Mercurial > repos > fubar > jbrowse2

annotate test-data/blastxml/test.xml @ 104:9e3f69d9fed1 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit a1537aea75fc902d0e38c0b7c698830a939648b1-dirty
author fubar
date Sun, 23 Jun 2024 00:13:57 +0000
parents 2de9f585505b
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
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2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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1 <?xml version="1.0"?>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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2 <root>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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3 <metadata>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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4 <genomes>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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5 <genome>test-data/merlin.fa</genome>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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6 </genomes>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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7 <general>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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8 <defaultLocation></defaultLocation>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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9 <trackPadding>40</trackPadding>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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10 <shareLink>true</shareLink>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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11 <aboutDescription></aboutDescription>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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12 <show_tracklist>true</show_tracklist>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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13 <show_nav>true</show_nav>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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14 <show_overview>false</show_overview>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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15 <show_menu>true</show_menu>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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16 <hideGenomeOptions>false</hideGenomeOptions>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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17 </general>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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18 </metadata>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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19 <tracks>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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20 <track cat="Blah" format="blast">
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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21 <files>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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22 <trackFile path="test-data/blastxml/blast.xml" ext="blastxml" label="BlastP"/>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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23 </files>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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24
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25 <options>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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26 <style>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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27 <className>feature</className>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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28 <description></description>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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29 <label>Description</label>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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30 <height>400px</height>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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31 </style>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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32 <blast>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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33 <parent>test-data/blastxml/merlin.gff</parent>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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34 <protein>true</protein>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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35 <min_gap>10</min_gap>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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36 </blast>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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37 <scaling>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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38 <method>score</method>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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39 <algo>blast</algo>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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40 <scales>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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41 <type>__auto__</type>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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42 </scales>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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43 <scheme>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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44 <type>opacity</type>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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45 <color>__auto__</color>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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46 </scheme>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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47 </scaling>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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48 </options>
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49 </track>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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50 <track cat="Blah" format="blast">
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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51 <files>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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52 <trackFile path="test-data/blastxml/blast.xml" ext="blastxml" label="BlastP, min_gap=3"/>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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53 </files>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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54
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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55 <options>
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56 <style>
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57 <className>feature</className>
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58 <description></description>
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59 <label>Description</label>
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60 <height>400px</height>
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61 </style>
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62 <blast>
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63 <parent>test-data/blastxml/merlin.gff</parent>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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64 <protein>true</protein>
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65 <min_gap>3</min_gap>
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66 </blast>
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67 <scaling>
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68 <method>score</method>
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69 <algo>blast</algo>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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70 <scales>
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71 <type>__auto__</type>
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72 </scales>
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73 <scheme>
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74 <type>opacity</type>
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75 <color>__auto__</color>
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76 </scheme>
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77 </scaling>
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78 </options>
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79 </track>
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80
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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81 <track cat="Blah" format="blast">
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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82 <files>
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83 <trackFile path="test-data/blastxml/blast-gene1.xml" ext="blastxml" label="Non protein match/matchpart"/>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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84 </files>
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85
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86 <options>
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87 <style>
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88 <className>feature</className>
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89 <description></description>
2de9f585505b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b30d2e277cc360437a02fa812c577c0c8d997cff-dirty
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90 <label>Description</label>
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91 <height>400px</height>
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92 </style>
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93 <blast>
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94 <parent>test-data/blastxml/merlin.gff</parent>
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95 <min_gap>3</min_gap>
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96 </blast>
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97 <scaling>
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98 <method>ignore</method>
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99 <algo>linear</algo>
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100 <scheme>
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101 <type>opacity</type>
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102 <color>__auto__</color>
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103 </scheme>
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104 </scaling>
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105 </options>
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106 </track>
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107
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108 <track cat="Blah" format="blast">
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109 <files>
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110 <trackFile path="test-data/blastxml/blastn-gene1.xml" ext="blastxml" label="Non protein match/matchpart, no parent"/>
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111 </files>
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112
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113 <options>
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114 <style>
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115 <className>feature</className>
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116 <description></description>
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117 <label>Description</label>
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118 <height>400px</height>
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119 </style>
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120 <blast>
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121 <min_gap>40</min_gap>
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122 </blast>
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123 <scaling>
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124 <method>score</method>
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125 <algo>blast</algo>
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126 <scales>
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127 <type>__auto__</type>
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128 </scales>
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129 <scheme>
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130 <type>opacity</type>
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131 <color>__auto__</color>
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132 </scheme>
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133 </scaling>
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134 </options>
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135 </track>
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136
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137 </tracks>
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138 </root>