Mercurial > repos > gga > apollo_list_organism
view list_organisms.py @ 8:2c749ed310da draft
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/apollo commit 2488ac4ea447c45886ce5c7b102fb28c5839d26b
author | gga |
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date | Wed, 10 Apr 2019 14:07:45 -0400 |
parents | a3000d01c04c |
children | bc2b80fc7e30 |
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#!/usr/bin/env python from __future__ import print_function import argparse import json from webapollo import WAAuth, WebApolloInstance, accessible_organisms if __name__ == '__main__': parser = argparse.ArgumentParser(description='List all organisms available in an Apollo instance') WAAuth(parser) parser.add_argument('email', help='User Email') args = parser.parse_args() wa = WebApolloInstance(args.apollo, args.username, args.password) gx_user = wa.users.assertOrCreateUser(args.email) all_orgs = wa.organisms.findAllOrganisms() orgs = accessible_organisms(gx_user, all_orgs) print(json.dumps(orgs, indent=2))