Mercurial > repos > iuc > jbrowse

annotate test-data/gff3/test.xml @ 40:d5e8d72c432a draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse commit 7be399c9ee10ecd4b076cc1df775f585c3eb0eeb
author iuc
date Wed, 01 Mar 2017 23:06:18 -0500
parents 6bfd32bd1000
children c1451868f8d4
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1 <?xml version="1.0"?>
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2 <root>
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3 <metadata>
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4 <gencode>11</gencode>
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5 <genomes>
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6 <genome>test-data/merlin.fa</genome>
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7 </genomes>
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8 <general>
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9 <defaultLocation></defaultLocation>
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10 <trackPadding>40</trackPadding>
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11 <shareLink>true</shareLink>
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12 <aboutDescription></aboutDescription>
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13 <show_tracklist>true</show_tracklist>
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14 <show_nav>true</show_nav>
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15 <show_overview>false</show_overview>
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16 <show_menu>true</show_menu>
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17 <hideGenomeOptions>false</hideGenomeOptions>
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18 </general>
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19 </metadata>
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20 <tracks>
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21 <track cat="#date# / Auto Coloured" format="gene_calls" visibility="default_on">
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22 <files>
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23 <trackFile path="test-data/gff3/1.gff" ext="gff3" label="A"/>
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24 <trackFile path="test-data/gff3/1.gff" ext="gff3" label="B"/>
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25 <trackFile path="test-data/gff3/1.gff" ext="gff3" label="C"/>
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26 <trackFile path="test-data/gff3/1.gff" ext="gff3" label="D"/>
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27 </files>
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29 <options>
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30 <style>
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31 <className>feature</className>
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32 <description>feature</description>
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33 <label>name,id</label>
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34 <height>100px</height>
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35 </style>
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36 <gff>
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37 </gff>
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38 <scaling>
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39 <method>ignore</method>
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40 <scheme>
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41 <color>__auto__</color>
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42 </scheme>
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43 </scaling>
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44 </options>
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45 </track>
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46 <track cat="Ignore Scale" format="gene_calls">
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47 <files>
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48 <trackFile path="test-data/gff3/1.gff" ext="gff3" label="Fixed Colour"/>
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49 </files>
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51 <options>
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52 <style>
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53 <className>feature</className>
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54 <description>feature</description>
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55 <label>name,id</label>
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56 <height>100px</height>
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57 </style>
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58 <gff>
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59 </gff>
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60 <scaling>
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61 <method>ignore</method>
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62 <scheme>
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63 <color>#ff00ff</color>
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64 </scheme>
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65 </scaling>
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66 </options>
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67 </track>
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68 <track cat="Scaled Colour" format="gene_calls">
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69 <files>
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70 <trackFile path="test-data/gff3/1.gff" ext="gff3" label="Linear, Auto-bounds"/>
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71 </files>
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73 <options>
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74 <style>
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75 <className>feature</className>
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76 <description>feature</description>
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77 <label>name,id</label>
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78 <height>100px</height>
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79 </style>
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80 <gff>
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81 </gff>
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82 <scaling>
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83 <method>score</method>
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84 <algo>linear</algo>
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85 <scales>
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86 <type>__auto__</type>
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87 </scales>
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88 <scheme>
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89 <type>opacity</type>
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90 <color>__auto__</color>
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91 </scheme>
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92 </scaling>
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93 </options>
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94 </track>
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95 <track cat="Scaled Colour" format="gene_calls">
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96 <files>
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97 <trackFile path="test-data/gff3/1.gff" ext="gff3" label="Linear, Auto-bounds, Fixed Color"/>
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100 <options>
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101 <style>
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102 <className>feature</className>
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103 <description>feature</description>
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104 <label>name,id</label>
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105 <height>100px</height>
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106 </style>
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107 <gff>
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108 </gff>
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109 <scaling>
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110 <method>score</method>
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111 <algo>linear</algo>
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112 <scales>
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113 <type>__auto__</type>
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114 </scales>
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115 <scheme>
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116 <type>opacity</type>
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117 <color>#0000ff</color>
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118 </scheme>
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119 </scaling>
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120 </options>
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121 </track>
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122 <track cat="Scaled Colour" format="gene_calls">
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123 <files>
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124 <trackFile path="test-data/gff3/1.gff" ext="gff3" label="Linear, Manual Bounds"/>
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125 </files>
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126
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127 <options>
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128 <style>
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129 <className>feature</className>
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130 <description>feature</description>
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131 <label>name,id</label>
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132 <height>100px</height>
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133 </style>
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134 <gff>
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135 </gff>
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136 <scaling>
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137 <method>score</method>
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138 <algo>linear</algo>
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139 <scales>
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140 <type>manual</type>
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141 <min>0</min>
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142 <max>1000</max>
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143 </scales>
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144 <scheme>
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145 <type>opacity</type>
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146 <color>__auto__</color>
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147 </scheme>
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148 </scaling>
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149 </options>
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150 </track>
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151 <track cat="Scaled Colour" format="gene_calls">
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152 <files>
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153 <trackFile path="test-data/gff3/1.gff" ext="gff3" label="Linear, Manual Bounds, Fixed Color"/>
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154 </files>
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155
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156 <options>
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157 <style>
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158 <className>feature</className>
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159 <description>feature</description>
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160 <label>name,id</label>
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161 <height>100px</height>
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162 </style>
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163 <gff>
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164 </gff>
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165 <scaling>
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166 <method>score</method>
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167 <algo>linear</algo>
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168 <scales>
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169 <type>manual</type>
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170 <min>0</min>
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171 <max>1000</max>
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172 </scales>
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173 <scheme>
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174 <type>opacity</type>
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175 <color>#ff0000</color>
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176 </scheme>
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177 </scaling>
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178 </options>
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179 </track>
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180
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181
d5e8d72c432a planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse commit 7be399c9ee10ecd4b076cc1df775f585c3eb0eeb
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182 <track cat="Realistic" format="gene_calls">
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183 <files>
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184 <trackFile path="test-data/gff3/interpro.gff" ext="gff3" label="Interpro data"/>
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185 </files>
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186
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187 <options>
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188 <style>
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189 <className>feature</className>
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190 <description>feature</description>
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191 <label>name,id</label>
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192 <height>100px</height>
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193 </style>
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194 <gff>
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195 </gff>
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196 <scaling>
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197 <method>ignore</method>
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198 <scheme>
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parents: 34
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199 <color>__auto__</color>
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iuc
parents: 34
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200 </scheme>
34
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201 </scaling>
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202 </options>
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203 </track>
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204 <track cat="Realistic" format="gene_calls">
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205 <files>
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206 <trackFile path="test-data/gff3/2.gff" ext="gff3" label="Match/Match Part"/>
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207 </files>
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208
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209 <options>
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210 <style>
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parents:
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211 <className>feature</className>
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212 <description>feature</description>
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213 <label>name,id</label>
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214 <height>100px</height>
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215 </style>
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216 <gff>
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217 <match>cDNA_match</match>
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218 </gff>
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219 <scaling>
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220 <method>ignore</method>
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parents: 34
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221 <scheme>
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222 <type>opacity</type>
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parents: 34
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223 <color>__auto__</color>
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parents: 34
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224 </scheme>
34
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225 </scaling>
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226 </options>
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227 </track>
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228 </tracks>
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229 </root>