| Previous changeset 28:d0743cb18ed8 (2019-02-22) Next changeset 30:ca2def38369c (2019-04-11) |
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Commit message:
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse commit d51ab68aa8a806f7d5a3ebc00638a2486a98a214 |
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modified:
jbrowse.xml test-data/gff3/test.xml |
| b |
| diff -r d0743cb18ed8 -r 112eb40ba6cf jbrowse.xml --- a/jbrowse.xml Fri Feb 22 03:20:59 2019 -0500 +++ b/jbrowse.xml Fri Apr 05 07:53:24 2019 -0400 |
| b |
| @@ -130,7 +130,7 @@ display_name="${dataset.history.get_display_name()}"/> <metadata #for (key, value) in $dataset.get_metadata().items(): - #if "_types" not in $key: + #if "_types" not in $key and $value is not None and len(str($value)) < 20000: ${key}="${value}" #end if #end for |
| b |
| diff -r d0743cb18ed8 -r 112eb40ba6cf test-data/gff3/test.xml --- a/test-data/gff3/test.xml Fri Feb 22 03:20:59 2019 -0500 +++ b/test-data/gff3/test.xml Fri Apr 05 07:53:24 2019 -0400 |
| b |
| b'@@ -3,7 +3,7 @@\n <metadata>\n <gencode>11</gencode>\n <genomes>\n- <genome path="/tmp/tmpWtvfKr/files/000/dataset_5.dat">\n+ <genome path="/tmp/tmpTx5wXw/files/000/dataset_5.dat">\n <metadata>\n <dataset id="7b55dbb89df8f4e5" hid="1"\n size="171.6 KB"\n@@ -42,7 +42,7 @@\n <tracks>\n <track cat="Auto Coloured" format="gene_calls" visibility="default_off">\n <files>\n- <trackFile path="/tmp/tmpWtvfKr/files/000/dataset_6.dat" ext="gff3" label="A.gff">\n+ <trackFile path="/tmp/tmpTx5wXw/files/000/dataset_6.dat" ext="gff3" label="gff3/A.gff">\n <metadata>\n <dataset id="fa6d20d0fb68383f" hid="2"\n size="2.3 KB"\n@@ -57,7 +57,6 @@\n data_lines="27"\n comment_lines="19"\n columns="9"\n- column_names=""\n delimiter="__tc__"\n attributes="6"\n />\n@@ -67,7 +66,7 @@\n />\n </metadata>\n </trackFile>\n- <trackFile path="/tmp/tmpWtvfKr/files/000/dataset_7.dat" ext="gff3" label="B.gff">\n+ <trackFile path="/tmp/tmpTx5wXw/files/000/dataset_7.dat" ext="gff3" label="gff3/B.gff">\n <metadata>\n <dataset id="683bc220e21425bb" hid="3"\n size="2.3 KB"\n@@ -82,7 +81,6 @@\n data_lines="27"\n comment_lines="19"\n columns="9"\n- column_names=""\n delimiter="__tc__"\n attributes="6"\n />\n@@ -92,7 +90,7 @@\n />\n </metadata>\n </trackFile>\n- <trackFile path="/tmp/tmpWtvfKr/files/000/dataset_8.dat" ext="gff3" label="C.gff">\n+ <trackFile path="/tmp/tmpTx5wXw/files/000/dataset_8.dat" ext="gff3" label="gff3/C.gff">\n <metadata>\n <dataset id="a90a30fafe298e1e" hid="4"\n size="2.3 KB"\n@@ -107,7 +105,6 @@\n data_lines="27"\n comment_lines="19"\n columns="9"\n- column_names=""\n delimiter="__tc__"\n attributes="6"\n />\n@@ -117,7 +114,7 @@\n />\n </metadata>\n </trackFile>\n- <trackFile path="/tmp/tmpWtvfKr/files/000/dataset_9.dat" ext="gff3" label="D.gff">\n+ <trackFile path="/tmp/tmpTx5wXw/files/000/dataset_9.dat" ext="gff3" label="gff3/D.gff">\n <metadata>\n <dataset id="b842d972534ccb3e" hid="5"\n size="2.3 KB"\n@@ -132,7 +129,6 @@\n data_lines="27"\n comment_lines="19"\n columns="9"\n- column_names=""\n delimiter="__tc__"\n attributes="6"\n />\n@@ -148,7 +144,7 @@\n <style>\n <overridePlugins>False</overridePlugins>\n <overrideDraggable>False</overrideDraggable>\n- <className>feature</className>\n+ <className>feature2</className>\n <description>note,description</description>\n <label>product,name,id</label>\n <height>10px</height>\n@@ -164,14 +160,15 @@\n </menus>\n \n <gff>\n- <trackType>JBrowse/View/Track/CanvasFeatures</trackType>\n+ <trackType>NeatHTMLFeatures/View/Track/NeatFeatures</trackType>\n+ <topLevelFeatures>mRNA</topLevelFeatures>\n <index>false</index>\n '..b'verridePlugins>\n <overrideDraggable>False</overrideDraggable>\n- <className>feature</className>\n+ <className>feature2</className>\n <description>note,description</description>\n <label>product,name,id</label>\n <height>10px</height>\n@@ -462,14 +458,15 @@\n </menus>\n \n <gff>\n- <trackType>JBrowse/View/Track/CanvasFeatures</trackType>\n+ <trackType>NeatHTMLFeatures/View/Track/NeatFeatures</trackType>\n+ <topLevelFeatures>mRNA</topLevelFeatures>\n <index>false</index>\n </gff>\n </options>\n </track>\n <track cat="Realistic" format="gene_calls" visibility="default_off">\n <files>\n- <trackFile path="/tmp/tmpWtvfKr/files/000/dataset_11.dat" ext="gff3" label="interpro.gff">\n+ <trackFile path="/tmp/tmpTx5wXw/files/000/dataset_11.dat" ext="gff3" label="gff3/interpro.gff">\n <metadata>\n <dataset id="9ce08b2254e4d5ed" hid="7"\n size="103.3 KB"\n@@ -484,7 +481,6 @@\n data_lines="556"\n comment_lines="2"\n columns="9"\n- column_names=""\n delimiter="__tc__"\n attributes="11"\n />\n@@ -500,7 +496,7 @@\n <style>\n <overridePlugins>False</overridePlugins>\n <overrideDraggable>False</overrideDraggable>\n- <className>feature</className>\n+ <className>feature2</className>\n <description>note,description</description>\n <label>product,name,id</label>\n <height>10px</height>\n@@ -516,14 +512,15 @@\n </menus>\n \n <gff>\n- <trackType>JBrowse/View/Track/CanvasFeatures</trackType>\n+ <trackType>NeatHTMLFeatures/View/Track/NeatFeatures</trackType>\n+ <topLevelFeatures>mRNA</topLevelFeatures>\n <index>false</index>\n </gff>\n </options>\n </track>\n <track cat="Realistic" format="gene_calls" visibility="default_off">\n <files>\n- <trackFile path="/tmp/tmpWtvfKr/files/000/dataset_12.dat" ext="gff3" label="2.gff">\n+ <trackFile path="/tmp/tmpTx5wXw/files/000/dataset_12.dat" ext="gff3" label="gff3/2.gff">\n <metadata>\n <dataset id="80b8022ff3f677b7" hid="8"\n size="326 bytes"\n@@ -538,7 +535,6 @@\n data_lines="3"\n comment_lines="3"\n columns="9"\n- column_names=""\n delimiter="__tc__"\n attributes="4"\n />\n@@ -554,7 +550,7 @@\n <style>\n <overridePlugins>False</overridePlugins>\n <overrideDraggable>False</overrideDraggable>\n- <className>feature</className>\n+ <className>feature2</className>\n <description>note,description</description>\n <label>product,name,id</label>\n <height>10px</height>\n@@ -570,7 +566,8 @@\n </menus>\n \n <gff>\n- <trackType>JBrowse/View/Track/CanvasFeatures</trackType>\n+ <trackType>NeatHTMLFeatures/View/Track/NeatFeatures</trackType>\n+ <topLevelFeatures>mRNA</topLevelFeatures>\n <match>cDNA_match</match>\n <index>false</index>\n </gff>\n@@ -584,4 +581,4 @@\n BlastView="True"\n theme=""\n />\n-</root>\n+</root>\n\\ No newline at end of file\n' |