Mercurial > repos > iuc > jbrowse
annotate test-data/gff3/test.xml @ 5:ae9382cfb6ac draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse commit 3bbca939ca8a3298a3a2d6450abb04a96851e1ed
| author | iuc |
|---|---|
| date | Sat, 25 Jun 2016 15:06:43 -0400 |
| parents | 7342f467507b |
| children | ad4b9d7eae6a |
| rev | line source |
|---|---|
| 3 | 1 <?xml version="1.0"?> |
| 2 <root> | |
| 3 <metadata> | |
| 4 <gencode>11</gencode> | |
| 5 <genomes> | |
| 6 <genome>test-data/merlin.fa</genome> | |
| 7 </genomes> | |
|
5
ae9382cfb6ac
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse commit 3bbca939ca8a3298a3a2d6450abb04a96851e1ed
iuc
parents:
3
diff
changeset
|
8 <general> |
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ae9382cfb6ac
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse commit 3bbca939ca8a3298a3a2d6450abb04a96851e1ed
iuc
parents:
3
diff
changeset
|
9 <defaultLocation></defaultLocation> |
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ae9382cfb6ac
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse commit 3bbca939ca8a3298a3a2d6450abb04a96851e1ed
iuc
parents:
3
diff
changeset
|
10 <trackPadding>40</trackPadding> |
|
ae9382cfb6ac
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse commit 3bbca939ca8a3298a3a2d6450abb04a96851e1ed
iuc
parents:
3
diff
changeset
|
11 <shareLink>true</shareLink> |
|
ae9382cfb6ac
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse commit 3bbca939ca8a3298a3a2d6450abb04a96851e1ed
iuc
parents:
3
diff
changeset
|
12 <aboutDescription></aboutDescription> |
|
ae9382cfb6ac
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse commit 3bbca939ca8a3298a3a2d6450abb04a96851e1ed
iuc
parents:
3
diff
changeset
|
13 <show_tracklist>true</show_tracklist> |
|
ae9382cfb6ac
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse commit 3bbca939ca8a3298a3a2d6450abb04a96851e1ed
iuc
parents:
3
diff
changeset
|
14 <show_nav>true</show_nav> |
|
ae9382cfb6ac
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse commit 3bbca939ca8a3298a3a2d6450abb04a96851e1ed
iuc
parents:
3
diff
changeset
|
15 <show_overview>false</show_overview> |
|
ae9382cfb6ac
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse commit 3bbca939ca8a3298a3a2d6450abb04a96851e1ed
iuc
parents:
3
diff
changeset
|
16 <show_menu>true</show_menu> |
|
ae9382cfb6ac
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse commit 3bbca939ca8a3298a3a2d6450abb04a96851e1ed
iuc
parents:
3
diff
changeset
|
17 <hideGenomeOptions>false</hideGenomeOptions> |
|
ae9382cfb6ac
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse commit 3bbca939ca8a3298a3a2d6450abb04a96851e1ed
iuc
parents:
3
diff
changeset
|
18 </general> |
| 3 | 19 </metadata> |
| 20 <tracks> | |
|
5
ae9382cfb6ac
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse commit 3bbca939ca8a3298a3a2d6450abb04a96851e1ed
iuc
parents:
3
diff
changeset
|
21 <track cat="Auto Coloured" format="gene_calls" visibility="default_on"> |
| 3 | 22 <files> |
| 23 <trackFile path="test-data/gff3/1.gff" ext="gff3" label="A"/> | |
| 24 <trackFile path="test-data/gff3/1.gff" ext="gff3" label="B"/> | |
| 25 <trackFile path="test-data/gff3/1.gff" ext="gff3" label="C"/> | |
| 26 <trackFile path="test-data/gff3/1.gff" ext="gff3" label="D"/> | |
| 27 </files> | |
| 28 | |
| 29 <options> | |
| 30 <style> | |
| 31 <className>feature</className> | |
| 32 <description>feature</description> | |
| 33 <label>name,id</label> | |
| 34 <height>100px</height> | |
| 35 </style> | |
| 36 <gff> | |
| 37 </gff> | |
| 38 <scaling> | |
| 39 <method>ignore</method> | |
| 40 <scheme> | |
| 41 <color>__auto__</color> | |
| 42 </scheme> | |
| 43 </scaling> | |
| 44 </options> | |
| 45 </track> | |
| 46 <track cat="Ignore Scale" format="gene_calls"> | |
| 47 <files> | |
| 48 <trackFile path="test-data/gff3/1.gff" ext="gff3" label="Fixed Colour"/> | |
| 49 </files> | |
| 50 | |
| 51 <options> | |
| 52 <style> | |
| 53 <className>feature</className> | |
| 54 <description>feature</description> | |
| 55 <label>name,id</label> | |
| 56 <height>100px</height> | |
| 57 </style> | |
| 58 <gff> | |
| 59 </gff> | |
| 60 <scaling> | |
| 61 <method>ignore</method> | |
| 62 <scheme> | |
| 63 <color>#ff00ff</color> | |
| 64 </scheme> | |
| 65 </scaling> | |
| 66 </options> | |
| 67 </track> | |
| 68 <track cat="Scaled Colour" format="gene_calls"> | |
| 69 <files> | |
| 70 <trackFile path="test-data/gff3/1.gff" ext="gff3" label="Linear, Auto-bounds"/> | |
| 71 </files> | |
| 72 | |
| 73 <options> | |
| 74 <style> | |
| 75 <className>feature</className> | |
| 76 <description>feature</description> | |
| 77 <label>name,id</label> | |
| 78 <height>100px</height> | |
| 79 </style> | |
| 80 <gff> | |
| 81 </gff> | |
| 82 <scaling> | |
| 83 <method>score</method> | |
| 84 <algo>linear</algo> | |
| 85 <scales> | |
| 86 <type>__auto__</type> | |
| 87 </scales> | |
| 88 <scheme> | |
| 89 <type>opacity</type> | |
| 90 <color>__auto__</color> | |
| 91 </scheme> | |
| 92 </scaling> | |
| 93 </options> | |
| 94 </track> | |
| 95 <track cat="Scaled Colour" format="gene_calls"> | |
| 96 <files> | |
| 97 <trackFile path="test-data/gff3/1.gff" ext="gff3" label="Linear, Auto-bounds, Fixed Color"/> | |
| 98 </files> | |
| 99 | |
| 100 <options> | |
| 101 <style> | |
| 102 <className>feature</className> | |
| 103 <description>feature</description> | |
| 104 <label>name,id</label> | |
| 105 <height>100px</height> | |
| 106 </style> | |
| 107 <gff> | |
| 108 </gff> | |
| 109 <scaling> | |
| 110 <method>score</method> | |
| 111 <algo>linear</algo> | |
| 112 <scales> | |
| 113 <type>__auto__</type> | |
| 114 </scales> | |
| 115 <scheme> | |
| 116 <type>opacity</type> | |
| 117 <color>#0000ff</color> | |
| 118 </scheme> | |
| 119 </scaling> | |
| 120 </options> | |
| 121 </track> | |
| 122 <track cat="Scaled Colour" format="gene_calls"> | |
| 123 <files> | |
| 124 <trackFile path="test-data/gff3/1.gff" ext="gff3" label="Linear, Manual Bounds"/> | |
| 125 </files> | |
| 126 | |
| 127 <options> | |
| 128 <style> | |
| 129 <className>feature</className> | |
| 130 <description>feature</description> | |
| 131 <label>name,id</label> | |
| 132 <height>100px</height> | |
| 133 </style> | |
| 134 <gff> | |
| 135 </gff> | |
| 136 <scaling> | |
| 137 <method>score</method> | |
| 138 <algo>linear</algo> | |
| 139 <scales> | |
| 140 <type>manual</type> | |
| 141 <min>0</min> | |
| 142 <max>1000</max> | |
| 143 </scales> | |
| 144 <scheme> | |
| 145 <type>opacity</type> | |
| 146 <color>__auto__</color> | |
| 147 </scheme> | |
| 148 </scaling> | |
| 149 </options> | |
| 150 </track> | |
| 151 <track cat="Scaled Colour" format="gene_calls"> | |
| 152 <files> | |
| 153 <trackFile path="test-data/gff3/1.gff" ext="gff3" label="Linear, Manual Bounds, Fixed Color"/> | |
| 154 </files> | |
| 155 | |
| 156 <options> | |
| 157 <style> | |
| 158 <className>feature</className> | |
| 159 <description>feature</description> | |
| 160 <label>name,id</label> | |
| 161 <height>100px</height> | |
| 162 </style> | |
| 163 <gff> | |
| 164 </gff> | |
| 165 <scaling> | |
| 166 <method>score</method> | |
| 167 <algo>linear</algo> | |
| 168 <scales> | |
| 169 <type>manual</type> | |
| 170 <min>0</min> | |
| 171 <max>1000</max> | |
| 172 </scales> | |
| 173 <scheme> | |
| 174 <type>opacity</type> | |
| 175 <color>#ff0000</color> | |
| 176 </scheme> | |
| 177 </scaling> | |
| 178 </options> | |
| 179 </track> | |
| 180 | |
| 181 | |
| 182 <track cat="Realistic" format="gene_calls"> | |
| 183 <files> | |
| 184 <trackFile path="test-data/gff3/interpro.gff" ext="gff3" label="Interpro data"/> | |
| 185 </files> | |
| 186 | |
| 187 <options> | |
| 188 <style> | |
| 189 <className>feature</className> | |
| 190 <description>feature</description> | |
| 191 <label>name,id</label> | |
| 192 <height>100px</height> | |
| 193 </style> | |
| 194 <gff> | |
| 195 </gff> | |
| 196 <scaling> | |
| 197 <method>ignore</method> | |
| 198 <scheme> | |
| 199 <color>__auto__</color> | |
| 200 </scheme> | |
| 201 </scaling> | |
| 202 </options> | |
| 203 </track> | |
| 204 <track cat="Realistic" format="gene_calls"> | |
| 205 <files> | |
| 206 <trackFile path="test-data/gff3/2.gff" ext="gff3" label="Match/Match Part"/> | |
| 207 </files> | |
| 208 | |
| 209 <options> | |
| 210 <style> | |
| 211 <className>feature</className> | |
| 212 <description>feature</description> | |
| 213 <label>name,id</label> | |
| 214 <height>100px</height> | |
| 215 </style> | |
| 216 <gff> | |
| 217 <match>cDNA_match</match> | |
| 218 </gff> | |
| 219 <scaling> | |
| 220 <method>ignore</method> | |
| 221 <scheme> | |
| 222 <type>opacity</type> | |
| 223 <color>__auto__</color> | |
| 224 </scheme> | |
| 225 </scaling> | |
| 226 </options> | |
| 227 </track> | |
| 228 </tracks> | |
| 229 </root> |