Mercurial > repos > ntino > galaxy_to_biocompute_object

comparison jsonParse.py @ 3:ac421dc9bda8 draft default tip

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author ntino
date Mon, 06 May 2019 20:20:59 -0400
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2:26da5281cbf8 3:ac421dc9bda8
1 #!/usr/bin/env python
2
3
4 import json, sys
5
6 with open(sys.argv[1]) as file:
7 data = json.load(file)
8 tool = {}
9 for i in range(len(data['steps'].keys())):
10 tool[i] = {}
11
12 print data['steps'][str(i)]['id']
13 tool[i]['step_number'] = data['steps'][str(i)]['id']
14 print data['steps'][str(i)]['name']
15 tool[i]['name'] = data['steps'][str(i)]['name']
16 print data['steps'][str(i)]['tool_version']
17 tool[i]['tool_version'] = data['steps'][str(i)]['tool_version']
18 print data['steps'][str(i)]['tool_id']
19 tool[i]['tool_id'] = data['steps'][str(i)]['tool_id']
20 tool[i]['input_list'] = []
21 for step in data['steps'][str(i)]['inputs']:
22 print step['name'], step['description']
23 a = {'name': step['name'], 'description': step['description']}
24 tool[i]['input_list'].append(a)
25 print ''
26 tool[i]['output_list'] = []
27 for step in data['steps'][str(i)]['outputs']:
28 print step['name'], step['type']
29 a = {'name': str(step['name']+'.'+step['type']), 'type': step['type']}
30 # tool[i]['output_list']['address'] =
31 tool[i]['output_list'].append(a)
32 print '\n'
33 json_data = json.dumps(tool)
34
35 for i in tool:
36 print json.dumps(tool[i])
37
38 print type(tool.keys())
39
40 with open(sys.argv[2], 'w') as file:
41 file.write('[')
42 for i in tool.keys():
43 file.write(json.dumps(tool[i], sort_keys=True, indent=4))
44 if i == tool.keys()[-1]: continue
45 else: file.write(',')
46 file.write(']')
47