Mercurial > repos > jankanis > blast2html

annotate blast2html.html.jinja @ 113:5d3840a1635e

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adjust header size
author Jan Kanis <jan.code@jankanis.nl>
date Wed, 09 Jul 2014 15:19:53 +0200
parents 4c154760deba
children 0c2a03f9740b
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73
67b1a319c6dc First go at 2.6 compatibility
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1 {# -*- coding: utf-8 -*- #}
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2 <!DOCTYPE html>
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3 <html>
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4 <head>
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5 <meta charset="UTF-8">
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6 <meta name=generator content="blast2html; see https://github.com/thehyve/blast2html/">
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7
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8 <title>Blast output</title>
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9
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10 <style>
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11 body {
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12 color: #333333;
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13 font-family: Arial,Sans-Serif;
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14 }
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16 :link {
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17 color: #336699;
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18 }
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19
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20 .right {
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21 float: right;
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22 }
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23
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eee23a36c582 add a warning if galaxy strips the html header/stylesheet
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24 /* Galaxy with html sanitization enabled strips the header of this html page. If so, show the user a warning.*/
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25 #strip_html_warning {
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26 display: none;
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27 }
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28
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29 #content {
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30 margin: 0 2em;
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31 padding: 0.5em;
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32 border: 1px solid #888888;
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33 background-color: #d3dff5;
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34 }
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35
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36 h1, h2, h3, h4, h5, h6 {
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37 color: #2A6979;
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38 font-family: arial,verdana,sans-serif;
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39 letter-spacing: -1px;
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40 margin: 1.2em 0 0.3em;
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41 }
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42
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43 h1 {
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44 font-size: 200%;
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45 }
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46
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47 h2 {
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48 font-size: 150%;
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49 }
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50
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51 h1, h2 {
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52 border-bottom: 1px solid #CCCCCC;
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53 padding-bottom: 0.1em;
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54 }
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55
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56 h3 {
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57 font-size: 120%;
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58 font-weight: bold;
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59 }
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60
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61 h5.darkHeader {
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62 color: #4D4D4D;
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63 letter-spacing: 0;
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64 font-weight: bold;
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65 font-size: 108%;
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66 }
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68 #nodata {
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69 font-weight: bold;
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70 }
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72 .index {
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73 margin-bottom: 3em;
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74 }
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75 .index div.indexentry {
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76 margin: 1.2em 1.6em;
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77 font-weight: bold;
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78 font-size: 100%;
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79 }
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80
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81 .headerdata {
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82 font-size: 90%;
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83 }
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84 .headerdata .param {
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85 font-weight: bold;
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86 text-align: right;
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87 padding: 0 1em;
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88 }
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89
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90 .grey {
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91 background-color: #eeeeee;
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92 border: 1px solid #cccccc;
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93 padding: 1em;
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94 }
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95
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96 .white {
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97 background-color: white;
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98 border: 1px solid #cccccc;
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99 padding: 1.5em 2%;
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100 }
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101
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102 .graphicrow {
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103 clear: left;
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104 width: 100%;
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105 }
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106
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107 .graphicitem {
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108 float: left;
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109 }
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110
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112
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113 .graphics .grey {
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114 text-align: center;
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115 }
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116
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117 .graphic {
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118 background-color: white;
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119 border: 2px solid black;
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120 padding: 1.5em;
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121 margin: auto;
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122 }
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123
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124 .centered, .defline, div.legend, div.tablewrapper {
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125 margin-left: auto;
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126 margin-right: auto;
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127 }
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128
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129 .defline {
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130 background-color: white;
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131 border: 1px solid black;
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132 margin: .5em auto;
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133 padding-left: .2em;
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134 padding-right: .2em;
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135 max-width: 50em;
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136 text-align: left;
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137 height: 2.8em;
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138 overflow: hidden;
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139 }
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140
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141 div.legend {
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142 max-width: 40em;
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143 }
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144 div.legend div {
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145 width: 100%;
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146 color: white;
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147 font-weight: bold;
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148 border-spacing: 0;
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149 }
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150 div.legend div .graphicitem {
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151 width: 20%;
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152 padding: 0;
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153 margin: 0;
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154 border: none;
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155 }
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parents:
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156
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157 div.tablewrapper {
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158 width: 50%;
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159 min-width: 60em;
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160 }
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161
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162 /* For small widths we give the graphic 100% */
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163 @media (max-width: 72.5em) {
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164 div.tablewrapper {
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165 width: 100%;
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166 min-width: 0px;
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167 }
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parents: 6
diff changeset
168 }
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169
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170 .scale {
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171 width: 100%;
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172 margin: .5em 0;
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173 font-weight: bold;
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174 }
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175 .scale div {
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176 color: red;
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177 text-align: left;
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178 }
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179 .scale .graphicrow {
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180 margin: .5em 0 .5em 0;
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181 color: white;
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182 }
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183 .scale .graphicitem {
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184 position: relative;
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185 }
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186 .scale .graphicitem div {
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187 margin: 0 1px;
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188 padding: 0 2px;
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189 text-align: right;
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190 background-color: red;
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191 color: white;
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192 }
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193 .scale .graphicitem:first-child div {
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194 margin-left: 0px;
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195 }
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196 .scale .graphicitem:last-child div {
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197 margin-right: 0px;
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198 }
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199 .scale .graphicitem .lastlabel {
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200 position: absolute;
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201 top: 0px;
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202 left: 100%;
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203 background-color: transparent;
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204 color: red;
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205 }
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206
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207 a.matchresult {
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208 display: block;
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209 margin: 0;
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210 padding: 0;
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211 }
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212 div.matchrow {
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213 margin-top: 4px;
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214 }
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215 div.matchrow, div.matchitem {
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216 height: 4px;
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217 }
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218
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219
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220 table.descriptiontable {
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221 font-size: 85%;
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222 border: 1px solid #97b0c8;
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223 border-spacing: 0;
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224 color: #222222;
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225 line-height: 1.3em;
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226 background-color: white;
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227 }
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228 table.descriptiontable col:first-child {
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229 width: 100%;
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230 }
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231 table.descriptiontable tr:hover {
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232 background-color: #D5DEE3;
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233 }
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234 table.descriptiontable th {
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235 color: #14376C;
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236 font-weight: normal;
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237 background-color: #F0F0F0;
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238 background: linear-gradient(#FFFFFF, #F0F0F0);
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239 border-bottom: 1px solid #D4DFE9;
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240 border-right: 1px solid #CFCFCF;
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241 border-left: 0px solid black;
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242 border-top: 0px solid black;
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243 }
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244 table.descriptiontable td {
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245 overflow: hidden;
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246 text-align: center;
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247 padding: .4em .8em;
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248 }
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249 table.descriptiontable td div {
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250 width: 1em;
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251 overflow: visible;
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252 white-space: nowrap;
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253 text-align: left;
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254 }
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255
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256
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257
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258 .alignments .white {
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259 padding: 1.5em 1em;
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260 }
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261
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262 .alignment {
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263 border-top: 1px solid black;
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264 padding-left: 1em;
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265 padding-right: 1em;
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266 }
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267
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268 div.linkheader {
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269 padding-top: .2em;
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270 font-size: 85%;
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271 color: #14376C;
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272 }
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273 div.linkheader a.linkheader {
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274 margin-right: 1em;
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275 }
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276 div.linkheader .right a {
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277 text-decoration: none;
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278 }
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279
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280 .title .hittitle {
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281 color: #222222;
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282 margin-bottom: .3em;
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diff changeset
283 }
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284 .title .titleinfo {
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285 font-size: 80%;
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286 margin-top: 0;
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287 margin-bottom: .3em;
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diff changeset
288 }
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diff changeset
289 .title .titleinfo .b {
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diff changeset
290 color: #606060;
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diff changeset
291 font-weight: bold;
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292 font-size: 90%;
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parents: 10
diff changeset
293 }
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294
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diff changeset
295 .moretitles {
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diff changeset
296 margin: 1.2em;
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diff changeset
297 }
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diff changeset
298 .moretitles .titleinfo {
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diff changeset
299 margin: 0;
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300 padding: 0;
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301 }
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parents: 10
diff changeset
302 .moretitles .hittitle {
12
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diff changeset
303 margin: .4em 0 .2em 0;
11
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diff changeset
304 padding: 0;
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diff changeset
305 }
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diff changeset
306
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diff changeset
307 a.showmoretitles {
12
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diff changeset
308 font-size: 75%;
11
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diff changeset
309 color: #336699;
12
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diff changeset
310 font-weight: bold;
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diff changeset
311 margin-top: 0;
11
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diff changeset
312 }
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Jan Kanis <jan.code@jankanis.nl>
parents: 10
diff changeset
313 a.showmoretitles:hover {
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parents: 10
diff changeset
314 }
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Jan Kanis <jan.code@jankanis.nl>
parents: 10
diff changeset
315
7660519f2dc9 proper layout for alignments, added some links
Jan Kanis <jan.code@jankanis.nl>
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diff changeset
316 .hotspot {
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parents: 10
diff changeset
317 color: #606060;
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diff changeset
318 font-family: verdana, arial, sans-serif;
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diff changeset
319 margin-bottom: 2.5em;
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parents: 10
diff changeset
320 }
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Jan Kanis <jan.code@jankanis.nl>
parents: 10
diff changeset
321
12
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diff changeset
322 .hotspot p.range {
11
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diff changeset
323 font-size: 70%;
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parents: 10
diff changeset
324 margin-top: 0;
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Jan Kanis <jan.code@jankanis.nl>
parents: 10
diff changeset
325 margin-top: 1em;
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Jan Kanis <jan.code@jankanis.nl>
parents: 10
diff changeset
326 margin-bottom: .2em;
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parents: 10
diff changeset
327 }
12
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diff changeset
328 .hotspot p.range span.range {
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329 font-weight: bold;
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parents: 11
diff changeset
330 }
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parents: 11
diff changeset
331 .hotspot p.range a.range {
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diff changeset
332 margin-left: .5em;
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diff changeset
333 }
11
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parents: 10
diff changeset
334
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parents: 10
diff changeset
335 table.hotspotstable {
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diff changeset
336 border-top: 1px solid;
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parents: 10
diff changeset
337 border-bottom: 1px solid;
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diff changeset
338 text-align: left;
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diff changeset
339 border-collapse: collapse;
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diff changeset
340 }
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Jan Kanis <jan.code@jankanis.nl>
parents: 10
diff changeset
341 table.hotspotstable th, table.hotspotstable td {
7660519f2dc9 proper layout for alignments, added some links
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diff changeset
342 padding: .1em 1em;
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Jan Kanis <jan.code@jankanis.nl>
parents: 10
diff changeset
343 }
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Jan Kanis <jan.code@jankanis.nl>
parents: 10
diff changeset
344 table.hotspotstable th {
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parents: 10
diff changeset
345 font-size: 70%;
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diff changeset
346 }
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diff changeset
347 table.hotspotstable td {
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diff changeset
348 min-width: 7em;
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diff changeset
349 color: #222222;
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diff changeset
350 font-size: 80%;
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parents: 10
diff changeset
351 }
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Jan Kanis <jan.code@jankanis.nl>
parents: 10
diff changeset
352
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diff changeset
353 pre.alignmentgraphic {
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diff changeset
354 color: #222222;
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Jan Kanis <jan.code@jankanis.nl>
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diff changeset
355 }
7660519f2dc9 proper layout for alignments, added some links
Jan Kanis <jan.code@jankanis.nl>
parents: 10
diff changeset
356
23
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diff changeset
357 footer {
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diff changeset
358 text-align: center;
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parents: 22
diff changeset
359 color: #cccccc;
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parents: 22
diff changeset
360 font-size: 70%;
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Jan Kanis <jan.code@jankanis.nl>
parents: 22
diff changeset
361 margin-top: 1em;
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Jan Kanis <jan.code@jankanis.nl>
parents: 22
diff changeset
362 }
6995a6f34f3f fix sectioning, add footer
Jan Kanis <jan.code@jankanis.nl>
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diff changeset
363 footer :link {
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parents: 22
diff changeset
364 color: #5588cc;
6995a6f34f3f fix sectioning, add footer
Jan Kanis <jan.code@jankanis.nl>
parents: 22
diff changeset
365 }
11
7660519f2dc9 proper layout for alignments, added some links
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parents: 10
diff changeset
366
5
1df2bfce5c24 first features are working, partial match table
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parents:
diff changeset
367 </style>
1df2bfce5c24 first features are working, partial match table
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parents:
diff changeset
368
10
2fbdf2eb27b4 All data is displayed now, still some formatting to do
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parents: 9
diff changeset
369 <script type="text/javascript">
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diff changeset
370 function toggle_visibility(id) {
16
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diff changeset
371 var e = document.getElementById(id);
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parents: 13
diff changeset
372 if(e.style.display != 'block')
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diff changeset
373 e.style.display = 'block';
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diff changeset
374 else
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parents: 13
diff changeset
375 e.style.display = 'none';
10
2fbdf2eb27b4 All data is displayed now, still some formatting to do
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diff changeset
376 }
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parents: 9
diff changeset
377 </script>
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Jan Kanis <jan.code@jankanis.nl>
parents: 9
diff changeset
378
5
1df2bfce5c24 first features are working, partial match table
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parents:
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379 </head>
1df2bfce5c24 first features are working, partial match table
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parents:
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380
11
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diff changeset
381
5
1df2bfce5c24 first features are working, partial match table
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382 <body>
27
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parents: 26
diff changeset
383
4e6ac737ba17 improve the galaxy html stripping warning; make sure the tool can find the template from within galaxy
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diff changeset
384 <div id="strip_html_warning">
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Jan Kanis <jan.code@jankanis.nl>
parents: 26
diff changeset
385 <!-- This div should be hidden by the header css block. Galaxy
4e6ac737ba17 improve the galaxy html stripping warning; make sure the tool can find the template from within galaxy
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parents: 26
diff changeset
386 strips all css, breaking this page but making this warning
4e6ac737ba17 improve the galaxy html stripping warning; make sure the tool can find the template from within galaxy
Jan Kanis <jan.code@jankanis.nl>
parents: 26
diff changeset
387 visible. This warning contains some ugly old skool tabular html
4e6ac737ba17 improve the galaxy html stripping warning; make sure the tool can find the template from within galaxy
Jan Kanis <jan.code@jankanis.nl>
parents: 26
diff changeset
388 layout that is not stripped. -->
4e6ac737ba17 improve the galaxy html stripping warning; make sure the tool can find the template from within galaxy
Jan Kanis <jan.code@jankanis.nl>
parents: 26
diff changeset
389 <table bgcolor="#FFE5C9"><tr><td><font color="red"><b>
4e6ac737ba17 improve the galaxy html stripping warning; make sure the tool can find the template from within galaxy
Jan Kanis <jan.code@jankanis.nl>
parents: 26
diff changeset
390 <font size=5><center>This html page seems to have been stripped by Galaxy.</center></font>
4e6ac737ba17 improve the galaxy html stripping warning; make sure the tool can find the template from within galaxy
Jan Kanis <jan.code@jankanis.nl>
parents: 26
diff changeset
391 Disable Galaxy's html sanitization feature to view the full page (see <font face=monospace>sanitize_all_html</font> in your galaxy's universe_wsgi.ini), or download this page instead of viewing it in Galaxy.
4e6ac737ba17 improve the galaxy html stripping warning; make sure the tool can find the template from within galaxy
Jan Kanis <jan.code@jankanis.nl>
parents: 26
diff changeset
392 </b></font></td></tr></table>
26
eee23a36c582 add a warning if galaxy strips the html header/stylesheet
Jan Kanis <jan.code@jankanis.nl>
parents: 24
diff changeset
393 </div>
eee23a36c582 add a warning if galaxy strips the html header/stylesheet
Jan Kanis <jan.code@jankanis.nl>
parents: 24
diff changeset
394
5
1df2bfce5c24 first features are working, partial match table
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parents:
diff changeset
395 <div id=content>
1df2bfce5c24 first features are working, partial match table
Jan Kanis <jan.code@jankanis.nl>
parents:
diff changeset
396
110
e17aae23cc1c report query parameters for each query
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parents: 96
diff changeset
397 <section class=header>
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Jan Kanis <jan.code@jankanis.nl>
parents: 96
diff changeset
398
e17aae23cc1c report query parameters for each query
Jan Kanis <jan.code@jankanis.nl>
parents: 96
diff changeset
399 <h1>Nucleotide Blast results</h1>
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parents: 96
diff changeset
400
e17aae23cc1c report query parameters for each query
Jan Kanis <jan.code@jankanis.nl>
parents: 96
diff changeset
401 <table class=headerdata>
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Jan Kanis <jan.code@jankanis.nl>
parents: 96
diff changeset
402 {% for param, value in params %}
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Jan Kanis <jan.code@jankanis.nl>
parents: 96
diff changeset
403 <tr><td class=param>{{param}}:</td><td>{{value}}</td></tr>
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parents: 96
diff changeset
404 {% endfor %}
e17aae23cc1c report query parameters for each query
Jan Kanis <jan.code@jankanis.nl>
parents: 96
diff changeset
405 </table>
e17aae23cc1c report query parameters for each query
Jan Kanis <jan.code@jankanis.nl>
parents: 96
diff changeset
406
e17aae23cc1c report query parameters for each query
Jan Kanis <jan.code@jankanis.nl>
parents: 96
diff changeset
407 </section>
e17aae23cc1c report query parameters for each query
Jan Kanis <jan.code@jankanis.nl>
parents: 96
diff changeset
408
111
7aa28753d7b3 create document-wide h1 header, put other headers one size down
Jan Kanis <jan.code@jankanis.nl>
parents: 110
diff changeset
409 {% if not blast.BlastOutput_iterations.findall('Iteration') %}
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Jan Kanis <jan.code@jankanis.nl>
parents: 110
diff changeset
410 <section class=nodata>
7aa28753d7b3 create document-wide h1 header, put other headers one size down
Jan Kanis <jan.code@jankanis.nl>
parents: 110
diff changeset
411 <h2>No data</h2>
7aa28753d7b3 create document-wide h1 header, put other headers one size down
Jan Kanis <jan.code@jankanis.nl>
parents: 110
diff changeset
412 <div class=grey>
7aa28753d7b3 create document-wide h1 header, put other headers one size down
Jan Kanis <jan.code@jankanis.nl>
parents: 110
diff changeset
413 No matches
7aa28753d7b3 create document-wide h1 header, put other headers one size down
Jan Kanis <jan.code@jankanis.nl>
parents: 110
diff changeset
414 </div>
7aa28753d7b3 create document-wide h1 header, put other headers one size down
Jan Kanis <jan.code@jankanis.nl>
parents: 110
diff changeset
415 </section>
7aa28753d7b3 create document-wide h1 header, put other headers one size down
Jan Kanis <jan.code@jankanis.nl>
parents: 110
diff changeset
416
7aa28753d7b3 create document-wide h1 header, put other headers one size down
Jan Kanis <jan.code@jankanis.nl>
parents: 110
diff changeset
417 {% else %}
7aa28753d7b3 create document-wide h1 header, put other headers one size down
Jan Kanis <jan.code@jankanis.nl>
parents: 110
diff changeset
418
20
53cd304c5f26 Add index for multiple results; fix layout of query ruler for edge case
Jan Kanis <jan.code@jankanis.nl>
parents: 19
diff changeset
419 {% if blast.BlastOutput_iterations.findall('Iteration') | length > 1 %}
53cd304c5f26 Add index for multiple results; fix layout of query ruler for edge case
Jan Kanis <jan.code@jankanis.nl>
parents: 19
diff changeset
420 <section class=index>
111
7aa28753d7b3 create document-wide h1 header, put other headers one size down
Jan Kanis <jan.code@jankanis.nl>
parents: 110
diff changeset
421 <h2>Queries</h2>
20
53cd304c5f26 Add index for multiple results; fix layout of query ruler for edge case
Jan Kanis <jan.code@jankanis.nl>
parents: 19
diff changeset
422
53cd304c5f26 Add index for multiple results; fix layout of query ruler for edge case
Jan Kanis <jan.code@jankanis.nl>
parents: 19
diff changeset
423 {% for result in blast.BlastOutput_iterations.Iteration %}
53
4217bb9cf1d3 depend on python 3; fix internal links with multiple iterations
Jan Kanis <jan.code@jankanis.nl>
parents: 33
diff changeset
424 <div class=indexentry><a href="#match{{result|nodeid}}">
20
53cd304c5f26 Add index for multiple results; fix layout of query ruler for edge case
Jan Kanis <jan.code@jankanis.nl>
parents: 19
diff changeset
425 {% set hits = result|hits %}
53cd304c5f26 Add index for multiple results; fix layout of query ruler for edge case
Jan Kanis <jan.code@jankanis.nl>
parents: 19
diff changeset
426 {{result['Iteration_query-ID']}}: {{result['Iteration_query-def']}}
53cd304c5f26 Add index for multiple results; fix layout of query ruler for edge case
Jan Kanis <jan.code@jankanis.nl>
parents: 19
diff changeset
427 ({{result|len}} letters, {{hits|length}} hits)
53cd304c5f26 Add index for multiple results; fix layout of query ruler for edge case
Jan Kanis <jan.code@jankanis.nl>
parents: 19
diff changeset
428 </a></div>
53cd304c5f26 Add index for multiple results; fix layout of query ruler for edge case
Jan Kanis <jan.code@jankanis.nl>
parents: 19
diff changeset
429 {% endfor %}
21
9596fea636bb style changes
Jan Kanis <jan.code@jankanis.nl>
parents: 20
diff changeset
430
20
53cd304c5f26 Add index for multiple results; fix layout of query ruler for edge case
Jan Kanis <jan.code@jankanis.nl>
parents: 19
diff changeset
431 </section>
53cd304c5f26 Add index for multiple results; fix layout of query ruler for edge case
Jan Kanis <jan.code@jankanis.nl>
parents: 19
diff changeset
432 {% endif %}
53cd304c5f26 Add index for multiple results; fix layout of query ruler for edge case
Jan Kanis <jan.code@jankanis.nl>
parents: 19
diff changeset
433
19
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
434 {% for result in blast.BlastOutput_iterations.Iteration %}
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
435
53
4217bb9cf1d3 depend on python 3; fix internal links with multiple iterations
Jan Kanis <jan.code@jankanis.nl>
parents: 33
diff changeset
436 <section class=match id=match{{result|nodeid}}>
10
2fbdf2eb27b4 All data is displayed now, still some formatting to do
Jan Kanis <jan.code@jankanis.nl>
parents: 9
diff changeset
437
111
7aa28753d7b3 create document-wide h1 header, put other headers one size down
Jan Kanis <jan.code@jankanis.nl>
parents: 110
diff changeset
438 <h2>Nucleotide Sequence ({{result|len}} letters)</h2>
19
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
439
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
440 <section class=header>
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
441
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
442 <table class=headerdata>
110
e17aae23cc1c report query parameters for each query
Jan Kanis <jan.code@jankanis.nl>
parents: 96
diff changeset
443 {% for param, value in result|params %}
23
6995a6f34f3f fix sectioning, add footer
Jan Kanis <jan.code@jankanis.nl>
parents: 22
diff changeset
444 <tr><td class=param>{{param}}:</td><td>{{value}}</td></tr>
19
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
445 {% endfor %}
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
446 </table>
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
447
67ddcb807b7d make it work with multiple queries
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448 </section>
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449
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diff changeset
450 {% set hits = result|hits %}
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451 {% if not hits %}
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452 <section>
111
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453 <h3>No Hits</h3>
19
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454 <div class=grey>
24
c8347745bbad use Iteration_message tag; also work with unexpected Hit_id values
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diff changeset
455 <table class=headerdata>
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456 <tr><td class=param>Message:</td><td>{{result.Iteration_message}}</td></tr>
c8347745bbad use Iteration_message tag; also work with unexpected Hit_id values
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diff changeset
457 </table>
19
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diff changeset
458 </div>
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diff changeset
459 </section>
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diff changeset
460 {% else %}
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461
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diff changeset
462 <section class=graphics>
111
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diff changeset
463 <h3>Graphic Summary</h3>
19
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diff changeset
464
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diff changeset
465 <div class=grey>
111
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diff changeset
466 <h4 class=centered>Distribution of {{result|length}} Blast Hits on the Query Sequence</h4>
19
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diff changeset
467
53
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468 <div class=defline id=defline{{result|nodeid}}>
19
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diff changeset
469 Mouse-over to show defline and scores, click to show alignments
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diff changeset
470 </div>
5
1df2bfce5c24 first features are working, partial match table
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471
19
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diff changeset
472 <div class=graphic>
111
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Jan Kanis <jan.code@jankanis.nl>
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diff changeset
473 <h5 class=darkHeader>Color key for alignment scores</h5>
19
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diff changeset
474 <div class=legend><div class=graphicrow>
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475 <div class=graphicitem style="background-color: {{colors[0]}}">&lt;40</div>
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476 <div class=graphicitem style="background-color: {{colors[1]}}">40–50</div>
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477 <div class=graphicitem style="background-color: {{colors[2]}}">50–80</div>
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478 <div class=graphicitem style="background-color: {{colors[3]}}">80–200</div>
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479 <div class=graphicitem style="background-color: {{colors[4]}}">200≤</div>
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diff changeset
480 </div></div>
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diff changeset
481 <div style="clear: left"></div>
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482
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diff changeset
483 <div class=tablewrapper>
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484
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485 <div class=scale>
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486 <div>query:</div>
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487 <div class=graphicrow>
20
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diff changeset
488 <div>
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diff changeset
489 {% for s in result|queryscale %}
76
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490 <div class=graphicitem style="width: {{s.width|numfmt}}%">
20
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491 {% if s.width > 3.0 %}
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492 <div>{{s.label}}</div>
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diff changeset
493 {% else %}
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494 <div>&nbsp;</div>
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495 <div class=lastlabel>{{s.label}}</div>
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496 {% endif %}
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diff changeset
497 </div>
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498 {% endfor %}
19
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diff changeset
499 </div>
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diff changeset
500 </div>
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diff changeset
501 <div style="clear: left"></div>
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diff changeset
502 </div>
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Jan Kanis <jan.code@jankanis.nl>
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diff changeset
503
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Jan Kanis <jan.code@jankanis.nl>
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diff changeset
504 {% for line in result|match_colors %}
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Jan Kanis <jan.code@jankanis.nl>
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diff changeset
505 <a class=matchresult
53
4217bb9cf1d3 depend on python 3; fix internal links with multiple iterations
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506 href="#hit{{line.hit|nodeid}}"
4217bb9cf1d3 depend on python 3; fix internal links with multiple iterations
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diff changeset
507 onmouseover='document.getElementById("defline{{result|nodeid}}").innerHTML="{{line.defline|js_string_escape}}"'
4217bb9cf1d3 depend on python 3; fix internal links with multiple iterations
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diff changeset
508 onmouseout='document.getElementById("defline{{result|nodeid}}").innerHTML="Mouse-over to show defline and scores, click to show alignments"'
19
67ddcb807b7d make it work with multiple queries
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diff changeset
509 title="{{line.defline}}">
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
510 <div class="matchrow graphicrow">
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diff changeset
511 {% for hit in line.colors %}
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diff changeset
512 <div class="matchitem graphicitem"
76
7d0d46168fd5 Format all numbers in a predictable way
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diff changeset
513 style="background-color: {{hit[1]}}; width: {{hit[0]|numfmt}}%"></div>
19
67ddcb807b7d make it work with multiple queries
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diff changeset
514 {% endfor %}
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diff changeset
515 </div>
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diff changeset
516 </a>
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diff changeset
517
67ddcb807b7d make it work with multiple queries
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518 {% endfor %}
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diff changeset
519 </div>
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diff changeset
520 </div>
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diff changeset
521 </div>
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diff changeset
522 </section>
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diff changeset
523
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
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diff changeset
524
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Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
525
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diff changeset
526 <section class=descriptions>
111
7aa28753d7b3 create document-wide h1 header, put other headers one size down
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diff changeset
527 <h3>Descriptions</h3>
19
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parents: 17
diff changeset
528
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
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diff changeset
529 <div class=grey><div class=white>
111
7aa28753d7b3 create document-wide h1 header, put other headers one size down
Jan Kanis <jan.code@jankanis.nl>
parents: 110
diff changeset
530 <h5 class=darkHeader>Sequences producing significant alignments:</h5>
10
2fbdf2eb27b4 All data is displayed now, still some formatting to do
Jan Kanis <jan.code@jankanis.nl>
parents: 9
diff changeset
531
19
67ddcb807b7d make it work with multiple queries
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parents: 17
diff changeset
532 <table class=descriptiontable>
67ddcb807b7d make it work with multiple queries
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diff changeset
533 <col/><col/><col/><col/><col/><col/><col/>
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diff changeset
534 <tr>
67ddcb807b7d make it work with multiple queries
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diff changeset
535 <th>Description</th>
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diff changeset
536 <th>Max score</th>
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
537 <th>Total score</th>
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
538 <th>Query cover</th>
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
539 <th>E value</th>
67ddcb807b7d make it work with multiple queries
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parents: 17
diff changeset
540 <th>Ident</th>
67ddcb807b7d make it work with multiple queries
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parents: 17
diff changeset
541 <th>Accession</th>
67ddcb807b7d make it work with multiple queries
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parents: 17
diff changeset
542 </tr>
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
543 {% for hit in result|hit_info %}
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
544 <tr>
53
4217bb9cf1d3 depend on python 3; fix internal links with multiple iterations
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diff changeset
545 <td><div><a href="#hit{{hit.hit|nodeid}}"
19
67ddcb807b7d make it work with multiple queries
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parents: 17
diff changeset
546 title="{{hit.title}}"
53
4217bb9cf1d3 depend on python 3; fix internal links with multiple iterations
Jan Kanis <jan.code@jankanis.nl>
parents: 33
diff changeset
547 id="description{{hit.hit|nodeid}}">
19
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
548 {{hit.title}}
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
549 </a></div></td>
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
550 <td>{{hit.maxscore}}</td>
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
551 <td>{{hit.totalscore}}</td>
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Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
552 <td>{{hit.cover}}</td>
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
553 <td>{{hit.e_value}}</td>
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Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
554 <td>{{hit.ident}}</td>
95
4378d11f0ed7 implement configurable gene bank links
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parents: 76
diff changeset
555 <td>{{hit.hit|genelink(hit.hit.Hit_accession)}}</td>
19
67ddcb807b7d make it work with multiple queries
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parents: 17
diff changeset
556 </tr>
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parents: 17
diff changeset
557 {% endfor %}
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parents: 17
diff changeset
558 </table>
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
559
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
560 </div></div>
67ddcb807b7d make it work with multiple queries
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parents: 17
diff changeset
561 </section>
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Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
562
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
563
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
564
67ddcb807b7d make it work with multiple queries
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parents: 17
diff changeset
565 <section class=alignments>
111
7aa28753d7b3 create document-wide h1 header, put other headers one size down
Jan Kanis <jan.code@jankanis.nl>
parents: 110
diff changeset
566 <h3>Alignments</h3>
19
67ddcb807b7d make it work with multiple queries
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parents: 17
diff changeset
567
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
568 <div class=grey><div class=white>
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
569 {% for hit in hits %}
53
4217bb9cf1d3 depend on python 3; fix internal links with multiple iterations
Jan Kanis <jan.code@jankanis.nl>
parents: 33
diff changeset
570 <div class=alignment id=hit{{hit|nodeid}}>
19
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
571
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
572 <div class=linkheader>
53
4217bb9cf1d3 depend on python 3; fix internal links with multiple iterations
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parents: 33
diff changeset
573 <div class=right><a href="#description{{hit|nodeid}}">Descriptions</a></div>
95
4378d11f0ed7 implement configurable gene bank links
Jan Kanis <jan.code@jankanis.nl>
parents: 76
diff changeset
574 {{ hit|genelink('Gene Bank', clas='linkheader', display_nolink=False) }}
19
67ddcb807b7d make it work with multiple queries
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parents: 17
diff changeset
575 </div>
5
1df2bfce5c24 first features are working, partial match table
Jan Kanis <jan.code@jankanis.nl>
parents:
diff changeset
576
19
67ddcb807b7d make it work with multiple queries
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parents: 17
diff changeset
577 <div class=title>
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
578 <p class=hittitle>{{hit|firsttitle}}</p>
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
579 <p class=titleinfo>
95
4378d11f0ed7 implement configurable gene bank links
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parents: 76
diff changeset
580 <span class=b>Sequence ID:</span> {{ hit|genelink }}
19
67ddcb807b7d make it work with multiple queries
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parents: 17
diff changeset
581 <span class=b>Length:</span> {{hit.Hit_len}}
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Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
582 <span class=b>Number of Matches:</span> {{hit.Hit_hsps.Hsp|length}}
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
583 </p>
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Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
584 </div>
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
585
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
586 {% if hit|othertitles|length %}
53
4217bb9cf1d3 depend on python 3; fix internal links with multiple iterations
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parents: 33
diff changeset
587 <a class=showmoretitles onclick="toggle_visibility('moretitles{{hit|nodeid|js_string_escape}}'); return false;" href=''>
19
67ddcb807b7d make it work with multiple queries
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parents: 17
diff changeset
588 See {{hit|othertitles|length}} more title(s)
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
589 </a>
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
590
53
4217bb9cf1d3 depend on python 3; fix internal links with multiple iterations
Jan Kanis <jan.code@jankanis.nl>
parents: 33
diff changeset
591 <div class=moretitles id=moretitles{{hit|nodeid}} style="display: none">
19
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
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592 {% for title in hit|othertitles %}
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593 <div class=title>
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594 <p class=hittitle>{{title.Hit_def}}</p>
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595 <p class=titleinfo>
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596 <span class=b>Sequence ID:</span> {{ title|genelink }}
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597 </p>
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598 </div>
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599 {% endfor %}
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600 </div>
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601 {% endif %}
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602
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603 {% for hsp in hit.Hit_hsps.Hsp %}
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604 <div class=hotspot id=hotspot{{hsp|nodeid}}>
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605 <p class=range>
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606 <span class=range>Range {{hsp.Hsp_num}}: {{hsp['Hsp_hit-from']}} to {{hsp['Hsp_hit-to']}}</span>
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607 </p>
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608
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609 <table class=hotspotstable>
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610 <tr>
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611 <th>Score</th><th>Expect</th><th>Identities</th><th>Gaps</th><th>Strand</th>
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612 </tr>
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613 <tr>
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614 <td>{{hsp['Hsp_bit-score']|fmt('.1f')}} bits({{hsp.Hsp_score}})</td>
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615 <td>{{hsp.Hsp_evalue|fmt('.1f')}}</td>
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616 <td>{{ hsp.Hsp_identity }}/{{ hsp|len }}({{
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617 ((hsp.Hsp_identity|float)/hsp|len) | fmt('.0%') }})</td>
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618 <td>{{ hsp.Hsp_gaps }}/{{ hsp|len
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619 }}({{ ((hsp.Hsp_gaps|float) / hsp|len) | fmt('.0%') }})</td>
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620 <td>{{ hsp['Hsp_query-frame']|asframe }}/{{ hsp['Hsp_hit-frame']|asframe }}</td>
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621 </tr>
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622 </table>
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623
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624 {% for alignment_line in hsp|alignment_pre %}
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625 <pre class=alignmentgraphic>{{alignment_line}}</pre>
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626 {% endfor %}
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627 </div>
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628 {% endfor %}
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629
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630 </div>
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631
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632 {% endfor %}
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633 </div></div>
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634 </section>
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635 {% endif %}
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636 </section>
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637 {% endfor %}
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638 {% endif %}
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639
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640 </div>
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641
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642 <footer>
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643 This page was generated by <a href="https://github.com/thehyve/blast2html/">blast2html</a>.
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644 </footer>
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645 </body>
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646 </html>
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647
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648 {#
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649 Local Variables:
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650 tab-width: 2
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651 indent-tabs-mode: nil
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652 End:
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653 #}