Mercurial > repos > yating-l > jbrowsearchivecreator

changeset 8:56d9d10b4990 draft

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planemo upload for repository https://github.com/goeckslab/jbrowse-archive-creator.git commit 2285eddcfe689d70d89571a045f204b74cc6890c
author yating-l
date Fri, 27 Apr 2018 15:36:51 -0400
parents 5d5fdcb798da
children 7cb67cbbd8e5
files jbrowseArchiveCreator.xml tracks/CanvasFeatures.py
diffstat 2 files changed, 4 insertions(+), 1 deletions(-) [+]
line wrap: on
line diff
--- a/jbrowseArchiveCreator.xml	Fri Apr 20 13:51:23 2018 -0400
+++ b/jbrowseArchiveCreator.xml	Fri Apr 27 15:36:51 2018 -0400
@@ -1,4 +1,4 @@
-<tool id="jbrowse_hub" name="JBrowse Archive Creator" version="2.1.1">
+<tool id="jbrowse_hub" name="JBrowse Archive Creator" version="2.1.2">
     <description>
         This Galaxy tool is used to prepare your files to be ready for displaying on JBrowse with Apollo plugin
     </description>
--- a/tracks/CanvasFeatures.py	Fri Apr 20 13:51:23 2018 -0400
+++ b/tracks/CanvasFeatures.py	Fri Apr 27 15:36:51 2018 -0400
@@ -24,7 +24,10 @@
         track['type'] = 'JBrowse/View/Track/' + self.trackType
         track['storeClass'] = 'JBrowse/Store/SeqFeature/GFF3Tabix'
         if self.dataType == 'gff':
+            # need .gff3.gz extension to index the name of the track with generate-name.pl
             track['urlTemplate'] = os.path.join('tracks', self.trackName + '.gff3.gz')
+            # needed to show match_part in Blat and Blast alignment as subfeatures
+            track['glyph'] = "JBrowse/View/FeatureGlyph/Segments"
         else:
             track['urlTemplate'] = os.path.join('tracks', self.trackName)
         track['label'] = self.trackLabel