Mercurial > repos > yating-l > jbrowsearchivecreator

comparison datatypes/Datatype.py @ 39:4a69515eed63 draft

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planemo upload for repository https://github.com/Yating-L/jbrowse-archive-creator.git commit 91271a6c0d39c923f0d460b2979247baa297286b-dirty
author yating-l
date Fri, 13 Apr 2018 18:21:35 -0400
parents d17f629f5486
children 061da5d3a219
comparison
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38:d17f629f5486 39:4a69515eed63
51 self.extraSettings = collections.OrderedDict() 51 self.extraSettings = collections.OrderedDict()
52 52
53 53
54 @staticmethod 54 @staticmethod
55 def pre_init(reference_genome, chrom_sizes_file, 55 def pre_init(reference_genome, chrom_sizes_file,
56 extra_files_path, tool_directory, specie_folder, tracks_folder, final_tracks_folder, binary_folder, track_type): 56 extra_files_path, tool_directory, specie_folder, tracks_folder, binary_folder, track_type):
57 Datatype.extra_files_path = extra_files_path 57 Datatype.extra_files_path = extra_files_path
58 Datatype.tool_directory = tool_directory 58 Datatype.tool_directory = tool_directory
59 59
60 # TODO: All this should be in TrackHub and not in Datatype 60 # TODO: All this should be in TrackHub and not in Datatype
61 Datatype.mySpecieFolderPath = specie_folder 61 Datatype.mySpecieFolderPath = specie_folder
62 Datatype.myTrackFolderPath = tracks_folder # temporary raw data files 62 Datatype.myTrackFolderPath = tracks_folder # temporary raw data files
63 Datatype.myFinalTrackFolderPath = final_tracks_folder # final tracks folder
64 Datatype.myBinaryFolderPath = binary_folder 63 Datatype.myBinaryFolderPath = binary_folder
65 64
66 Datatype.input_fasta_file = reference_genome 65 Datatype.input_fasta_file = reference_genome
67 66
68 # 2bit file creation from input fasta 67 # 2bit file creation from input fasta