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3
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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 </metadata>
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9 <tracks>
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10 <track cat="Blah" format="blast">
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11 <files>
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12 <trackFile path="test-data/blastxml/blast.xml" ext="blastxml" label="BlastP"/>
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13 </files>
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14
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15 <options>
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16 <style>
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17 <className>feature</className>
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18 <description></description>
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19 <label>Description</label>
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20 <height>400px</height>
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21 </style>
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22 <blast>
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23 <parent>test-data/blastxml/merlin.gff</parent>
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24 <protein>true</protein>
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25 <min_gap>10</min_gap>
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26 </blast>
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27 <scaling>
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28 <method>score</method>
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29 <algo>blast</algo>
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30 <scales>
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31 <type>__auto__</type>
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32 </scales>
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33 <scheme>
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34 <type>opacity</type>
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35 <color>__auto__</color>
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36 </scheme>
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37 </scaling>
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38 </options>
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39 </track>
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40 <track cat="Blah" format="blast">
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41 <files>
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42 <trackFile path="test-data/blastxml/blast.xml" ext="blastxml" label="BlastP, min_gap=3"/>
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43 </files>
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44
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45 <options>
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46 <style>
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47 <className>feature</className>
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48 <description></description>
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49 <label>Description</label>
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50 <height>400px</height>
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51 </style>
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52 <blast>
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53 <parent>test-data/blastxml/merlin.gff</parent>
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54 <protein>true</protein>
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55 <min_gap>3</min_gap>
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56 </blast>
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57 <scaling>
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58 <method>score</method>
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59 <algo>blast</algo>
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60 <scales>
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61 <type>__auto__</type>
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62 </scales>
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63 <scheme>
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64 <type>opacity</type>
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65 <color>__auto__</color>
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66 </scheme>
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67 </scaling>
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68 </options>
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69 </track>
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70
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71 <track cat="Blah" format="blast">
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72 <files>
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73 <trackFile path="test-data/blastxml/blast-gene1.xml" ext="blastxml" label="Non protein match/matchpart"/>
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74 </files>
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75
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76 <options>
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77 <style>
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78 <className>feature</className>
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79 <description></description>
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80 <label>Description</label>
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81 <height>400px</height>
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82 </style>
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83 <blast>
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84 <parent>test-data/blastxml/merlin.gff</parent>
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85 <min_gap>3</min_gap>
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86 </blast>
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87 <scaling>
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88 <method>ignore</method>
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89 <algo>linear</algo>
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90 <scheme>
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91 <type>opacity</type>
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92 <color>__auto__</color>
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93 </scheme>
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94 </scaling>
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95 </options>
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96 </track>
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97
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98 <track cat="Blah" format="blast">
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99 <files>
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100 <trackFile path="test-data/blastxml/blastn-gene1.xml" ext="blastxml" label="Non protein match/matchpart, no parent"/>
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101 </files>
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102
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103 <options>
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104 <style>
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105 <className>feature</className>
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106 <description></description>
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107 <label>Description</label>
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108 <height>400px</height>
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109 </style>
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110 <blast>
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111 <min_gap>40</min_gap>
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112 </blast>
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113 <scaling>
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114 <method>score</method>
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115 <algo>blast</algo>
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116 <scales>
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117 <type>__auto__</type>
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118 </scales>
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119 <scheme>
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120 <type>opacity</type>
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121 <color>__auto__</color>
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122 </scheme>
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123 </scaling>
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124 </options>
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125 </track>
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126
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127 </tracks>
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128 </root>
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