Mercurial > repos > devteam > data_manager_bwa_mem_index_builder
changeset 8:63d5652be07a draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_bwa_mem_index_builder commit 02d2967f77e3fa5a18aea63dc84aa9ab418dc165"
| author | iuc |
|---|---|
| date | Sun, 22 Nov 2020 12:46:31 +0000 |
| parents | 37580590ecfb |
| children | 9e993022c762 |
| files | data_manager/bwa_mem_index_builder.py |
| diffstat | 1 files changed, 5 insertions(+), 3 deletions(-) [+] |
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--- a/data_manager/bwa_mem_index_builder.py Wed Dec 04 16:29:26 2019 -0500 +++ b/data_manager/bwa_mem_index_builder.py Sun Nov 22 12:46:31 2020 +0000 @@ -2,11 +2,11 @@ # Dan Blankenberg from __future__ import print_function +import json import optparse import os import subprocess import sys -from json import dumps, loads CHUNK_SIZE = 2**20 TWO_GB = 2**30 * 2 @@ -68,7 +68,8 @@ filename = args[0] - params = loads(open(filename).read()) + with open(filename) as fh: + params = json.load(fh) target_directory = params['output_data'][0]['extra_files_path'] os.mkdir(target_directory) data_manager_dict = {} @@ -93,7 +94,8 @@ ) # save info to json file - open(filename, 'w').write(dumps(data_manager_dict, sort_keys=True)) + with open(filename, 'w') as fh: + json.dump(data_manager_dict, fh, sort_keys=True) if __name__ == "__main__":