Mercurial > repos > yating-l > hubarchivecreator

comparison Gff3.py @ 57:b39dd0b5a166 draft

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planemo upload for repository https://github.com/goeckslab/hub-archive-creator commit ce28781f52a4f84039de300cb41e3982f2e8bf51-dirty
author yating-l
date Fri, 30 Jun 2017 14:49:14 -0400
parents c66803bff0cc
children a0fc8379223c
comparison
equal deleted inserted replaced
56:04cc7c2e7b47 57:b39dd0b5a166
20 self.name_gff3 = data_gff3["name"] 20 self.name_gff3 = data_gff3["name"]
21 self.priority = data_gff3["order_index"] 21 self.priority = data_gff3["order_index"]
22 self.track_color = data_gff3["track_color"] 22 self.track_color = data_gff3["track_color"]
23 # TODO: Think about how to avoid repetition of the group_name everywhere 23 # TODO: Think about how to avoid repetition of the group_name everywhere
24 self.group_name = data_gff3["group_name"] 24 self.group_name = data_gff3["group_name"]
25 self.database = data_gff3["database"]
25 if data_gff3["long_label"]: 26 if data_gff3["long_label"]:
26 self.long_label = data_gff3["long_label"] 27 self.long_label = data_gff3["long_label"]
27 else: 28 else:
28 self.long_label = self.name_gff3 29 self.long_label = self.name_gff3
29 # TODO: See if we need these temporary files as part of the generated files 30 # TODO: See if we need these temporary files as part of the generated files
63 long_label=self.long_label, 64 long_label=self.long_label,
64 track_type='bigGenePred', visibility='dense', 65 track_type='bigGenePred', visibility='dense',
65 priority=self.priority, 66 priority=self.priority,
66 track_file=myBigBedFilePath, 67 track_file=myBigBedFilePath,
67 track_color=self.track_color, 68 track_color=self.track_color,
68 group_name=self.group_name) 69 group_name=self.group_name,
70 database=self.database)
69 71
70 print("- Gff3 %s created" % self.name_gff3) 72 print("- Gff3 %s created" % self.name_gff3)