Mercurial > repos > yating-l > jbrowsearchivecreator
comparison datatypes/Datatype.py @ 38:d17f629f5486 draft
planemo upload for repository https://github.com/Yating-L/jbrowse-archive-creator.git commit e4c1d387db160a3bf4a1e8abc288bdffbbbe2818-dirty
| author | yating-l |
|---|---|
| date | Fri, 06 Apr 2018 13:44:56 -0400 |
| parents | 31a41ce128cc |
| children | 4a69515eed63 |
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| 37:43909f065bee | 38:d17f629f5486 |
|---|---|
| 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, binary_folder, track_type): | 56 extra_files_path, tool_directory, specie_folder, tracks_folder, final_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 | 62 Datatype.myTrackFolderPath = tracks_folder # temporary raw data files |
| 63 Datatype.myFinalTrackFolderPath = final_tracks_folder # final tracks folder | |
| 63 Datatype.myBinaryFolderPath = binary_folder | 64 Datatype.myBinaryFolderPath = binary_folder |
| 64 | 65 |
| 65 Datatype.input_fasta_file = reference_genome | 66 Datatype.input_fasta_file = reference_genome |
| 66 | 67 |
| 67 # 2bit file creation from input fasta | 68 # 2bit file creation from input fasta |