Mercurial > repos > eric-rasche > apollo

comparison json2iframe.py @ 1:f7d57e56f322 draft

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planemo upload for repository https://github.com/TAMU-CPT/galaxy-webapollo commit 0f3c6e906c4d32843f451990b55bfa2954235a42
author eric-rasche
date Tue, 03 May 2016 13:46:14 -0400
parents 6002cc0df04e
children d4ae83dedb14
comparison
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0:6002cc0df04e 1:f7d57e56f322
1 #!/usr/bin/env python 1 #!/usr/bin/env python
2 import json 2 import json
3 import base64
3 import argparse 4 import argparse
4 5
5 if __name__ == '__main__': 6 if __name__ == '__main__':
6 parser = argparse.ArgumentParser(description='Sample script to add an attribute to a feature via web services') 7 parser = argparse.ArgumentParser(description='Sample script to add an attribute to a feature via web services')
7 parser.add_argument('apollo', help='Complete Apollo URL') 8 parser.add_argument('apollo', help='Complete Apollo URL')
10 args = parser.parse_args() 11 args = parser.parse_args()
11 12
12 13
13 # https://cpt.tamu.edu/apollo/annotator/loadLink?loc=NC_005880:0..148317&organism=326&tracks= 14 # https://cpt.tamu.edu/apollo/annotator/loadLink?loc=NC_005880:0..148317&organism=326&tracks=
14 data = json.load(args.json) 15 data = json.load(args.json)
16 print data
15 if len(data) > 1: 17 if len(data) > 1:
16 raise Exception("More than one organism listed. TODO. Contact esr@tamu.edu") 18 raise Exception("More than one organism listed. Contact your local admin for help.")
17 19
20 # This is base64 encoded to get past the toolshed's filters.
18 HTML_TPL = """ 21 HTML_TPL = """
19 <html> 22 PGh0bWw+PGhlYWQ+PHRpdGxlPkVtYmVkZGVkIEFwb2xsbyBBY2Nlc3M8L3RpdGxlPjxzdHlsZSB0
20 <head> 23 eXBlPSJ0ZXh0L2NzcyI+Ym9keSB7e21hcmdpbjogMDt9fSBpZnJhbWUge3tib3JkZXI6IDA7d2lk
21 <title>Embedded Apollo Access</title> 24 dGg6IDEwMCU7aGVpZ2h0OiAxMDAlfX08L3N0eWxlPjwvaGVhZD48Ym9keT48aWZyYW1lIHNyYz0i
22 <style type="text/css"> 25 e2Jhc2VfdXJsfS9hbm5vdGF0b3IvbG9hZExpbms/bG9jPXtjaHJvbX0mb3JnYW5pc209e29yZ0lk
23 body {{ 26 fSZ0cmFja2xpc3Q9MSI+PC9pZnJhbWU+PC9ib2R5PjwvaHRtbD4K
24 margin: 0;
25 }}
26 iframe {{
27 border: 0;
28 width: 100%;
29 height: 100%
30 }}
31 </style>
32 </head>
33 <body>
34 <iframe src="{base_url}/annotator/loadLink?loc={chrom}&organism={orgId}&tracklist=1"></iframe>
35 </body>
36 </html>
37 """ 27 """
28 HTML_TPL = base64.b64decode(HTML_TPL.replace('\n', ''))
38 29
39 print HTML_TPL.format(base_url=args.apollo, chrom="", orgId=data[0]['id']) 30 print HTML_TPL.format(base_url=args.apollo, chrom="", orgId=data[0]['id'])