annotate test-data/blastxml/test.xml @ 34:9de82b4963e6 draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse commit 0a26506563ff9b7fa683d3d0eaa16436c3560908"
author iuc
date Wed, 11 Sep 2019 09:40:36 -0400
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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="Blah" format="blast">
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22 <files>
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23 <trackFile path="test-data/blastxml/blast.xml" ext="blastxml" label="BlastP"/>
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24 </files>
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25
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26 <options>
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27 <style>
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28 <className>feature</className>
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29 <description></description>
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30 <label>Description</label>
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31 <height>400px</height>
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32 </style>
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33 <blast>
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34 <parent>test-data/blastxml/merlin.gff</parent>
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35 <protein>true</protein>
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36 <min_gap>10</min_gap>
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37 </blast>
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38 <scaling>
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39 <method>score</method>
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40 <algo>blast</algo>
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41 <scales>
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42 <type>__auto__</type>
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43 </scales>
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44 <scheme>
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45 <type>opacity</type>
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46 <color>__auto__</color>
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47 </scheme>
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48 </scaling>
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49 </options>
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50 </track>
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51 <track cat="Blah" format="blast">
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52 <files>
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53 <trackFile path="test-data/blastxml/blast.xml" ext="blastxml" label="BlastP, min_gap=3"/>
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54 </files>
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55
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56 <options>
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57 <style>
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58 <className>feature</className>
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59 <description></description>
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60 <label>Description</label>
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61 <height>400px</height>
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62 </style>
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63 <blast>
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64 <parent>test-data/blastxml/merlin.gff</parent>
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65 <protein>true</protein>
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66 <min_gap>3</min_gap>
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67 </blast>
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68 <scaling>
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69 <method>score</method>
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70 <algo>blast</algo>
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71 <scales>
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72 <type>__auto__</type>
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73 </scales>
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74 <scheme>
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75 <type>opacity</type>
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76 <color>__auto__</color>
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77 </scheme>
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78 </scaling>
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79 </options>
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80 </track>
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82 <track cat="Blah" format="blast">
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83 <files>
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84 <trackFile path="test-data/blastxml/blast-gene1.xml" ext="blastxml" label="Non protein match/matchpart"/>
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85 </files>
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87 <options>
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88 <style>
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89 <className>feature</className>
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90 <description></description>
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91 <label>Description</label>
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92 <height>400px</height>
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93 </style>
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94 <blast>
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95 <parent>test-data/blastxml/merlin.gff</parent>
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96 <min_gap>3</min_gap>
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97 </blast>
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98 <scaling>
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99 <method>ignore</method>
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100 <algo>linear</algo>
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101 <scheme>
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102 <type>opacity</type>
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103 <color>__auto__</color>
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104 </scheme>
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105 </scaling>
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106 </options>
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107 </track>
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108
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109 <track cat="Blah" format="blast">
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110 <files>
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111 <trackFile path="test-data/blastxml/blastn-gene1.xml" ext="blastxml" label="Non protein match/matchpart, no parent"/>
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112 </files>
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113
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114 <options>
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115 <style>
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116 <className>feature</className>
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117 <description></description>
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118 <label>Description</label>
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119 <height>400px</height>
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120 </style>
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121 <blast>
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122 <min_gap>40</min_gap>
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123 </blast>
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124 <scaling>
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125 <method>score</method>
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126 <algo>blast</algo>
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127 <scales>
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128 <type>__auto__</type>
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129 </scales>
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130 <scheme>
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131 <type>opacity</type>
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132 <color>__auto__</color>
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133 </scheme>
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134 </scaling>
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135 </options>
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136 </track>
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138 </tracks>
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139 </root>