Mercurial > repos > rmarenco > hubarchivecreator

comparison Datatype.py @ 16:3233451a3bd6 draft

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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
74 # TODO: Use default parameters for some, like visibility 74 # TODO: Use default parameters for some, like visibility
75 def createTrack(self, 75 def createTrack(self,
76 file_path=None, 76 file_path=None,
77 track_name=None, long_label=None, thick_draw_item='off', 77 track_name=None, long_label=None, thick_draw_item='off',
78 short_label=None, track_type=None, visibility=None, priority=None, 78 short_label=None, track_type=None, visibility=None, priority=None,
79 track_file=None): 79 track_file=None, track_color='#000000'):
80 80
81 # TODO: Remove the hardcoded "tracks" by the value used as variable from myTrackFolderPath 81 # TODO: Remove the hardcoded "tracks" by the value used as variable from myTrackFolderPath
82 data_url = "tracks/%s" % file_path 82 data_url = "tracks/%s" % file_path
83 83
84 if not short_label: 84 if not short_label:
87 # Replace '_' by ' ', to invert the sanitization mecanism 87 # Replace '_' by ' ', to invert the sanitization mecanism
88 # TODO: Find a better way to manage the sanitization of file path 88 # TODO: Find a better way to manage the sanitization of file path
89 long_label = long_label.replace("_", " ") 89 long_label = long_label.replace("_", " ")
90 short_label = short_label.replace("_", " ") 90 short_label = short_label.replace("_", " ")
91 91
92 #TODO: Check if rgb or hexa
93 # Convert hexa to rgb array
94 hexa_without_sharp = track_color.lstrip('#')
95 rgb_array = [int(hexa_without_sharp[i:i+2], 16) for i in (0, 2, 4)]
96 rgb_ucsc = ','.join(map(str, rgb_array))
97
92 track_db = TrackDb( 98 track_db = TrackDb(
93 trackName=track_name, 99 trackName=track_name,
94 longLabel=long_label, 100 longLabel=long_label,
95 shortLabel=short_label, 101 shortLabel=short_label,
96 trackDataURL=data_url, 102 trackDataURL=data_url,
97 trackType=track_type, 103 trackType=track_type,
98 visibility=visibility, 104 visibility=visibility,
99 thickDrawItem=thick_draw_item, 105 thickDrawItem=thick_draw_item,
100 priority=priority, 106 priority=priority,
107 track_color=rgb_ucsc
101 ) 108 )
102 109
103 # Return the Bam Track Object 110 # Return the Bam Track Object
104 self.track = Track( 111 self.track = Track(
105 trackFile=track_file, 112 trackFile=track_file,