Mercurial > repos > iuc > jbrowse
annotate test-data/blastxml/test.xml @ 36:7ed0827da5a8 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse commit e846227dfeed6e58ab8e2ee528e8fbc7c3938f86"
| author | iuc |
|---|---|
| date | Sun, 26 Jan 2020 23:43:57 -0500 |
| parents | ff11d442feed |
| children |
| 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> | |
|
17
ff11d442feed
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse commit 908f16ea4eb082227437dc93e06e8cb742f5a257
iuc
parents:
3
diff
changeset
|
8 <general> |
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ff11d442feed
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse commit 908f16ea4eb082227437dc93e06e8cb742f5a257
iuc
parents:
3
diff
changeset
|
9 <defaultLocation></defaultLocation> |
|
ff11d442feed
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse commit 908f16ea4eb082227437dc93e06e8cb742f5a257
iuc
parents:
3
diff
changeset
|
10 <trackPadding>40</trackPadding> |
|
ff11d442feed
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse commit 908f16ea4eb082227437dc93e06e8cb742f5a257
iuc
parents:
3
diff
changeset
|
11 <shareLink>true</shareLink> |
|
ff11d442feed
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse commit 908f16ea4eb082227437dc93e06e8cb742f5a257
iuc
parents:
3
diff
changeset
|
12 <aboutDescription></aboutDescription> |
|
ff11d442feed
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse commit 908f16ea4eb082227437dc93e06e8cb742f5a257
iuc
parents:
3
diff
changeset
|
13 <show_tracklist>true</show_tracklist> |
|
ff11d442feed
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse commit 908f16ea4eb082227437dc93e06e8cb742f5a257
iuc
parents:
3
diff
changeset
|
14 <show_nav>true</show_nav> |
|
ff11d442feed
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse commit 908f16ea4eb082227437dc93e06e8cb742f5a257
iuc
parents:
3
diff
changeset
|
15 <show_overview>false</show_overview> |
|
ff11d442feed
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse commit 908f16ea4eb082227437dc93e06e8cb742f5a257
iuc
parents:
3
diff
changeset
|
16 <show_menu>true</show_menu> |
|
ff11d442feed
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse commit 908f16ea4eb082227437dc93e06e8cb742f5a257
iuc
parents:
3
diff
changeset
|
17 <hideGenomeOptions>false</hideGenomeOptions> |
|
ff11d442feed
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse commit 908f16ea4eb082227437dc93e06e8cb742f5a257
iuc
parents:
3
diff
changeset
|
18 </general> |
| 3 | 19 </metadata> |
| 20 <tracks> | |
| 21 <track cat="Blah" format="blast"> | |
| 22 <files> | |
| 23 <trackFile path="test-data/blastxml/blast.xml" ext="blastxml" label="BlastP"/> | |
| 24 </files> | |
| 25 | |
| 26 <options> | |
| 27 <style> | |
| 28 <className>feature</className> | |
| 29 <description></description> | |
| 30 <label>Description</label> | |
| 31 <height>400px</height> | |
| 32 </style> | |
| 33 <blast> | |
| 34 <parent>test-data/blastxml/merlin.gff</parent> | |
| 35 <protein>true</protein> | |
| 36 <min_gap>10</min_gap> | |
| 37 </blast> | |
| 38 <scaling> | |
| 39 <method>score</method> | |
| 40 <algo>blast</algo> | |
| 41 <scales> | |
| 42 <type>__auto__</type> | |
| 43 </scales> | |
| 44 <scheme> | |
| 45 <type>opacity</type> | |
| 46 <color>__auto__</color> | |
| 47 </scheme> | |
| 48 </scaling> | |
| 49 </options> | |
| 50 </track> | |
| 51 <track cat="Blah" format="blast"> | |
| 52 <files> | |
| 53 <trackFile path="test-data/blastxml/blast.xml" ext="blastxml" label="BlastP, min_gap=3"/> | |
| 54 </files> | |
| 55 | |
| 56 <options> | |
| 57 <style> | |
| 58 <className>feature</className> | |
| 59 <description></description> | |
| 60 <label>Description</label> | |
| 61 <height>400px</height> | |
| 62 </style> | |
| 63 <blast> | |
| 64 <parent>test-data/blastxml/merlin.gff</parent> | |
| 65 <protein>true</protein> | |
| 66 <min_gap>3</min_gap> | |
| 67 </blast> | |
| 68 <scaling> | |
| 69 <method>score</method> | |
| 70 <algo>blast</algo> | |
| 71 <scales> | |
| 72 <type>__auto__</type> | |
| 73 </scales> | |
| 74 <scheme> | |
| 75 <type>opacity</type> | |
| 76 <color>__auto__</color> | |
| 77 </scheme> | |
| 78 </scaling> | |
| 79 </options> | |
| 80 </track> | |
| 81 | |
| 82 <track cat="Blah" format="blast"> | |
| 83 <files> | |
| 84 <trackFile path="test-data/blastxml/blast-gene1.xml" ext="blastxml" label="Non protein match/matchpart"/> | |
| 85 </files> | |
| 86 | |
| 87 <options> | |
| 88 <style> | |
| 89 <className>feature</className> | |
| 90 <description></description> | |
| 91 <label>Description</label> | |
| 92 <height>400px</height> | |
| 93 </style> | |
| 94 <blast> | |
| 95 <parent>test-data/blastxml/merlin.gff</parent> | |
| 96 <min_gap>3</min_gap> | |
| 97 </blast> | |
| 98 <scaling> | |
| 99 <method>ignore</method> | |
| 100 <algo>linear</algo> | |
| 101 <scheme> | |
| 102 <type>opacity</type> | |
| 103 <color>__auto__</color> | |
| 104 </scheme> | |
| 105 </scaling> | |
| 106 </options> | |
| 107 </track> | |
| 108 | |
| 109 <track cat="Blah" format="blast"> | |
| 110 <files> | |
| 111 <trackFile path="test-data/blastxml/blastn-gene1.xml" ext="blastxml" label="Non protein match/matchpart, no parent"/> | |
| 112 </files> | |
| 113 | |
| 114 <options> | |
| 115 <style> | |
| 116 <className>feature</className> | |
| 117 <description></description> | |
| 118 <label>Description</label> | |
| 119 <height>400px</height> | |
| 120 </style> | |
| 121 <blast> | |
| 122 <min_gap>40</min_gap> | |
| 123 </blast> | |
| 124 <scaling> | |
| 125 <method>score</method> | |
| 126 <algo>blast</algo> | |
| 127 <scales> | |
| 128 <type>__auto__</type> | |
| 129 </scales> | |
| 130 <scheme> | |
| 131 <type>opacity</type> | |
| 132 <color>__auto__</color> | |
| 133 </scheme> | |
| 134 </scaling> | |
| 135 </options> | |
| 136 </track> | |
| 137 | |
| 138 </tracks> | |
| 139 </root> |