin:0;
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−
padding:0;
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background-color:#08273a;
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}
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a{
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−
text-decoration:none;
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−
}
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−
#global_wrapper{
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−
width:100%;
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−
height:auto;
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−
margin:0;
+
−
position:absolute;
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−
}
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−
#navUl{
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−
width:100%;
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height:110px;
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padding:40px 0 0 0;
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−
overflow:visible;
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position:fixed;
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−
list-style:none;
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−
z-index:999;
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−
background-color:#08273a;
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−
margin:0;
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−
top:0;
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−
}
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−
#mobileNav{
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−
width:100%;
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−
height:80px;
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−
padding:20px 0 0 0;
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top:0;
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background-color:#001d2a;
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−
position:fixed;
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−
display:none;
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−
text-align:center;
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−
z-index:999;
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−
}
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#mobileNav img{
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−
display:none;
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margin:0;
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−
padding:0;
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}
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#mobileLogo{
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display:inline-block;
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}
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#mobileControl{
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float:right;
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display:inline-block;
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margin-right:15px;
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margin-top:3px;
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}
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#mobileCtrl{
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height:25px;
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}
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#mobileTeamName{
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display:inline-block;
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}
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#navImg{
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display:inline-block;
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float:left;
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height:70px;
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width:auto;
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position:relative;
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−
margin-left:4%;
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margin-top:0;
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}
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.logo{
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height:55px;
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width:auto;
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margin-top:1.3%;
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}
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.teamname{
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height:28px;
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}
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#navBar{
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float:right;
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position:relative;
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width:auto;
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display:inline-block;
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margin-right:4%;
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}
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.navLi{
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float:left;
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display:inline-block;
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margin-top:3%;
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color:white;
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font-size:20px;
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position:relative;
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margin-left:18px;
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text-align:center;
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font-family:"Lucida Grande", "Lucida Sans Unicode", "Lucida Sans", "DejaVu Sans", Verdana, "sans-serif";
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text-decoration:none;
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}
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.navA{
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display:block;
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text-align:center;
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color:white;
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text-decoration:none;
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}
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.navA2{
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display:block;
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overflow:visible;
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color:white;
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height:auto;
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}
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.ul2{
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list-style:none;
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position:absolute;
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display:none;
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overflow:hidden;
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padding:10px 0 0 0 !important;
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margin:0 !important;
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font-size:17px;
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left:50%;
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transform:translateX(-50%);
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border-bottom-left-radius: 10px;
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border-bottom-right-radius: 10px;
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background:linear-gradient(#08273a,rgba(0,138,201,1));
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−
}
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.li2{
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padding:0;
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margin:10px 20px;
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text-align:center;
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display:block;
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}
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.navA:link,.navA2:link{
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text-decoration:none;
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}
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.navA:visited{
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color:white;
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}
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.navA2:visited,.navA2:active{
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color:white;
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}
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.navA:hover{
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color:#7dded4;
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}
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.navA2:hover{
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color:#7dded4;
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}
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.jqhover{
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color:#7dded4;
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}
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.navA:hover{
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text-decoration:none;
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}
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.navA:active{
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text-decoration:none;
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color:white;
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}
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</style>
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<style>
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#pageContent{
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margin:100px 0 0 0;
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text-align:center;
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}
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.row{
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−
clear:both!important;
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−
width:100%!important;
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−
}
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−
 
+
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.title1{
+
−
font-size:2.3rem;
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text-align:center;
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color:white;
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display:block;
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−
margin-top:10%;
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−
margin-bottom:7%;
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line-height:110%;
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−
}
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.title2{
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color:white;
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text-align:left;
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font-size:2rem;
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line-height:130%;
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display:block;
+
−
width:100%;
+
−
}
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.title3{
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font-size:1.5rem;
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color:white;
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text-align:left !important;
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display:block;
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width:100%;
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line-height:110%;
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padding-left:2%;
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−
}
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.para1{
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color:white;
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text-align:justify !important;
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align-items:flex-start;
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line-height:140%;
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font-size:1.3rem;
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margin-bottom:50px !important;
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width:100%;
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margin:auto 0;
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}
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.para1 a{
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color:white;
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}
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.para1 a:visited, .para1 a:active{
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color:white;
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}
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.para1 a:hover{
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color:rgba(96,255,249,1.00)!important;
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}
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.content1{
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margin:7% auto;
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−
}
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.pic2{
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width:150%;
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}
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.reverseDiv{
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position:relative !important;
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float:right !important;
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}
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.paraUl{
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list-style-type:decimal !important;
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list-style-position:outside;
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padding-left:auto;
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font-size:1.2rem;
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}
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.paraUl li{
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padding-right:4% ;
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}
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#containerWithLeftNav{
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display:block;
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margin-left:25%;
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}
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.legend{
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color:white;
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text-align:center;
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−
}
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.legend>div{
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width:100%;
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text-align:justify!important;
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font-size:1.1rem;
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−
}
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.legends{
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margin:auto 15%;
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−
}
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−
 
+
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+
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</style>
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<style>
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+
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@media only screen and (max-width:1200px){
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#mobileBar{
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−
margin-left:4%;
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−
}
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.navLi{
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−
font-size:18px;
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−
margin-top:3.5%;
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−
}
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−
}
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@media only screen and (max-width:1100px){
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#navUl{
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display:block;
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float:right;
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margin-top:0;
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top:80px;
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right:0;
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background-color:rgba(0,0,0,0);
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padding:0;
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−
}
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−
+
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#mobileNav{
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display:block;
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−
}
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#navImg{
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display:none;
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−
}
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+
−
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#navBar{
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margin:0 1% 0 0;
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padding-right:2%;
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padding-left:1%;
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position:relative;
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−
display:none;
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−
}
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−
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#mobileNav img{
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display:inline-block;
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−
margin:5px 0;
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−
padding:0;
+
−
}
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−
#mobileControl{
+
−
margin-top:8px;
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−
}
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−
 
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.logo{
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−
height:45px;
+
−
margin-top:7px;
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−
}
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−
.navLi{
+
−
display:block;
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−
position:relative;
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−
float:right;
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−
clear:both;
+
−
white-space:nowrap;
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−
text-align:right;
+
−
margin:0;
+
−
height:60px;
+
−
width:100%;
+
−
background-color:#00324a;
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−
}
+
−
.navA{
+
−
display:block;
+
−
text-align:right;
+
−
position:relative;
+
−
float:right;
+
−
padding:20px 20px !important;
+
−
}
+
−
.n2{
+
−
display:none;
+
−
width:0;
+
−
position:relative;
+
−
float:left;
+
−
text-align:right;
+
−
}
+
−
.ul2{
+
−
background:none;
+
−
padding-top:0;
+
−
background-color:#00557b;
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−
text-align:right;
+
−
display:block;
+
−
position:relative;
+
−
float:right;
+
−
right:100%;
+
−
transform:translateX(0%);
+
−
top:0;
+
−
transform:translateY(1%);
+
−
border-radius:0 0 0 10px;
+
−
}
+
−
.open{
+
−
display:block;
+
−
}
+
−
+
−
.title2{
+
−
font-size:1.8rem;
+
−
line-height:140%;
+
−
}
+
−
.para1{
+
−
font-size:1.3rem;
+
−
}
+
−
.pic2{
+
−
width:120%;
+
−
}
+
−
+
−
.highlightIcon{
+
−
margin:20% auto 10% auto;
+
−
}
+
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.highlightTitle{
+
−
margin-bottom:15%;
+
−
}
+
−
 
+
−
+
−
}
+
−
+
−
+
−
@media only screen and (max-width:992px){
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−
+
−
#navUl{
+
−
display:block;
+
−
float:right;
+
−
margin:0;
+
−
top:80px;
+
−
right:0;
+
−
}
+
−
+
−
#mobileNav{
+
−
display:block;
+
−
}
+
−
+
−
#navImg{
+
−
display:none;
+
−
}
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−
+
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#navTeamName{
+
−
display:none;
+
−
}
+
−
+
−
#navBar{
+
−
margin:0 1% 0 0 ;
+
−
margin-right:2%;
+
−
padding-right:1%;
+
−
padding-left:1%;
+
−
position:relative;
+
−
display:none;
+
−
}
+
−
#mobileControl{
+
−
margin-top:10px;
+
−
}
+
−
#mobileNav img{
+
−
display:inline-block;
+
−
margin:5px 0;
+
−
padding:0;
+
−
}
+
−
.logo{
+
−
height:40px;
+
−
}
+
−
.navLi{
+
−
display:block;
+
−
position:relative;
+
−
float:right;
+
−
clear:both;
+
−
white-space:nowrap;
+
−
text-align:right;
+
−
height:60px;
+
−
width:100%;
+
−
}
+
−
.navA{
+
−
display:block;
+
−
text-align:right;
+
−
position:relative;
+
−
float:right;
+
−
font-size:15px;
+
−
}
+
−
.n2{
+
−
display:none;
+
−
width:0;
+
−
position:relative;
+
−
float:left;
+
−
}
+
−
.ul2{
+
−
font-size:13px;
+
−
}
+
−
.open{
+
−
display:block;
+
−
}
+
−
+
−
 
+
−
+
−
#animation_container{
+
−
display:none;
+
−
}
+
−
#teamLogo{
+
−
display:block;
+
−
}
+
−
 
+
−
+
−
.title2{
+
−
font-size:1.5rem;
+
−
}
+
−
.para1{
+
−
font-size:1.2rem;
+
−
}
+
−
.paraUl{
+
−
font-size:1.1rem;
+
−
}
+
−
.pic2{
+
−
width:100%;
+
−
}
+
−
 
+
−
+
−
}
+
−
+
−
+
−
@media only screen and (max-width:768px){
+
−
.col-md-4{
+
−
clear:both;
+
−
}
+
−
.col-md-8{
+
−
clear:both;
+
−
}
+
−
.pic2{
+
−
margin-bottom:10%;
+
−
width:80%;
+
−
}
+
−
.title2{
+
−
font-size:1.2rem;
+
−
}
+
−
.para1{
+
−
font-size:1.1rem;
+
−
}
+
−
.paraUl{
+
−
font-size:1rem;
+
−
}
+
−
.pic2{
+
−
width:80%;
+
−
}
+
−
#sponser img {
+
−
width:60%;
+
−
}
+
−
+
−
#containerWithLeftNav{
+
−
margin-left:auto;
+
−
}
+
−
+
−
}
+
−
+
−
</style>
+
−
 
+
−
 
+
−
+
−
+
−
 
+
−
 
+
−
<style>
+
−
#footContainer{
+
−
width:90%;
+
−
}
+
−
#FudanFooter{
+
−
margin:auto 0;
+
−
width:100%;
+
−
padding:3% 0;
+
−
}
+
−
#FudanFooter #usefulLinks {
+
−
color: #cacaca;
+
−
padding-left: 1rem;
+
−
}
+
−
 
+
−
#FudanFooter #usefulLinks ul {
+
−
font-size: 13px;
+
−
line-height: 14px;
+
−
border-top: solid 2px;
+
−
color: inherit;
+
−
text-decoration: none;
+
−
padding-top: 5px;
+
−
margin:0;
+
−
}
+
−
 
+
−
#FudanFooter #usefulLinks div {
+
−
color: #cacaca;
+
−
}
+
−
 
+
−
#FudanFooter #usefulLinks div:hover {
+
−
color: white;
+
−
}
+
−
 
+
−
#FudanFooter #usefulLinks a {
+
−
color: inherit;
+
−
}
+
−
 
+
−
#FudanFooter #usefulLinks a:hover {
+
−
text-decoration: underline;
+
−
}
+
−
 
+
−
#FudanFooter #usefulLinks div.active,
+
−
#FudanFooter #usefulLinks div.active a {
+
−
color: white;
+
−
}
+
−
 
+
−
#FudanFooter #usefulLinks div.active ul {
+
−
border-top: solid white 2px;
+
−
}
+
−
 
+
−
#FudanFooter #usefulLinks li {
+
−
padding: 3px 0 6px 3px;
+
−
list-style:none;
+
−
}
+
−
 
+
−
#usefulLinks span {
+
−
font-size: 20px;
+
−
}
+
−
+
−
 
+
−
#FudanFooter div.footer-copyright {
+
−
font-size: 13px;
+
−
line-height: 15px;
+
−
}
+
−
.footerUl{
+
−
margin:2% 4%;
+
−
}
+
−
</style>
+
−
 
+
−
<script>
+
−
+
−
$(document).ready(function(){
+
−
+
−
+
−
var winWidth=$(window).width();
+
−
+
−
if (winWidth>1100){
+
−
$(".navA").mouseenter(function(){
+
−
$(this).parent().find(".ul2").stop().fadeIn(400);
+
−
});
+
−
$(".navLi").mouseleave(function(){
+
−
$(this).find(".ul2").stop().fadeOut(400);
+
−
});
+
−
+
−
+
−
}
+
−
else{
+
−
$(".navA:not(.noSubmenu)").removeAttr("href");
+
−
$("#mobileNav").click(function(){
+
−
$("#navBar").toggle();
+
−
});
+
−
$(document).click(function(event){
+
−
var m = $("#mobileNav,#navBar");
+
−
if (!m.is(event.target)){
+
−
if (m.has(event.target).length===0){
+
−
$("#navBar").hide();
+
−
$(".open").parent().find(".navA").css("color","white");
+
−
$(".open").removeClass("open");
+
−
}
+
−
 
+
−
}
+
−
});
+
−
$(".navLi").click(function(){
+
−
if ($(this).find(".n2").hasClass("open")){
+
−
$(".open").parent().find(".navA").css("color","white");
+
−
$(this).find(".n2").removeClass("open");
+
−
}
+
−
else{
+
−
$(".open").parent().find(".navA").css("color","white");
+
−
$(".open").removeClass("open");
+
−
$(this).find(".n2").addClass("open");
+
−
$(this).find(".navA").css("color","#7dded4");
+
−
}
+
−
});
+
−
}
+
−
+
−
+
−
+
−
+
−
+
−
+
−
});
+
−
+
−
+
−
</script>
+
−
+
−
+
−
+
−
<div id="global_wrapper">
+
−
<div id="mobileNav">
+
−
+
−
<div id="mobileLogo"><img src="https://static.igem.org/mediawiki/2019/d/d3/T--Fudan-TSI--HomepageLogo.gif" class="logo"></div>
+
−
<div id="mobileControl"><img src="https://static.igem.org/mediawiki/2019/thumb/a/ae/T--Fudan-TSI--mobileCtrl.gif/683px-T--Fudan-TSI--mobileCtrl.gif" id="mobileCtrl"></div>
+
−
+
−
</div>
+
−
+
−
<ul id="navUl">
+
−
+
−
<li id="navImg">
+
−
<img src="https://static.igem.org/mediawiki/2019/d/d3/T--Fudan-TSI--HomepageLogo.gif" class="logo">
+
−
+
−
</li>
+
−
+
−
+
−
<ul id="navBar">
+
−
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<li class="navLi"><a class="navA noSubmenu" href="https://2019.igem.org/Team:Fudan-TSI">Home</a></li>
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<li class="navLi">
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<a class="navA" href="https://2019.igem.org/Team:Fudan-TSI/Description">Project</a>
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<div class="n2">
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<ul class="ul2">
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<li class="li2"><a class="navA2" href="https://2019.igem.org/Team:Fudan-TSI/Description">Description</a></li>
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<li class="li2"><a class="navA2" href="https://2019.igem.org/Team:Fudan-TSI/Design">Design</a></li>
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<li class="li2"><a class="navA2" href="https://2019.igem.org/Team:Fudan-TSI/Applied_Design" style="white-space:nowrap">Applied Design</a></li>
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<li class="li2"><a class="navA2" href="https://2019.igem.org/Team:Fudan-TSI/Experiments">Experiment</a></li>
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</ul>
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<li class="navLi">
+
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<a class="navA" href="https://2019.igem.org/Team:Fudan-TSI/Results">Results</a>
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<div class="n2">
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<ul class="ul2">
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<li class="li2"><a class="navA2" href="https://2019.igem.org/Team:Fudan-TSI/Results/Reverse_Transcription">Reverse Transcription</a></li>
+
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<li class="li2"><a class="navA2" href="https://2019.igem.org/Team:Fudan-TSI/Results/Recombination">Recombination</a></li>
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<li class="li2"><a class="navA2" href="https://2019.igem.org/Team:Fudan-TSI/Demonstrate">Demonstration</a></li>
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<li class="li2"><a class="navA2" href="https://2019.igem.org/Team:Fudan-TSI/Measurement">Measurement</a></li>
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<li class="li2"><a class="navA2" href="https://2019.igem.org/Team:Fudan-TSI/Notebook">Notebook</a></li>
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</ul>
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</div>
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</li>
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<li class="navLi">
+
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<a class="navA" href="https://2019.igem.org/Team:Fudan-TSI/Model">Model</a>
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<div class="n2">
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<ul class="ul2">
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<li class="li2"><a class="navA2" href="https://2019.igem.org/Team:Fudan-TSI/Model">Modeling</a></li>
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<li class="li2"><a class="navA2" href="https://2019.igem.org/Team:Fudan-TSI/Software">Software</a></li>
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<li class="li2"><a class="navA2" href="https://2019.igem.org/Team:Fudan-TSI/Hardware">Hardware</a></li>
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</ul>
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</div>
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</li>
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<li class="navLi">
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<a class="navA" href="https://2019.igem.org/Team:Fudan-TSI/Parts">Parts</a>
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<div class="n2">
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<ul class="ul2">
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<li class="li2"><a class="navA2" style="white-space:nowrap;" href="https://2019.igem.org/Team:Fudan-TSI/Basic_Part">Basic Parts</a></li>
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<li class="li2"><a class="navA2" style="white-space:nowrap;" href="https://2019.igem.org/Team:Fudan-TSI/Composite_Part">Composite Parts</a></li>
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<li class="li2"><a class="navA2" style="white-space:nowrap;" href="https://2019.igem.org/Team:Fudan-TSI/Improve">Improved Parts</a></li>
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<li class="li2"><a class="navA2" style="white-space:nowrap;" href="https://2019.igem.org/Team:Fudan-TSI/Part_Collection">Part Collection</a></li>
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</div>
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</li>
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−
<li class="navLi">
+
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<a class="navA" href="https://2019.igem.org/Team:Fudan-TSI/Human_Practices">Human Practices</a>
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<div class="n2">
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<ul class="ul2">
+
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<li class="li2"><a class="navA2" style="white-space:nowrap;" href="https://2019.igem.org/Team:Fudan-TSI/Public_Engagement">Education &amp; <br />Public Engagement</a></li>
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<li class="li2"><a class="navA2" style="white-space:nowrap;" href="https://2019.igem.org/Team:Fudan-TSI/Human_Practices">Integrated <br />Human Practice</a></li>
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<li class="li2"><a class="navA2" href="https://2019.igem.org/Team:Fudan-TSI/Collaborations">Collaboration</a></li>
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<li class="li2"><a class="navA2" href="https://2019.igem.org/Team:Fudan-TSI/Safety">Safety</a></li>
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</ul>
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</div>
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</li>
+
−
+
−
<li class="navLi">
+
−
<a class="navA" href="https://2019.igem.org/Team:Fudan-TSI/Team">Team</a>
+
−
<div class="n2">
+
−
<ul class="ul2">
+
−
<li class="li2"><a class="navA2" style="white-space:nowrap;" href="https://2019.igem.org/Team:Fudan-TSI/Team">Team Members</a></li>
+
−
<li class="li2"><a class="navA2" href="https://2019.igem.org/Team:Fudan-TSI/Attributions">Attribution</a></li>
+
−
<li class="li2"><a class="navA2" href="https://2019.igem.org/Team:Fudan-TSI/Acknowledgment">Acknowledgement</a></li>
+
−
</ul>
+
−
</div>
+
−
</li>
+
−
+
−
<li class="navLi"><a class="navA noSubmenu" href="https://2019.igem.org/Team:Fudan-TSI/Judging">Judging</a></li>
+
−
+
−
</ul>
+
−
+
−
+
−
</ul>
+
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<!----------------------------------------------------------------------------------------------------------------------------------------->
+
−
<!---- Cover ---->
+
−
<!----------------------------------------------------------------------------------------------------------------------------------------->
+
−
+
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<div id="pageCover">
+
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+
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+
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<svg id="demo" viewBox="0 0 1600 600" preserveAspectRatio="xMidYMid slice" style="z-index: -100;">
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  <stop id="stop2a" offset="0%" stop-color="#e3bc13"></stop>
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<div id="demoCover"><img id="coverPic" src="https://static.igem.org/mediawiki/2019/4/4b/T--Fudan-TSI--coverNotebook.gif"></div>
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#pageCover{
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width:100%;
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margin:0;
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padding-top:80px;
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#demoCover{
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width:100vw;
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height:80vh;
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position:absolute;
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background-color:rgba(8,39,58,0.5);
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text-align:center;
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#coverPic{
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width:550px;
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margin:20vh auto;
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#demo{
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width:100vw;
+
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height:70vh;
+
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position:relative;
+
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#demo svg {
+
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  width: 100%;
+
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+
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+
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+
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+
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+
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+
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+
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padding-top:55px;
+
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#demoCover{
+
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top:55px;
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height:30vh;
+
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+
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#demo{
+
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height:30vh;
+
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#coverPic{
+
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width:500px;
+
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margin:7vh auto;
+
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+
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+
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padding-top:55px;
+
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+
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#demoCover{
+
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top:55px;
+
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#coverPic{
+
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width:500px;
+
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margin:6vh auto;
+
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+
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+
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@media only screen and (max-width:768px){
+
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#pageCover{
+
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padding-top:55px;
+
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}
+
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#demoCover{
+
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top:55px;
+
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+
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#coverPic{
+
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width:400px;
+
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margin:8vh auto;
+
−
}
+
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}
+
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@media only screen and (max-width:500px){
+
−
#coverPic{
+
−
width:200px;
+
−
margin:8vh auto;
+
−
}
+
−
}
+
−
</style>
+
−
<script>
+
−
//////////////////////////////
+
−
// Demo Functions
+
−
//////////////////////////////
+
−
function bkgFunction(showStats) {
+
−
  // stats
+
−
  if (showStats) {
+
−
var stats = new Stats();
+
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stats.domElement.style.position = 'absolute';
+
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stats.domElement.style.left = '0';
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stats.domElement.style.top = '0';
+
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document.body.appendChild(stats.domElement);
+
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requestAnimationFrame(function updateStats(){
+
−
  stats.update();
+
−
  requestAnimationFrame(updateStats);
+
−
});
+
−
  }
+
−
  // init
+
−
  var svg = document.getElementById('demo');
+
−
  tesselation.setup(svg);
+
−
  gradients.setup();
+
−
  var lastTransitionAt, transitionDelay = 10000, transitionDuration = 3000;
+
−
  function playNextTransition() {
+
−
tesselation.next(transitionDuration);
+
−
gradients.next(transitionDuration);
+
−
  };
+
−
  function tick(time) {
+
−
if (!lastTransitionAt || time - lastTransitionAt > transitionDelay) {
+
−
  lastTransitionAt = time;
+
−
  playNextTransition();
+
−
}
+
−
window.requestAnimationFrame(tick);
+
−
  }
+
−
  window.requestAnimationFrame(tick);
+
−
}
+
−
//////////////////////////////
+
−
// Delaunay Triangulation
+
−
//////////////////////////////
+
−
var calcDelaunayTriangulation = (function() {
+
−
  var EPSILON = 1.0 / 1048576.0;
+
−
  function getSuperT(vertices) {
+
−
var xMin = Number.POSITIVE_INFINITY, yMin = Number.POSITIVE_INFINITY,
+
−
xMax = Number.NEGATIVE_INFINITY, yMax = Number.NEGATIVE_INFINITY,
+
−
i, xDiff, yDiff, maxDiff, xCenter, yCenter;
+
−
for(i = vertices.length; i--; ) {
+
−
  if(vertices[i][0] < xMin) xMin = vertices[i][0];
+
−
  if(vertices[i][0] > xMax) xMax = vertices[i][0];
+
−
  if(vertices[i][1] < yMin) yMin = vertices[i][1];
+
−
  if(vertices[i][1] > yMax) yMax = vertices[i][1];
+
−
}
+
−
xDiff = xMax - xMin;
+
−
yDiff = yMax - yMin;
+
−
maxDiff = Math.max(xDiff, yDiff);
+
−
xCenter = xMin + xDiff * 0.5;
+
−
yCenter = yMin + yDiff * 0.5;
+
−
return [
+
−
  [xCenter - 20 * maxDiff, yCenter - maxDiff],
+
−
  [xCenter, yCenter + 20 * maxDiff],
+
−
  [xCenter + 20 * maxDiff, yCenter - maxDiff]
+
−
];
+
−
  }
+
−
  function circumcircle(vertices, i, j, k) {
+
−
var xI = vertices[i][0], yI = vertices[i][1],
+
−
xJ = vertices[j][0], yJ = vertices[j][1],
+
−
xK = vertices[k][0], yK = vertices[k][1],
+
−
yDiffIJ = Math.abs(yI - yJ), yDiffJK = Math.abs(yJ - yK),
+
−
xCenter, yCenter, m1, m2, xMidIJ, xMidJK, yMidIJ, yMidJK, xDiff, yDiff;
+
−
// bail condition
+
−
if(yDiffIJ < EPSILON){
+
−
if (yDiffJK < EPSILON){
+
−
throw new Error("Can't get circumcircle since all 3 points are y-aligned");
+
−
}
+
−
}
+
−
+
−
+
−
// calc circumcircle center x/y, radius
+
−
m1  = -((xJ - xI) / (yJ - yI));
+
−
m2  = -((xK - xJ) / (yK - yJ));
+
−
xMidIJ = (xI + xJ) / 2.0;
+
−
xMidJK = (xJ + xK) / 2.0;
+
−
yMidIJ = (yI + yJ) / 2.0;
+
−
yMidJK = (yJ + yK) / 2.0;
+
−
xCenter = (yDiffIJ < EPSILON) ? xMidIJ :
+
−
  (yDiffJK < EPSILON) ? xMidJK :
+
−
  (m1 * xMidIJ - m2 * xMidJK + yMidJK - yMidIJ) / (m1 - m2);
+
−
yCenter  = (yDiffIJ > yDiffJK) ?
+
−
  m1 * (xCenter - xMidIJ) + yMidIJ :
+
−
  m2 * (xCenter - xMidJK) + yMidJK;
+
−
xDiff = xJ - xCenter;
+
−
yDiff = yJ - yCenter;
+
−
// return
+
−
return {i: i, j: j, k: k, x: xCenter, y: yCenter, r: xDiff * xDiff + yDiff * yDiff};
+
−
  }
+
−
  function dedupeEdges(edges) {
+
−
var i, j, a, b, m, n;
+
−
for(j = edges.length; j; ) {
+
−
  b = edges[--j]; a = edges[--j];
+
−
  for(i = j; i; ) {
+
−
n = edges[--i]; m = edges[--i];
+
−
if(a === m){
+
−
  if (b===n){
+
−
  edges.splice(j, 2); edges.splice(i, 2);
+
−
  break;
+
−
  }  
+
−
}
+
−
if(a === n){
+
−
  if (b===m){
+
−
  edges.splice(j, 2); edges.splice(i, 2);
+
−
  break;
+
−
  }  
+
−
}
+
−
  }
+
−
}
+
−
  }
+
−
  return function(vertices) {
+
−
var n = vertices.length,
+
−
i, j, indices, st, candidates, locked, edges, dx, dy, a, b, c;
+
−
// bail if too few / too many verts
+
−
if(n < 3 || n > 2000)
+
−
  return [];
+
−
// copy verts and sort indices by x-position
+
−
vertices = vertices.slice(0);
+
−
indices = new Array(n);
+
−
for(i = n; i--; )
+
−
  indices[i] = i;
+
−
indices.sort(function(i, j) {
+
−
  return vertices[j][0] - vertices[i][0];
+
−
});
+
−
// supertriangle
+
−
st = getSuperT(vertices);
+
−
vertices.push(st[0], st[1], st[2]);
+
−
// init candidates/locked tris list
+
−
candidates = [circumcircle(vertices, n + 0, n + 1, n + 2)];
+
−
locked = [];
+
−
edges = [];
+
−
// scan left to right
+
−
for(i = indices.length; i--; edges.length = 0) {
+
−
  c = indices[i];
+
−
  // check candidates tris against point
+
−
  for(j = candidates.length; j--; ) {
+
−
// lock tri if point to right of circumcirc
+
−
dx = vertices[c][0] - candidates[j].x;
+
−
if (dx > 0.0){
+
−
if(dx * dx > candidates[j].r){
+
−
locked.push(candidates[j]);
+
−
  candidates.splice(j, 1);
+
−
  continue;
+
−
}
+
−
}
+
−
 
+
−
 
+
−
// point outside circumcirc = leave candidates
+
−
dy = vertices[c][1] - candidates[j].y;
+
−
if(dx * dx + dy * dy - candidates[j].r > EPSILON)
+
−
  continue;
+
−
// point inside circumcirc = break apart, save edges
+
−
edges.push(
+
−
  candidates[j].i, candidates[j].j,
+
−
  candidates[j].j, candidates[j].k,
+
−
  candidates[j].k, candidates[j].i
+
−
);
+
−
candidates.splice(j, 1);
+
−
  }
+
−
  // new candidates from broken edges
+
−
  dedupeEdges(edges);
+
−
  for(j = edges.length; j; ) {
+
−
b = edges[--j];
+
−
a = edges[--j];
+
−
candidates.push(circumcircle(vertices, a, b, c));
+
−
  }
+
−
}
+
−
// close candidates tris, remove tris touching supertri verts
+
−
for(i = candidates.length; i--; )
+
−
  locked.push(candidates[i]);
+
−
candidates.length = 0;
+
−
for(i = locked.length; i--; )
+
−
  if(locked[i].i < n){
+
−
  if(locked[i].j < n){
+
−
  if(locked[i].k < n){
+
−
  candidates.push(locked[i].i, locked[i].j, locked[i].k);
+
−
  }
+
−
  }
+
−
  }
+
−
+
−
+
−
// done
+
−
return candidates;
+
−
  };
+
−
})();
+
−
var tesselation = (function() {
+
−
  var svg, svgW, svgH, prevGroup;
+
−
  function createRandomTesselation() {
+
−
var wW = window.innerWidth;
+
−
var wH = window.innerHeight;
+
−
var gridSpacing = 250, scatterAmount = 0.75;
+
−
var gridSize, i, x, y;
+
−
if (wW / wH > svgW / svgH) { // window wider than svg = use width for gridSize
+
−
  gridSize = gridSpacing * svgW / wW;
+
−
} else { // window taller than svg = use height for gridSize
+
−
  gridSize = gridSpacing * svgH / wH;
+
−
}
+
−
var vertices = [];
+
−
var xOffset = (svgW % gridSize) / 2, yOffset = (svgH % gridSize) / 2;
+
−
for (x = Math.floor(svgW/gridSize) + 1; x >= -1; x--) {
+
−
  for (y = Math.floor(svgH/gridSize) + 1; y >= -1; y--) {
+
−
vertices.push(
+
−
  [
+
−
xOffset + gridSize * (x + scatterAmount * (Math.random() - 0.5)),
+
−
yOffset + gridSize * (y + scatterAmount * (Math.random() - 0.5))
+
−
  ]
+
−
);
+
−
  }
+
−
}
+
−
var triangles = calcDelaunayTriangulation(vertices);
+
−
var group = document.createElementNS('http://www.w3.org/2000/svg','g');
+
−
var polygon;
+
−
for(i = triangles.length; i; ) {
+
−
  polygon = document.createElementNS('http://www.w3.org/2000/svg','polygon');
+
−
  polygon.setAttribute('points',
+
−
vertices[triangles[--i]][0] + ',' + vertices[triangles[i]][1] + ' ' +
+
−
vertices[triangles[--i]][0] + ',' + vertices[triangles[i]][1] + ' ' +
+
−
vertices[triangles[--i]][0] + ',' + vertices[triangles[i]][1]
+
−
  );
+
−
  group.appendChild(polygon);
+
−
}
+
−
return group;
+
−
  }
+
−
  return {
+
−
setup: function(svgElement) {
+
−
  svg = svgElement;
+
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  var vb = svg.getAttribute('viewBox').split(/\D/g);
+
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  svgW = vb[2];
+
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  svgH = vb[3];
+
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},
+
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next: function(t) {
+
−
  var toRemove, i, n;
+
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  t /= 1000;
+
−
if(prevGroup){
+
−
if(prevGroup.children){
+
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if(prevGroup.children.length){
+
−
toRemove = prevGroup;
+
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n = toRemove.children.length;
+
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for (i = n; i--; ) {
+
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  TweenMax.to(toRemove.children[i], t*0.4, {opacity: 0, delay: t*(0.3*i/n)});
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}
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TweenMax.delayedCall(t * (0.7 + 0.05), function(group) { svg.removeChild(group); }, [toRemove], this);
+
−
}
+
−
}
+
−
}
+
−
+
−
  var g = createRandomTesselation();
+
−
  n = g.children.length;
+
−
  for (i = n; i--; ) {
+
−
TweenMax.fromTo(g.children[i], t*0.4, {opacity: 0}, {opacity: 0.3 + 0.25 * Math.random(), delay: t*(0.3*i/n + 0.3), ease: Back.easeOut});
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−
  }
+
−
  svg.appendChild(g);
+
−
  prevGroup = g;
+
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}
+
−
  }
+
−
})();
+
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//////////////////////////////
+
−
// Gradients
+
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//////////////////////////////
+
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var gradients = (function() {
+
−
  var grad1, grad2, showingGrad1;
+
−
  // using colors from IBM Design Colors this time
+
−
  var colors = [ // 14 colors - use 3-5 span
+
−
'#3c6df0', // ultramarine50
+
−
'#12a3b4', // aqua40
+
−
'#00a78f', // teal40
+
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'#00aa5e', // green40
+
−
'#81b532', // lime30
+
−
'#e3bc13', // yellow20
+
−
'#ffb000', // gold20
+
−
'#fe8500', // orange30
+
−
'#fe6100', // peach40
+
−
'#e62325', // red50
+
−
'#dc267f', // magenta50
+
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'#c22dd5', // purple50
+
−
'#9753e1', // violet50
+
−
'#5a3ec8'  // indigo60
+
−
  ];
+
−
  function assignRandomColors(gradObj) {
+
−
var rA = Math.floor(colors.length * Math.random());
+
−
var rB = Math.floor(Math.random() * 3) + 3; // [3 - 5]
+
−
rB = (rA + (rB * (Math.random() < 0.5 ? -1 : 1)) + colors.length) % colors.length;
+
−
gradObj.stopA.setAttribute('stop-color', colors[rA]);
+
−
gradObj.stopB.setAttribute('stop-color', colors[rB]);
+
−
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+
−
setup: function() {
+
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  showingGrad1 = false;
+
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+
−
stopA: document.getElementById('stop1a'),
+
−
stopB: document.getElementById('stop1b'),
+
−
rect:  document.getElementById('rect1')
+
−
  };
+
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  grad2 = {
+
−
stopA: document.getElementById('stop2a'),
+
−
stopB: document.getElementById('stop2b'),
+
−
rect:  document.getElementById('rect2')
+
−
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+
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  grad1.rect.style.opacity = 0;
+
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+
−
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+
−
next: function(t) {
+
−
  t /= 1000;
+
−
  var show, hide;
+
−
  if (showingGrad1) {
+
−
hide = grad1;
+
−
show = grad2;
+
−
  } else {
+
−
hide = grad2;
+
−
show = grad1;
+
−
  }
+
−
  showingGrad1 = !showingGrad1;
+
−
  TweenMax.to(hide.rect, 0.55*t, {opacity: 0, delay: 0.2*t, ease: Sine.easeOut});
+
−
  assignRandomColors(show);
+
−
  TweenMax.to(show.rect, 0.65*t, {opacity: 1, ease: Sine.easeIn});
+
−
}
+
−
  };
+
−
})();
+
−
//////////////////////////////
+
−
// Start
+
−
//////////////////////////////
+
−
bkgFunction();
+
−
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Revision as of 04:31, 15 November 2019

Notebook | 2019 iGEM Team:Fudan-TSI


Notebook

We hereby present a toolbox for in vivo continuous mutation library construction. Our toolbox is orthogonal and provides a wide range of applications among various species.

cover notebook

Here is the link to download the file above.