Mercurial > repos > earlhaminst > ensembl_get_sequences

comparison get_feature_info.py @ 6:7af66c2b3831 draft default tip

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"planemo upload for repository https://github.com/TGAC/earlham-galaxytools/tree/master/tools/Ensembl-REST commit 17c65045b726d0695814bfe761e534f6521786f1"
author earlhaminst
date Tue, 20 Oct 2020 15:07:23 +0000
parents 0fa1d1cc417d
children
comparison
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5:0fa1d1cc417d 6:7af66c2b3831
21 options, args = parser.parse_args() 21 options, args = parser.parse_args()
22 if options.input is None: 22 if options.input is None:
23 raise Exception('-i option must be specified') 23 raise Exception('-i option must be specified')
24 24
25 25
26 server = 'http://rest.ensembl.org' 26 server = 'https://rest.ensembl.org'
27 ext = 'lookup/id' 27 ext = 'lookup/id'
28 28
29 headers = {'Content-Type': 'application/json', 'Accept': 'application/json'} 29 headers = {'Content-Type': 'application/json', 'Accept': 'application/json'}
30 params = dict((k, getattr(options, k)) for k in ['format', 'expand']) 30 params = dict((k, getattr(options, k)) for k in ['format', 'expand'])
31 31
40 break 40 break
41 if not first: 41 if not first:
42 print(",") 42 print(",")
43 data = {'ids': ids} 43 data = {'ids': ids}
44 r = requests.post(urljoin(server, ext), params=params, headers=headers, 44 r = requests.post(urljoin(server, ext), params=params, headers=headers,
45 data=json.dumps(data)) 45 data=json.dumps(data), allow_redirects=False)
46 46
47 if not r.ok: 47 if not r.ok:
48 r.raise_for_status() 48 r.raise_for_status()
49 49
50 print(r.text[1:-1]) 50 print(r.text[1:-1])