Mercurial > repos > yating-l > jbrowsearchivecreator

comparison TrackHub.py @ 50:804e7217f27c draft default tip

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planemo upload for repository https://github.com/goeckslab/jbrowse-archive-creator.git commit 3afab1eb0da4823419945c523a1d37cd5973e7f6-dirty
author yating-l
date Fri, 20 Jul 2018 11:38:01 -0400
parents 1eb4adefd747
children
comparison
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49:be34d213ec6a 50:804e7217f27c
104 104
105 def _prepareRefseq(self): 105 def _prepareRefseq(self):
106 subtools.prepare_refseqs(self.reference_genome.false_path, self.mySpecieFolderPath) 106 subtools.prepare_refseqs(self.reference_genome.false_path, self.mySpecieFolderPath)
107 107
108 def _indexName(self): 108 def _indexName(self):
109 if self.nameIndexTrackList: 109 subtools.generate_names(self.mySpecieFolderPath, self.nameIndexTrackList)
110 subtools.generate_names(self.mySpecieFolderPath, self.nameIndexTrackList) 110 print "finished name index \n"
111 print "finished name index \n"
112 111
113 def _outHtml(self): 112 def _outHtml(self):
114 mylookup = TemplateLookup(directories=[os.path.join(self.tool_directory, 'templates')], 113 mylookup = TemplateLookup(directories=[os.path.join(self.tool_directory, 'templates')],
115 output_encoding='utf-8', encoding_errors='replace') 114 output_encoding='utf-8', encoding_errors='replace')
116 htmlTemplate = mylookup.get_template("display.txt") 115 htmlTemplate = mylookup.get_template("display.txt")