diff gffdm/data_manager/make_json.py @ 2:b3cd759a0064 draft default tip

Uploaded
author cschu
date Sun, 26 Jun 2016 17:04:24 -0400
parents a297bbcd1c01
children
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--- a/gffdm/data_manager/make_json.py	Sun Jun 26 16:58:34 2016 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,33 +0,0 @@
-import json
-import argparse
-import os
-import shutil
-
-
-
-parser = argparse.ArgumentParser(description='Create data manager json.')
-parser.add_argument('--dbkey', action='store')
-parser.add_argument('--provider', action='store')
-parser.add_argument('--ref', action='store')
-parser.add_argument('--out', action='store')
-
-args = parser.parse_args()
-
-def main(args):
-    data_manager_entry = {}
-    data_manager_entry['value'] = args.dbkey.lower()
-    data_manager_entry['name'] = args.dbkey
-    data_manager_entry['path'] = '.'
-    data_manager_entry['ref'] = args.ref
-    data_manager_entry['provider'] = args.provider
-    data_manager_json = dict(data_tables=dict(gene_sets=data_manager_entry))
-    params = json.loads(open(args.out).read())
-    target_directory = params['output_data'][0]['extra_files_path']
-    os.mkdir(target_directory)
-    output_path = os.path.join(os.getcwd(), 'featurecount_gxf')
-    for filename in os.listdir(output_path):
-        shutil.move(os.path.join(output_path, filename), target_directory)
-    file(args.output, 'w').write(json.dumps(data_manager_json))
-
-if __name__ == '__main__':
-    main(args)