Mercurial > repos > climate > cads
view cads_retrieve.py @ 0:b768e517a7d0 draft default tip
"planemo upload for repository https://github.com/NordicESMhub/galaxy-tools/tree/master/tools/cads commit 778688ee8d14e22b00b648858ad9bd1c2f46b1e0"
author | climate |
---|---|
date | Sat, 19 Jun 2021 18:35:50 +0000 |
parents | |
children |
line wrap: on
line source
import argparse import ast from os import environ, path import cdsapi parser = argparse.ArgumentParser() parser.add_argument("-i", "--request", type=str, help="input API request") parser.add_argument("-o", "--output", type=str, help="output API request") args = parser.parse_args() mapped_chars = { '>': '__gt__', '<': '__lt__', "'": '__sq__', '"': '__dq__', '[': '__ob__', ']': '__cb__', '{': '__oc__', '}': '__cc__', '@': '__at__', '#': '__pd__', "": '__cn__' } with open(args.request) as f: req = f.read() # Unsanitize labels (element_identifiers are always sanitized by Galaxy) for key, value in mapped_chars.items(): req = req.replace(value, key) print("req = ", req) c3s_type = req.split('c.retrieve')[1].split('(')[1].split(',')[0].strip(' "\'\t\r\n') c3s_req = '{' + req.split('{', 1)[1].rsplit('}', 1)[0].replace('\n', '') + '}' c3s_req_dict = ast.literal_eval(c3s_req) c3s_output = req.rsplit('}', 1)[1].split(',')[1].split(')')[0].strip(' "\'\t\r\n') with open(args.output, "w") as f: f.write(f'dataset to retrieve: {c3s_type}\nrequest: {c3s_req}\noutput filename: {c3s_output}') print("start retrieving data...") cdapi_file = path.join(environ.get('HOME'), '.cdsapirc') if path.isfile(cdapi_file): c = cdsapi.Client() c.retrieve( c3s_type, c3s_req_dict, c3s_output) print("data retrieval successful")