Mercurial > repos > stevecassidy > alveoimport
view alveo_get_item_list.py @ 18:5e1b7d922ea3 draft default tip
planemo upload for repository https://github.com/Alveo/alveo-galaxy-tools commit 53cde5cc9b8c1adcccdc3cfa52d8ca82079aeda7
author | stevecassidy |
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date | Mon, 15 Jan 2018 18:34:57 -0500 |
parents | a38315ecf593 |
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from __future__ import print_function import argparse import pyalveo import sys from util import API_URL def parser(): p = argparse.ArgumentParser(description="Downloads documents in an Alveo Item List") p.add_argument('--api_key', required=True, action="store", type=str, help="Alveo API key") p.add_argument('--item_list_url', required=True, action="store", type=str, help="Item List to download") p.add_argument('--output', required=True, action="store", type=str, help="output file name") return p.parse_args() def main(): args = parser() try: api_key = open(args.api_key, 'r').read().strip() client = pyalveo.Client(api_key=api_key, api_url=API_URL, use_cache=False) item_list = client.get_item_list(args.item_list_url) with open(args.output, 'w') as out: out.write("ItemURL\n") for item in item_list: out.write(item + "\n") except pyalveo.APIError as e: print("ERROR: " + str(e), file=sys.stderr) sys.exit(1) if __name__ == '__main__': main()