Mercurial > repos > iuc > ena_upload
diff check_remote.py @ 4:26ccb678abc8 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ena_upload commit ba358013c83e7dfffec895946d36585f237e54c5"
author | iuc |
---|---|
date | Tue, 19 Oct 2021 15:57:14 +0000 |
parents | |
children | 4aab5ae907b6 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/check_remote.py Tue Oct 19 15:57:14 2021 +0000 @@ -0,0 +1,23 @@ +import json + +import requests + +URL = "https://www.ebi.ac.uk/ena/portal/api/search" + + +def check_remote_entry(entry_type, query_dict, out_format='json'): + ''' + Checks if an entry with that alias exists in the ENA repos + entry_type = [study | sample | experiment | run] + ''' + assert entry_type in ['study', 'sample', 'experiment', 'run'] + params_dict = {} + query_str = ' AND '.join(['%s=%s' % (key, value) for (key, value) in query_dict.items()]) + params_dict['query'] = query_str + params_dict['result'] = 'read_' + entry_type + params_dict['fields'] = entry_type + '_alias' + params_dict['format'] = out_format + response = requests.post(URL, data=params_dict) + if response.content != b'': + return json.loads(response.content) + return []