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1
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2 <!DOCTYPE html>
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3 <html lang="en">
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4 <head>
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5 <meta charset="utf-8">
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6 <title>pipeline</title>
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7 <meta name="viewport" content="width=device-width, initial-scale=1.0">
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8 <meta name="description" content="">
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9 <meta name="author" content="">
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10 <!-- Le styles -->
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11 <link href="css/bootstrap.css" rel="stylesheet">
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12 <link href="css/bootstrap-table.css" rel="stylesheet">
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13 <style type="text/css">
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14 body {
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15 padding-top: 60px;
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16 padding-bottom: 40px;
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17 }
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18 div#page {
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19 width: 940px;
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20 background-color: #fff;
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21 margin: 0 auto;
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22 text-align: left;
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23 border-color: #fff;
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24 border-style: none solid solid;
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25 border-width: medium 1px 1px;
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26 }
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27
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28 div.content {
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29 display: none;
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30 float: right;
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31 width: 550px;
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32 }
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33 div.content a, div.navigation a {
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34 text-decoration: none;
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35 color: #777;
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36 }
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37 div.content a:focus, div.content a:hover, div.content a:active {
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38 text-decoration: underline;
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39 }
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40
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41 div.controls {
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42 margin-top: 5px;
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43 height: 23px;
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44 }
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45
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46 div.controls a {
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47 padding: 5px;
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48 }
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49 div.ss-controls {
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50 float: left;
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51 }
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52 div.nav-controls {
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53 float: right;
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54 }
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55 div.slideshow-container {
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56 position: relative;
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57 clear: both;
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58 height: 502px; /* This should be set to be at least the height of the largest image in the slideshow */
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59 }
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60 div.loader {
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61 position: absolute;
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62 top: 0;
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63 left: 0;
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64 background-image: url('loader.gif');
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65 background-repeat: no-repeat;
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66 background-position: center;
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67 width: 550px;
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68 height: 502px; /* This should be set to be at least the height of the largest image in the slideshow */
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69 }
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70 div.slideshow {
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71
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72 }
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73
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74 div.slideshow span.image-wrapper {
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75 display: block;
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76 position: absolute;
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77 top: 0;
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78 left: 0;
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79 }
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80 div.slideshow a.advance-link {
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81 display: block;
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82 width: 550px;
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83 height: 502px; /* This should be set to be at least the height of the largest image in the slideshow */
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84 line-height: 502px; /* This should be set to be at least the height of the largest image in the slideshow */
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85 text-align: center;
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86 }
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87 div.slideshow a.advance-link:hover, div.slideshow a.advance-link:active, div.slideshow a.advance-link:visited {
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88 text-decoration: none;
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89 }
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90 div.slideshow img {
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91 vertical-align: middle;
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92 border: 1px solid #ccc;
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93 }
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94
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95 div.image-title {
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96 font-weight: bold;
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97 font-size: 1.4em;
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98 }
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99
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100 div.image-desc {
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101 line-height: 1.3em;
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102 padding-top: 12px;
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103 }
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104 div.navigation {
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105
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106 }
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107 ul.thumbs {
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108 clear: both;
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109 margin: 0;
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110 padding: 0;
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111 }
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112 ul.thumbs li {
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113 float: none;
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114 padding: 0;
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115 margin: 0;
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116 list-style: none;
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117 }
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118 a.thumb {
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119 padding: 0;
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120 display: inline;
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121 border: none;
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122 }
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123 ul.thumbs li.selected a.thumb {
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124 color: #000;
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125 font-weight: bold;
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126 }
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127 a.thumb:focus {
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128 outline: none;
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129 }
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130 ul.thumbs img {
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131 border: none;
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132 display: block;
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133 }
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134 div.pagination {
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135 clear: both;
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136 }
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137 div.navigation div.top {
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138 margin-bottom: 12px;
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139 height: 11px;
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140 }
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141 div.navigation div.bottom {
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142 margin-top: 12px;
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143 }
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144 div.pagination a, div.pagination span.current, div.pagination span.ellipsis {
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145 display: block;
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146 float: left;
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147 margin-right: 2px;
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148 padding: 4px 7px 2px 7px;
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149 border: 1px solid #ccc;
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150 }
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151 div.pagination a:hover {
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152 background-color: #eee;
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153 text-decoration: none;
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154 }
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155 div.pagination span.current {
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156 font-weight: bold;
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157 background-color: #000;
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158 border-color: #000;
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159 color: #fff;
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160 }
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161 div.pagination span.ellipsis {
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162 border: none;
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163 padding: 5px 0 3px 2px;
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164 }
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165
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166 div.download {
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167 float: right;
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168 }
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169
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170 div.caption-container {
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171 position: relative;
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172 clear: left;
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173 height: 75px;
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174 }
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175 span.image-caption {
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176 display: block;
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177 position: absolute;
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178 width: 550px;
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179 top: 0;
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180 left: 0;
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181 }
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182 div.caption {
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183 padding: 12px;
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184 }
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185
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186 /* Featurettes
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187 ------------------------- */
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188
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189 .featurette {
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190 padding-top: 20px; /* Vertically center images part 1: add padding above and below text. */
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191 overflow: hidden; /* Vertically center images part 2: clear their floats. */
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192 text-align: center;
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193 }
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194
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195 .featurette-p
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196 {
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197 text-align: left;
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198 }
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199
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200 .featurette-image {
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201 margin-top: 10px; /* Vertically center images part 3: negative margin up the image the same amount of the padding to center it. */
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202 width: 450px;
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203 height: auto;
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204 }
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205
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206 </style>
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207 <link href="css/bootstrap-responsive.css" rel="stylesheet">
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208 </head>
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209 <body>
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210
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211 <div class="navbar navbar-inverse navbar-fixed-top">
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212 <div class="navbar-inner">
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213 <div class="container">
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214 <button type="button" class="btn btn-navbar" data-toggle="collapse" data-target=".nav-collapse">
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215 <span class="icon-bar"></span>
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216 <span class="icon-bar"></span>
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217 <span class="icon-bar"></span>
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218 </button>
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219 <a class="brand" href="report.txt">Report</a>
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220 <div class="nav-collapse collapse">
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221 <ul class="nav">
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222 <li class="active"><a href="reads-sample-small.fastq.html">reads-sample-small.fastq</a></li>
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223 </ul>
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224 </div><!--/.nav-collapse -->
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225 </div>
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226 </div>
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227 </div>
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228 <div class="container">
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229 <div class="featurette">
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230 <h1>Genome</h1>
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231 <p class="featurette-p">
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232 <A HREF="reads-sample-small.fastq/subgroups/bonafide_reads//bonafide_reads-genome_minus.bedgraph">bedgraph minus strand</A><br/>
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233 <A HREF="reads-sample-small.fastq/subgroups/bonafide_reads//bonafide_reads-genome_plus.bedgraph">bedgraph plus strand</A><br/>
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234 <A HREF="reads-sample-small.fastq/subgroups/bonafide_reads//bonafide_reads-genome_sorted.bam">genome mappers (sorted bam)</A><br/>
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235 <A HREF="reads-sample-small.fastq/subgroups/bonafide_reads//bonafide_reads-genome_unique_minus.bedgraph">bedgraph unique minus strand</A><br/>
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236 <A HREF="reads-sample-small.fastq/subgroups/bonafide_reads//bonafide_reads-genome_unique_plus.bedgraph">bedgraph unique plus strand</A><br/>
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237 <A HREF="reads-sample-small.fastq/subgroups/bonafide_reads//bonafide_reads-genome_unique_sorted.bam">genome unique mappers (sorted bam)</A><br/>
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238
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239 </p>
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240 </div>
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241 </div>
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242
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243 <div id="page">
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244 <div id="container">
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245 <div class="each-gallery">
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246 <div id="gallery" class="content">
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247 <div id="controls0" class="controls"></div>
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248 <div class="slideshow-container">
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249 <div id="loading0" class="loader"></div>
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250 <div id="slideshow0" class="slideshow"></div>
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251 </div>
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252 <div id="caption0" class="caption-container">Uniquely mapped reads</div>
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253 </div>
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254 <div id="thumbs0" class="navigation">
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255 <input type="text" id="myInput0" onkeyup="search(this)" placeholder="Search for names...">
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256 <ul class="thumbs noscript">
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257
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258 <li>
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259 <a class="thumb" href="reads-sample-small.fastq/subgroups/bonafide_reads//Gviz_genome/unique/chrom_1.png" title="chrom_1">chrom_1</a>
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260 </li>
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261
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262 <li>
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263 <a class="thumb" href="reads-sample-small.fastq/subgroups/bonafide_reads//Gviz_genome/unique/chrom_2.png" title="chrom_2">chrom_2</a>
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264 </li>
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265
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266 <li>
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267 <a class="thumb" href="reads-sample-small.fastq/subgroups/bonafide_reads//Gviz_genome/unique/chrom_4.png" title="chrom_4">chrom_4</a>
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268 </li>
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269
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270 <li>
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271 <a class="thumb" href="reads-sample-small.fastq/subgroups/bonafide_reads//Gviz_genome/unique/chrom_5.png" title="chrom_5">chrom_5</a>
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272 </li>
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273
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274 <li>
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275 <a class="thumb" href="reads-sample-small.fastq/subgroups/bonafide_reads//Gviz_genome/unique/chrom_6.png" title="chrom_6">chrom_6</a>
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276 </li>
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277
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278 </ul>
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279 </div>
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280 </div>
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281 <div id="page">
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282 <div id="container">
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283 <div class="each-gallery">
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284 <div id="gallery" class="content">
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285 <div id="controls1" class="controls"></div>
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286 <div class="slideshow-container">
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287 <div id="loading1" class="loader"></div>
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288 <div id="slideshow1" class="slideshow"></div>
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289 </div>
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290 <div id="caption1" class="caption-container">Reads randomly assigned</div>
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291 </div>
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292 <div id="thumbs1" class="navigation">
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293 <input type="text" id="myInput1" onkeyup="search(this)" placeholder="Search for names...">
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294 <ul class="thumbs noscript">
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295
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296 <li>
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297 <a class="thumb" href="reads-sample-small.fastq/subgroups/bonafide_reads//Gviz_genome/rand/chrom_1.png" title="chrom_1">chrom_1</a>
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298 </li>
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299
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300 <li>
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301 <a class="thumb" href="reads-sample-small.fastq/subgroups/bonafide_reads//Gviz_genome/rand/chrom_2.png" title="chrom_2">chrom_2</a>
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302 </li>
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303
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304 <li>
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305 <a class="thumb" href="reads-sample-small.fastq/subgroups/bonafide_reads//Gviz_genome/rand/chrom_4.png" title="chrom_4">chrom_4</a>
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306 </li>
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307
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308 <li>
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309 <a class="thumb" href="reads-sample-small.fastq/subgroups/bonafide_reads//Gviz_genome/rand/chrom_5.png" title="chrom_5">chrom_5</a>
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310 </li>
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311
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312 <li>
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313 <a class="thumb" href="reads-sample-small.fastq/subgroups/bonafide_reads//Gviz_genome/rand/chrom_6.png" title="chrom_6">chrom_6</a>
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314 </li>
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315
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316 </ul>
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317 </div>
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318 <div style="clear: both;"></div></div>
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319 </div>
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320 </div>
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321
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322 <!-- FOOTER -->
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323 <div class="container">
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324 <footer>
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325
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326 </footer>
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327 </div>
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328 <!-- Le javascript
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329 ================================================== -->
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330 <!-- Placed at the end of the document so the pages load faster -->
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331 <script type="text/javascript" src="js/filter.js"></script>
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332 <script type="text/javascript" src="js/jquery.js"></script>
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333 <script type="text/javascript" src="js/jquery-1.3.2.js"></script>
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334 <script type="text/javascript" src="js/jquery.galleriffic.js"></script>
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335 <script type="text/javascript" src="js/jquery.opacityrollover.js"></script>
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336 <script type="text/javascript" src="js/bootstrap-table.js"></script>
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337 <script type="text/javascript" src="js/bootstrap.min.js"></script>
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338 <script type="text/javascript">
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339 jQuery(document).ready(function($) {
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340 // We only want these styles applied when javascript is enabled
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341 $('div.navigation').css({'width' : '300px', 'float' : 'left'});
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342 $('div.content').css('display', 'block');
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343
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344 $(".each-gallery").each(function(i){
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345 // Initially set opacity on thumbs and add
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346 // additional styling for hover effect on thumbs
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347 var onMouseOutOpacity = 0.67;
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348 $('#thumbs + i + ul.thumbs li').opacityrollover({
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349 mouseOutOpacity: onMouseOutOpacity,
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350 mouseOverOpacity: 1.0,
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351 fadeSpeed: 'fast',
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352 exemptionSelector: '.selected'
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353 });
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354
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355 // Initialize Advanced Galleriffic Gallery
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356 var gallery = $('#thumbs'+i).galleriffic({
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357 delay: 2500,
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358 numThumbs: 22,
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359 preloadAhead: 10,
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360 enableTopPager: true,
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361 enableBottomPager: true,
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362 maxPagesToShow: 7,
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363 imageContainerSel: '#slideshow'+ i,
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364 controlsContainerSel: '#controls' + i,
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365 captionContainerSel: '#caption' + i,
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366 loadingContainerSel: '#loading' + i,
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367 renderSSControls: true,
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368 renderNavControls: true,
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369 playLinkText: 'Play',
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370 pauseLinkText: 'Pause',
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371 prevLinkText: '‹ Previous',
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372 nextLinkText: 'Next ›',
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373 nextPageLinkText: 'Next ›',
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374 prevPageLinkText: '‹ Prev',
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375 enableHistory: false,
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376 autoStart: false,
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377 syncTransitions: true,
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378 defaultTransitionDuration: 900,
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379 onSlideChange: function(prevIndex, nextIndex) {
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380 // 'this' refers to the gallery, which is an extension of $('#thumbs')
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381 this.find('ul.thumbs').children()
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382 .eq(prevIndex).fadeTo('fast', onMouseOutOpacity).end()
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383 .eq(nextIndex).fadeTo('fast', 1.0);
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384 },
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385 onPageTransitionOut: function(callback) {
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386 this.fadeTo('fast', 0.0, callback);
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387 },
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388 onPageTransitionIn: function() {
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389 this.fadeTo('fast', 1.0);
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390 }
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391 });
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392 });
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393 });
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394 </script>
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395 </body>
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396 </html>
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397 |
