Mercurial > repos > yating-l > jbrowsearchivecreator

comparison tracks/CanvasFeatures.py @ 20:85971ec2a527 draft default tip

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planemo upload for repository https://github.com/goeckslab/jbrowse-archive-creator.git commit 81d946d4544a4ea7e5b55f90caef971eca6abba0
author sargentl
date Fri, 21 Sep 2018 16:30:54 -0400
parents 62dee5369e80
children
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19:62dee5369e80 20:85971ec2a527
21 else: 21 else:
22 self.extraSettings['style']['color'] = self.extraSettings['color'] 22 self.extraSettings['style']['color'] = self.extraSettings['color']
23 track = dict() 23 track = dict()
24 track['type'] = 'JBrowse/View/Track/' + self.trackType 24 track['type'] = 'JBrowse/View/Track/' + self.trackType
25 track['storeClass'] = 'JBrowse/Store/SeqFeature/GFF3Tabix' 25 track['storeClass'] = 'JBrowse/Store/SeqFeature/GFF3Tabix'
26 if self.dataType == 'bed':
27 track['storeClass'] = 'JBrowse/Store/SeqFeature/BEDTabix'
26 if self.dataType == 'gff': 28 if self.dataType == 'gff':
27 # need .gff3.gz extension to index the name of the track with generate-name.pl 29 # need .gff3.gz extension to index the name of the track with generate-name.pl
28 track['urlTemplate'] = os.path.join('tracks', self.trackName + '.gff3.gz') 30 track['urlTemplate'] = os.path.join('tracks', self.trackName + '.gff3.gz')
29 else: 31 else:
30 track['urlTemplate'] = os.path.join('tracks', self.trackName) 32 track['urlTemplate'] = os.path.join('tracks', self.trackName)
38 if "menuTemplate" in self.extraSettings: 40 if "menuTemplate" in self.extraSettings:
39 track["menuTemplate"] = [{}, self.extraSettings["menuTemplate"]] 41 track["menuTemplate"] = [{}, self.extraSettings["menuTemplate"]]
40 #self.track["menuTemplate"] += [{"label" : "View details"}, {"label" : "Highlight this gene"}, self.extraSettings["menuTemplate"]] 42 #self.track["menuTemplate"] += [{"label" : "View details"}, {"label" : "Highlight this gene"}, self.extraSettings["menuTemplate"]]
41 extraConfigs = track 43 extraConfigs = track
42 return extraConfigs 44 return extraConfigs
43