Mercurial > repos > rmarenco > hubarchivecreator

comparison Gtf.py @ 16:3233451a3bd6 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/goeckslab/hub-archive-creator commit fc73ec22a0db3ab09c4ac13dc58f0b54ae37845c
author rmarenco
date Sun, 25 Sep 2016 11:25:38 -0400
parents 25809f699cb3
children c02720d1afee
comparison
equal deleted inserted replaced
15:2a45cd656e8e 16:3233451a3bd6
18 self.track = None 18 self.track = None
19 19
20 self.input_gtf_false_path = input_gtf_false_path 20 self.input_gtf_false_path = input_gtf_false_path
21 self.name_gtf = data_gtf["name"] 21 self.name_gtf = data_gtf["name"]
22 self.priority = data_gtf["order_index"] 22 self.priority = data_gtf["order_index"]
23 self.track_color = data_gtf["track_color"]
23 24
24 #print "Creating TrackHub GTF from (falsePath: %s; name: %s)" % ( self.input_gtf_false_path, self.name_gtf) 25 #print "Creating TrackHub GTF from (falsePath: %s; name: %s)" % ( self.input_gtf_false_path, self.name_gtf)
25 26
26 # TODO: See if we need these temporary files as part of the generated files 27 # TODO: See if we need these temporary files as part of the generated files
27 genePredFile = tempfile.NamedTemporaryFile(bufsize=0, suffix=".genePred") 28 genePredFile = tempfile.NamedTemporaryFile(bufsize=0, suffix=".genePred")
57 # Create the Track Object 58 # Create the Track Object
58 self.createTrack(file_path=trackName, 59 self.createTrack(file_path=trackName,
59 track_name=trackName, 60 track_name=trackName,
60 long_label=self.name_gtf, track_type='bigGenePred', 61 long_label=self.name_gtf, track_type='bigGenePred',
61 visibility='dense', priority=self.priority, 62 visibility='dense', priority=self.priority,
62 track_file=myBigBedFilePath) 63 track_file=myBigBedFilePath,
64 track_color=self.track_color)
63 65
64 print("- Gtf %s created" % self.name_gtf) 66 print("- Gtf %s created" % self.name_gtf)