Mercurial > repos > sanbi-uwc > data_manager_rnastar_index_builder
comparison data_manager/rnastar_index_builder.py @ 8:56686a746b91 draft
planemo upload for repository https://github.com/pvanheus/data_manager_rnastar_index_builder commit dc358455cd2140328ddbb9f8f2e221f8121c6b7b
| author | sanbi-uwc |
|---|---|
| date | Thu, 11 Feb 2016 06:56:21 -0500 |
| parents | aed097239724 |
| children | ccb7ce1ad9b3 |
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| 7:0ff626afce84 | 8:56686a746b91 |
|---|---|
| 54 parser = argparse.ArgumentParser(description="Generate RNA STAR genome index and JSON describing this") | 54 parser = argparse.ArgumentParser(description="Generate RNA STAR genome index and JSON describing this") |
| 55 parser.add_argument('output_filename') | 55 parser.add_argument('output_filename') |
| 56 parser.add_argument('--fasta_filename') | 56 parser.add_argument('--fasta_filename') |
| 57 parser.add_argument('--fasta_dbkey') | 57 parser.add_argument('--fasta_dbkey') |
| 58 parser.add_argument('--fasta_description', default=None) | 58 parser.add_argument('--fasta_description', default=None) |
| 59 parser.add_argument('--data_table_name', default='rnastar_indexes') | 59 parser.add_argument('--data_table_name', default='rnastar_index') |
| 60 args = parser.parse_args() | 60 args = parser.parse_args() |
| 61 | 61 |
| 62 filename = args.output_filename | 62 filename = args.output_filename |
| 63 | 63 |
| 64 params = load(open(filename, 'rb')) | 64 params = load(open(filename, 'rb')) |