Mercurial > repos > ieguinoa > data_manager_fetch_gff

comparison data_manager/data_manager_fetch_gff.py @ 5:0bdfe2e85fb0 draft default tip

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author ieguinoa
date Thu, 15 Nov 2018 12:10:24 -0500
parents cb0fa3584aeb
children
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4:4b10131cb66d 5:0bdfe2e85fb0
37 sys.stderr.write(msg) 37 sys.stderr.write(msg)
38 sys.exit(1) 38 sys.exit(1)
39 39
40 40
41 def get_dbkey_dbname_id_name( params, dbkey_description=None ): 41 def get_dbkey_dbname_id_name( params, dbkey_description=None ):
42 # dbkey = params['param_dict']['dbkey_source']['dbkey'] 42 dbkey = params['param_dict']['dbkey']
43 #TODO: ensure sequence_id is unique and does not already appear in location file 43 #TODO: ensure sequence_id is unique and does not already appear in location file
44 sequence_id = params['param_dict']['sequence_id'] 44 sequence_id = params['param_dict']['sequence_id']
45 if not sequence_id: 45 if not sequence_id:
46 sequence_id = dbkey #uuid.uuid4() generate and use an uuid instead? 46 sequence_id = dbkey #uuid.uuid4() generate and use an uuid instead?
47 47
48 # if params['param_dict']['dbkey_source']['dbkey_source_selector'] == 'new': 48 # if params['param_dict']['dbkey_source']['dbkey_source_selector'] == 'new':
49 # dbkey_name = params['param_dict']['dbkey_source']['dbkey_name'] 49 # dbkey_name = params['param_dict']['dbkey_source']['dbkey_name']
50 # if not dbkey_name: 50 # if not dbkey_name:
51 # dbkey_name = dbkey 51 # dbkey_name = dbkey
52 # else: 52 # else:
53 # dbkey_name = None 53 # dbkey_name = None
54 dbkey = params['param_dict']['dbkey']
55 dbkey_name = dbkey_description 54 dbkey_name = dbkey_description
56 sequence_name = params['param_dict']['sequence_name'] 55 sequence_name = params['param_dict']['sequence_name']
57 if not sequence_name: 56 if not sequence_name:
58 sequence_name = dbkey_description 57 sequence_name = dbkey_description
59 if not sequence_name: 58 if not sequence_name: