Mercurial > repos > rmarenco > hubarchivecreator

comparison Psl.py @ 17:c02720d1afee draft

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planemo upload for repository https://github.com/goeckslab/hub-archive-creator commit 1adbf397de1fc7af4d91e026093d7fff983e21cf
author rmarenco
date Fri, 30 Sep 2016 15:14:24 -0400
parents 3233451a3bd6
children 2677f1899aa8
comparison
equal deleted inserted replaced
16:3233451a3bd6 17:c02720d1afee
15 15
16 self.input_psl_path = input_psl_path 16 self.input_psl_path = input_psl_path
17 self.name_psl = data_psl["name"] 17 self.name_psl = data_psl["name"]
18 self.priority = data_psl["order_index"] 18 self.priority = data_psl["order_index"]
19 self.track_color = data_psl["track_color"] 19 self.track_color = data_psl["track_color"]
20 # TODO: Think about how to avoid repetition of the group_name everywhere
21 self.group_name = data_psl["group_name"]
20 22
21 # Temporary files 23 # Temporary files
22 unsorted_bed_formatted_psl_file = tempfile.NamedTemporaryFile(suffix='.psl') 24 unsorted_bed_formatted_psl_file = tempfile.NamedTemporaryFile(suffix='.psl')
23 sorted_bed_formatted_psl_file = tempfile.NamedTemporaryFile(suffix='psl') 25 sorted_bed_formatted_psl_file = tempfile.NamedTemporaryFile(suffix='psl')
24 26
50 track_name=trackName, 52 track_name=trackName,
51 long_label=self.name_psl, 53 long_label=self.name_psl,
52 track_type='bigPsl', visibility='dense', 54 track_type='bigPsl', visibility='dense',
53 priority=self.priority, 55 priority=self.priority,
54 track_file=my_big_psl_file_path, 56 track_file=my_big_psl_file_path,
55 track_color=self.track_color) 57 track_color=self.track_color,
58 group_name=self.group_name)
56 59
57 print("- BigPsl %s created" % self.name_psl) 60 print("- BigPsl %s created" % self.name_psl)