Mercurial > repos > jankanis > blast2html

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author Jan Kanis <jan.code@jankanis.nl>
date Thu, 23 Jul 2015 12:24:40 +0200
parents 0fa962dd83b4
children
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126
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1 {# -*- coding: utf-8 -*-
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2
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3 Copyright The Hyve B.V. 2014-2015
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4 License: GPL version 3 or (at your option) any higher version
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5 #}
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6 <!DOCTYPE html>
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7 <html>
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8 <head>
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9 <meta charset="UTF-8">
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10 <meta name=generator content="blast2html; see https://github.com/thehyve/blast2html/">
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12 <title>Blast output</title>
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13
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14 <style>
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15 body {
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16 color: #333333;
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17 font-family: Arial,Sans-Serif;
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18 }
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20 :link {
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21 color: #336699;
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22 }
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23
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24 .right {
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25 float: right;
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26 }
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27
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28 /* Galaxy with html sanitization enabled strips the header of this html page. If so, show the user a warning.*/
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29 #strip_html_warning {
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30 display: none;
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31 }
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32
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33 #content {
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34 margin: 0 2em;
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35 padding: 0.5em;
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36 border: 1px solid #888888;
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37 background-color: #d3dff5;
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38 }
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39
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40 h1, h2, h3, h4, h5, h6 {
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41 color: #2A6979;
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42 font-family: arial,verdana,sans-serif;
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43 letter-spacing: -1px;
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44 margin: 1.2em 0 0.3em;
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45 }
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46
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47 h1 {
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48 font-size: 200%;
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49 }
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50
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51 h2 {
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52 font-size: 150%;
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53 }
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54
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55 h1, h2 {
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56 border-bottom: 1px solid #CCCCCC;
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57 padding-bottom: 0.1em;
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58 }
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59
111
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60 h3 {
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61 font-size: 120%;
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62 font-weight: bold;
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63 }
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64
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65 h5.darkHeader {
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66 color: #4D4D4D;
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67 letter-spacing: 0;
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68 font-weight: bold;
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69 font-size: 108%;
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70 }
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72 #nodata {
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73 font-weight: bold;
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74 }
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75
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76 .index {
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77 margin-bottom: 3em;
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78 }
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79 .index div.indexentry {
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80 margin: 1.2em 1.6em;
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81 font-weight: bold;
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82 font-size: 100%;
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83 }
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84
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85 .headerdata {
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86 font-size: 90%;
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87 }
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88 .headerdata .param {
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89 font-weight: bold;
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90 text-align: right;
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91 padding: 0 1em;
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92 }
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93
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94 .grey {
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95 background-color: #eeeeee;
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96 border: 1px solid #cccccc;
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97 padding: 1em;
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98 }
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99
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100 .white {
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101 background-color: white;
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102 border: 1px solid #cccccc;
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103 padding: 1.5em 2%;
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104 }
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105
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106 .graphicrow {
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107 clear: left;
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108 width: 100%;
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109 }
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110
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111 .graphicitem {
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112 float: left;
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113 }
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116
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117 .graphics .grey {
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118 text-align: center;
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119 }
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120
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121 .graphic {
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122 background-color: white;
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123 border: 2px solid black;
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124 padding: 1.5em;
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125 margin: auto;
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126 }
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127
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128 .centered, .defline, div.legend, div.tablewrapper {
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129 margin-left: auto;
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130 margin-right: auto;
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131 }
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132
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133 .defline {
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134 background-color: white;
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135 border: 1px solid black;
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136 margin: .5em auto;
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137 padding-left: .2em;
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138 padding-right: .2em;
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139 max-width: 50em;
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140 text-align: left;
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141 height: 2.8em;
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142 overflow: hidden;
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143 }
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144
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145 div.legend {
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146 max-width: 40em;
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147 }
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148 div.legend div {
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149 width: 100%;
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150 color: white;
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151 font-weight: bold;
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152 border-spacing: 0;
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153 }
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154 div.legend div .graphicitem {
5
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155 width: 20%;
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parents:
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156 padding: 0;
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parents:
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157 margin: 0;
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parents:
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158 border: none;
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Jan Kanis <jan.code@jankanis.nl>
parents:
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159 }
1df2bfce5c24 first features are working, partial match table
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parents:
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160
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diff changeset
161 div.tablewrapper {
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162 width: 50%;
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163 min-width: 60em;
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164 }
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165
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166 /* For small widths we give the graphic 100% */
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167 @media (max-width: 72.5em) {
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diff changeset
168 div.tablewrapper {
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169 width: 100%;
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170 min-width: 0px;
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diff changeset
171 }
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parents: 6
diff changeset
172 }
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173
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174 .scale {
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175 width: 100%;
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176 margin: .5em 0;
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177 font-weight: bold;
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178 }
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179 .scale div {
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180 color: red;
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181 text-align: left;
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182 }
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183 .scale .graphicrow {
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184 margin: .5em 0 .5em 0;
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185 color: white;
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186 }
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187 .scale .graphicitem {
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188 position: relative;
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189 }
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190 .scale .graphicitem div {
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191 margin: 0 1px;
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192 padding: 0 2px;
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193 text-align: right;
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194 background-color: red;
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195 color: white;
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196 }
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197 .scale .graphicitem:first-child div {
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198 margin-left: 0px;
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199 }
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200 .scale .graphicitem:last-child div {
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201 margin-right: 0px;
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202 }
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203 .scale .graphicitem .lastlabel {
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204 position: absolute;
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205 top: 0px;
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206 left: 100%;
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207 background-color: transparent;
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208 color: red;
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209 }
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210
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211 a.matchresult {
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212 display: block;
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213 margin: 0;
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214 padding: 0;
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215 }
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216 div.matchrow {
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217 margin-top: 4px;
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218 }
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219 div.matchrow, div.matchitem {
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220 height: 4px;
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221 }
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222
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223
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224 table.descriptiontable {
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225 font-size: 85%;
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226 border: 1px solid #97b0c8;
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227 border-spacing: 0;
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228 color: #222222;
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229 line-height: 1.3em;
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230 background-color: white;
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231 }
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232 table.descriptiontable col:first-child {
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233 width: 100%;
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234 }
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235 table.descriptiontable tr:hover {
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236 background-color: #D5DEE3;
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237 }
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238 table.descriptiontable th {
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239 color: #14376C;
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240 font-weight: normal;
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diff changeset
241 background-color: #F0F0F0;
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242 background: linear-gradient(#FFFFFF, #F0F0F0);
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243 border-bottom: 1px solid #D4DFE9;
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244 border-right: 1px solid #CFCFCF;
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245 border-left: 0px solid black;
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246 border-top: 0px solid black;
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247 }
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248 table.descriptiontable td {
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249 overflow: hidden;
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250 text-align: center;
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251 padding: .4em .8em;
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252 }
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253 table.descriptiontable td div {
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254 width: 1em;
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255 overflow: visible;
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256 white-space: nowrap;
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257 text-align: left;
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258 }
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259
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260
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261
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262 .alignments .white {
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263 padding: 1.5em 1em;
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264 }
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265
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266 .alignment {
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267 border-top: 1px solid black;
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268 padding-left: 1em;
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269 padding-right: 1em;
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270 }
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271
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272 div.linkheader {
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273 padding-top: .2em;
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274 font-size: 85%;
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275 color: #14376C;
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276 }
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277 div.linkheader a.linkheader {
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278 margin-right: 1em;
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279 }
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280 div.linkheader .right a {
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281 text-decoration: none;
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282 }
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283
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284 .title .hittitle {
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285 color: #222222;
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286 margin-bottom: .3em;
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diff changeset
287 }
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288 .title .titleinfo {
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289 font-size: 80%;
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diff changeset
290 margin-top: 0;
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291 margin-bottom: .3em;
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diff changeset
292 }
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diff changeset
293 .title .titleinfo .b {
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diff changeset
294 color: #606060;
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diff changeset
295 font-weight: bold;
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diff changeset
296 font-size: 90%;
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parents: 10
diff changeset
297 }
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298
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diff changeset
299 .moretitles {
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300 margin: 1.2em;
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diff changeset
301 }
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diff changeset
302 .moretitles .titleinfo {
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303 margin: 0;
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diff changeset
304 padding: 0;
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305 }
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diff changeset
306 .moretitles .hittitle {
12
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307 margin: .4em 0 .2em 0;
11
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308 padding: 0;
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diff changeset
309 }
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310
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diff changeset
311 a.showmoretitles {
12
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312 font-size: 75%;
11
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diff changeset
313 color: #336699;
12
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diff changeset
314 font-weight: bold;
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diff changeset
315 margin-top: 0;
11
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316 }
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diff changeset
317 a.showmoretitles:hover {
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318 }
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319
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diff changeset
320 .hotspot {
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321 color: #606060;
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322 font-family: verdana, arial, sans-serif;
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323 margin-bottom: 2.5em;
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324 }
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325
12
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326 .hotspot p.range {
11
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327 font-size: 70%;
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diff changeset
328 margin-top: 0;
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diff changeset
329 margin-top: 1em;
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330 margin-bottom: .2em;
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331 }
12
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332 .hotspot p.range span.range {
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333 font-weight: bold;
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334 }
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335 .hotspot p.range a.range {
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336 margin-left: .5em;
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337 }
11
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parents: 10
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338
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diff changeset
339 table.hotspotstable {
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340 border-top: 1px solid;
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341 border-bottom: 1px solid;
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342 text-align: left;
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diff changeset
343 border-collapse: collapse;
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344 }
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diff changeset
345 table.hotspotstable th, table.hotspotstable td {
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346 padding: .1em 1em;
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347 }
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diff changeset
348 table.hotspotstable th {
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349 font-size: 70%;
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350 }
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diff changeset
351 table.hotspotstable td {
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352 min-width: 7em;
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diff changeset
353 color: #222222;
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diff changeset
354 font-size: 80%;
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diff changeset
355 }
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diff changeset
356
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diff changeset
357 pre.alignmentgraphic {
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diff changeset
358 color: #222222;
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diff changeset
359 }
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diff changeset
360
23
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diff changeset
361 footer {
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diff changeset
362 text-align: center;
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diff changeset
363 color: #cccccc;
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parents: 22
diff changeset
364 font-size: 70%;
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parents: 22
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365 margin-top: 1em;
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parents: 22
diff changeset
366 }
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diff changeset
367 footer :link {
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diff changeset
368 color: #5588cc;
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369 }
11
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370
5
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371 </style>
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372
10
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diff changeset
373 <script type="text/javascript">
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diff changeset
374 function toggle_visibility(id) {
16
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diff changeset
375 var e = document.getElementById(id);
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diff changeset
376 if(e.style.display != 'block')
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377 e.style.display = 'block';
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diff changeset
378 else
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diff changeset
379 e.style.display = 'none';
10
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380 }
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381 </script>
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382
5
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383 </head>
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384
11
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diff changeset
385
5
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386 <body>
27
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parents: 26
diff changeset
387
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diff changeset
388 <div id="strip_html_warning">
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diff changeset
389 <!-- This div should be hidden by the header css block. Galaxy
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diff changeset
390 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
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parents: 26
diff changeset
391 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
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diff changeset
392 layout that is not stripped. -->
124
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parents: 118
diff changeset
393 <table bgcolor="#FFE5C9" frame="border"><tr><td><font color="red"><b>
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parents: 118
diff changeset
394 <font size=5><center>This html page seems to have been stripped by Galaxy.</center></font></font>
27
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
395 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.
124
6719353162b0 change sanitize_all_html warning style
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parents: 118
diff changeset
396 </b></td></tr></table>
26
eee23a36c582 add a warning if galaxy strips the html header/stylesheet
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parents: 24
diff changeset
397 </div>
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Jan Kanis <jan.code@jankanis.nl>
parents: 24
diff changeset
398
5
1df2bfce5c24 first features are working, partial match table
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parents:
diff changeset
399 <div id=content>
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parents:
diff changeset
400
110
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parents: 96
diff changeset
401 <section class=header>
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parents: 96
diff changeset
402
e17aae23cc1c report query parameters for each query
Jan Kanis <jan.code@jankanis.nl>
parents: 96
diff changeset
403 <h1>Nucleotide Blast results</h1>
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parents: 96
diff changeset
404
e17aae23cc1c report query parameters for each query
Jan Kanis <jan.code@jankanis.nl>
parents: 96
diff changeset
405 <table class=headerdata>
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parents: 96
diff changeset
406 {% for param, value in params %}
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diff changeset
407 <tr><td class=param>{{param}}:</td><td>{{value}}</td></tr>
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diff changeset
408 {% endfor %}
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parents: 96
diff changeset
409 </table>
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Jan Kanis <jan.code@jankanis.nl>
parents: 96
diff changeset
410
e17aae23cc1c report query parameters for each query
Jan Kanis <jan.code@jankanis.nl>
parents: 96
diff changeset
411 </section>
e17aae23cc1c report query parameters for each query
Jan Kanis <jan.code@jankanis.nl>
parents: 96
diff changeset
412
111
7aa28753d7b3 create document-wide h1 header, put other headers one size down
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parents: 110
diff changeset
413 {% if not blast.BlastOutput_iterations.findall('Iteration') %}
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parents: 110
diff changeset
414 <section class=nodata>
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Jan Kanis <jan.code@jankanis.nl>
parents: 110
diff changeset
415 <h2>No data</h2>
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Jan Kanis <jan.code@jankanis.nl>
parents: 110
diff changeset
416 <div class=grey>
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Jan Kanis <jan.code@jankanis.nl>
parents: 110
diff changeset
417 No matches
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parents: 110
diff changeset
418 </div>
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parents: 110
diff changeset
419 </section>
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parents: 110
diff changeset
420
7aa28753d7b3 create document-wide h1 header, put other headers one size down
Jan Kanis <jan.code@jankanis.nl>
parents: 110
diff changeset
421 {% else %}
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parents: 110
diff changeset
422
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
423 {% if blast.BlastOutput_iterations.findall('Iteration') | length > 1 %}
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parents: 19
diff changeset
424 <section class=index>
111
7aa28753d7b3 create document-wide h1 header, put other headers one size down
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parents: 110
diff changeset
425 <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
426
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 {% 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
428 <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
429 {{result['Iteration_query-ID']}}: {{result['Iteration_query-def']}}
118
7f3f8c10f44b fix for Rikilt issues 8, 11, 12, 14
Jan Kanis <jan.code@jankanis.nl>
parents: 115
diff changeset
430 ({{result|len}} letters, {{result|hits|length}} hits)
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 </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
432 {% endfor %}
21
9596fea636bb style changes
Jan Kanis <jan.code@jankanis.nl>
parents: 20
diff changeset
433
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
434 </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
435 {% 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
436
19
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
437 {% for result in blast.BlastOutput_iterations.Iteration %}
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
438
53
4217bb9cf1d3 depend on python 3; fix internal links with multiple iterations
Jan Kanis <jan.code@jankanis.nl>
parents: 33
diff changeset
439 <section class=match id=match{{result|nodeid}}>
10
2fbdf2eb27b4 All data is displayed now, still some formatting to do
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parents: 9
diff changeset
440
111
7aa28753d7b3 create document-wide h1 header, put other headers one size down
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parents: 110
diff changeset
441 <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
442
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
443 <section class=header>
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
444
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
445 <table class=headerdata>
110
e17aae23cc1c report query parameters for each query
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parents: 96
diff changeset
446 {% for param, value in result|params %}
23
6995a6f34f3f fix sectioning, add footer
Jan Kanis <jan.code@jankanis.nl>
parents: 22
diff changeset
447 <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
448 {% endfor %}
67ddcb807b7d make it work with multiple queries
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449 </table>
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450
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451 </section>
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452
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diff changeset
453 {% set hits = result|hits %}
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454 {% if not hits %}
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455 <section>
111
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456 <h3>No Hits</h3>
19
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457 <div class=grey>
24
c8347745bbad use Iteration_message tag; also work with unexpected Hit_id values
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458 <table class=headerdata>
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diff changeset
459 <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
460 </table>
19
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diff changeset
461 </div>
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diff changeset
462 </section>
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diff changeset
463 {% else %}
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464
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465 <section class=graphics>
111
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466 <h3>Graphic Summary</h3>
19
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diff changeset
467
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468 <div class=grey>
111
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diff changeset
469 <h4 class=centered>Distribution of {{result|length}} Blast Hits on the Query Sequence</h4>
19
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diff changeset
470
53
4217bb9cf1d3 depend on python 3; fix internal links with multiple iterations
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diff changeset
471 <div class=defline id=defline{{result|nodeid}}>
19
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diff changeset
472 Mouse-over to show defline and scores, click to show alignments
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diff changeset
473 </div>
5
1df2bfce5c24 first features are working, partial match table
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474
19
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475 <div class=graphic>
111
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diff changeset
476 <h5 class=darkHeader>Color key for alignment scores</h5>
19
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diff changeset
477 <div class=legend><div class=graphicrow>
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478 <div class=graphicitem style="background-color: {{colors[0]}}">&lt;40</div>
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479 <div class=graphicitem style="background-color: {{colors[1]}}">40–50</div>
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diff changeset
480 <div class=graphicitem style="background-color: {{colors[2]}}">50–80</div>
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481 <div class=graphicitem style="background-color: {{colors[3]}}">80–200</div>
118
7f3f8c10f44b fix for Rikilt issues 8, 11, 12, 14
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482 <div class=graphicitem style="background-color: {{colors[4]}}">≥200</div>
19
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diff changeset
483 </div></div>
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diff changeset
484 <div style="clear: left"></div>
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485
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diff changeset
486 <div class=tablewrapper>
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487
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488 <div class=scale>
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489 <div>query:</div>
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diff changeset
490 <div class=graphicrow>
20
53cd304c5f26 Add index for multiple results; fix layout of query ruler for edge case
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diff changeset
491 <div>
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diff changeset
492 {% for s in result|queryscale %}
76
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493 <div class=graphicitem style="width: {{s.width|numfmt}}%">
20
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diff changeset
494 {% if s.width > 3.0 %}
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diff changeset
495 <div>{{s.label}}</div>
53cd304c5f26 Add index for multiple results; fix layout of query ruler for edge case
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496 {% else %}
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diff changeset
497 <div>&nbsp;</div>
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diff changeset
498 <div class=lastlabel>{{s.label}}</div>
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diff changeset
499 {% endif %}
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diff changeset
500 </div>
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diff changeset
501 {% endfor %}
19
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diff changeset
502 </div>
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diff changeset
503 </div>
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diff changeset
504 <div style="clear: left"></div>
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parents: 17
diff changeset
505 </div>
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diff changeset
506
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diff changeset
507 {% for line in result|match_colors %}
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diff changeset
508 <a class=matchresult
53
4217bb9cf1d3 depend on python 3; fix internal links with multiple iterations
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diff changeset
509 href="#hit{{line.hit|nodeid}}"
4217bb9cf1d3 depend on python 3; fix internal links with multiple iterations
Jan Kanis <jan.code@jankanis.nl>
parents: 33
diff changeset
510 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
511 onmouseout='document.getElementById("defline{{result|nodeid}}").innerHTML="Mouse-over to show defline and scores, click to show alignments"'
19
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diff changeset
512 title="{{line.defline}}">
67ddcb807b7d make it work with multiple queries
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parents: 17
diff changeset
513 <div class="matchrow graphicrow">
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parents: 17
diff changeset
514 {% for hit in line.colors %}
67ddcb807b7d make it work with multiple queries
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diff changeset
515 <div class="matchitem graphicitem"
76
7d0d46168fd5 Format all numbers in a predictable way
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diff changeset
516 style="background-color: {{hit[1]}}; width: {{hit[0]|numfmt}}%"></div>
19
67ddcb807b7d make it work with multiple queries
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diff changeset
517 {% endfor %}
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diff changeset
518 </div>
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parents: 17
diff changeset
519 </a>
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diff changeset
520
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diff changeset
521 {% endfor %}
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diff changeset
522 </div>
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diff changeset
523 </div>
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parents: 17
diff changeset
524 </div>
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
525 </section>
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Jan Kanis <jan.code@jankanis.nl>
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diff changeset
526
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Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
527
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Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
528
67ddcb807b7d make it work with multiple queries
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parents: 17
diff changeset
529 <section class=descriptions>
111
7aa28753d7b3 create document-wide h1 header, put other headers one size down
Jan Kanis <jan.code@jankanis.nl>
parents: 110
diff changeset
530 <h3>Descriptions</h3>
19
67ddcb807b7d make it work with multiple queries
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parents: 17
diff changeset
531
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
532 <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
533 <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
534
19
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
535 <table class=descriptiontable>
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
536 <col/><col/><col/><col/><col/><col/><col/>
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
537 <tr>
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
538 <th>Description</th>
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
539 <th>Max score</th>
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
540 <th>Total score</th>
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
541 <th>Query cover</th>
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
542 <th>E value</th>
67ddcb807b7d make it work with multiple queries
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parents: 17
diff changeset
543 <th>Ident</th>
67ddcb807b7d make it work with multiple queries
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parents: 17
diff changeset
544 <th>Accession</th>
67ddcb807b7d make it work with multiple queries
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parents: 17
diff changeset
545 </tr>
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
546 {% for hit in result|hit_info %}
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
547 <tr>
53
4217bb9cf1d3 depend on python 3; fix internal links with multiple iterations
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parents: 33
diff changeset
548 <td><div><a href="#hit{{hit.hit|nodeid}}"
19
67ddcb807b7d make it work with multiple queries
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parents: 17
diff changeset
549 title="{{hit.title}}"
53
4217bb9cf1d3 depend on python 3; fix internal links with multiple iterations
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parents: 33
diff changeset
550 id="description{{hit.hit|nodeid}}">
19
67ddcb807b7d make it work with multiple queries
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parents: 17
diff changeset
551 {{hit.title}}
67ddcb807b7d make it work with multiple queries
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parents: 17
diff changeset
552 </a></div></td>
67ddcb807b7d make it work with multiple queries
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parents: 17
diff changeset
553 <td>{{hit.maxscore}}</td>
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
554 <td>{{hit.totalscore}}</td>
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parents: 17
diff changeset
555 <td>{{hit.cover}}</td>
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parents: 17
diff changeset
556 <td>{{hit.e_value}}</td>
67ddcb807b7d make it work with multiple queries
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parents: 17
diff changeset
557 <td>{{hit.ident}}</td>
95
4378d11f0ed7 implement configurable gene bank links
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parents: 76
diff changeset
558 <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
559 </tr>
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parents: 17
diff changeset
560 {% endfor %}
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parents: 17
diff changeset
561 </table>
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parents: 17
diff changeset
562
67ddcb807b7d make it work with multiple queries
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parents: 17
diff changeset
563 </div></div>
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parents: 17
diff changeset
564 </section>
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
565
67ddcb807b7d make it work with multiple queries
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parents: 17
diff changeset
566
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
567
67ddcb807b7d make it work with multiple queries
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parents: 17
diff changeset
568 <section class=alignments>
111
7aa28753d7b3 create document-wide h1 header, put other headers one size down
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parents: 110
diff changeset
569 <h3>Alignments</h3>
19
67ddcb807b7d make it work with multiple queries
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parents: 17
diff changeset
570
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
571 <div class=grey><div class=white>
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
572 {% for hit in hits %}
53
4217bb9cf1d3 depend on python 3; fix internal links with multiple iterations
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parents: 33
diff changeset
573 <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
574
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
575 <div class=linkheader>
53
4217bb9cf1d3 depend on python 3; fix internal links with multiple iterations
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parents: 33
diff changeset
576 <div class=right><a href="#description{{hit|nodeid}}">Descriptions</a></div>
115
0c2a03f9740b make external gene bank name configurable
Jan Kanis <jan.code@jankanis.nl>
parents: 113
diff changeset
577 {{ hit|genelink(text_from='dbname', cssclass='linkheader', display_nolink=False) }}
19
67ddcb807b7d make it work with multiple queries
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parents: 17
diff changeset
578 </div>
5
1df2bfce5c24 first features are working, partial match table
Jan Kanis <jan.code@jankanis.nl>
parents:
diff changeset
579
19
67ddcb807b7d make it work with multiple queries
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parents: 17
diff changeset
580 <div class=title>
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
581 <p class=hittitle>{{hit|firsttitle}}</p>
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
582 <p class=titleinfo>
95
4378d11f0ed7 implement configurable gene bank links
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parents: 76
diff changeset
583 <span class=b>Sequence ID:</span> {{ hit|genelink }}
19
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
584 <span class=b>Length:</span> {{hit.Hit_len}}
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
585 <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
586 </p>
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
587 </div>
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
588
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
589 {% if hit|othertitles|length %}
53
4217bb9cf1d3 depend on python 3; fix internal links with multiple iterations
Jan Kanis <jan.code@jankanis.nl>
parents: 33
diff changeset
590 <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
591 See {{hit|othertitles|length}} more title(s)
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
592 </a>
67ddcb807b7d make it work with multiple queries
Jan Kanis <jan.code@jankanis.nl>
parents: 17
diff changeset
593
53
4217bb9cf1d3 depend on python 3; fix internal links with multiple iterations
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594 <div class=moretitles id=moretitles{{hit|nodeid}} style="display: none">
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595 {% for title in hit|othertitles %}
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596 <div class=title>
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02b795b784e1 fix bug; add comments
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597 <p class=hittitle>{{title.Hit_def}}</p>
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598 <p class=titleinfo>
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4378d11f0ed7 implement configurable gene bank links
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599 <span class=b>Sequence ID:</span> {{ title|genelink }}
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600 </p>
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601 </div>
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602 {% endfor %}
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603 </div>
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604 {% endif %}
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605
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606 {% for hsp in hit.Hit_hsps.Hsp %}
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607 <div class=hotspot id=hotspot{{hsp|nodeid}}>
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608 <p class=range>
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609 <span class=range>Range {{hsp.Hsp_num}}: {{hsp['Hsp_hit-from']}} to {{hsp['Hsp_hit-to']}}</span>
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610 </p>
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611
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612 <table class=hotspotstable>
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613 <tr>
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614 <th>Score</th><th>Expect</th><th>Identities</th><th>Gaps</th><th>Strand</th>
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615 </tr>
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616 <tr>
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617 <td>{{hsp['Hsp_bit-score']}} bits ({{hsp.Hsp_score}})</td>
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618 <td>{{hsp.Hsp_evalue}}</td>
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619 <td>{{ hsp.Hsp_identity }}/{{ hsp|len }} ({{
75
4d2c25baf5a3 Fix rounding errors
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620 ((hsp.Hsp_identity|float)/hsp|len) | fmt('.0%') }})</td>
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621 <td>{{ hsp.Hsp_gaps }}/{{ hsp|len
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622 }} ({{ ((hsp.Hsp_gaps|float) / hsp|len) | fmt('.0%') }})</td>
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623 <td>{{ hsp['Hsp_query-frame']|asframe }}/{{ hsp['Hsp_hit-frame']|asframe }}</td>
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624 </tr>
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625 </table>
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626
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627 {% for alignment_line in hsp|alignment_pre %}
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628 <pre class=alignmentgraphic>{{alignment_line}}</pre>
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629 {% endfor %}
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630 </div>
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631 {% endfor %}
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632
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633 </div>
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634
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635 {% endfor %}
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636 </div></div>
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637 </section>
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638 {% endif %}
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639 </section>
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640 {% endfor %}
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641 {% endif %}
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642
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643 </div>
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644
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645 <footer>
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3bb5da68305e add test update script, add url to github page
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646 This page was generated by <a href="https://github.com/thehyve/blast2html/">blast2html</a>.
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647 </footer>
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648 </body>
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649 </html>
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650
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651 {#
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652 Local Variables:
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653 tab-width: 2
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654 indent-tabs-mode: nil
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655 End:
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656 #}