[79729d5] | 1 | #!/usr/bin/env python3 |
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[efdb01a] | 2 | # -*- coding: utf-8 -*- |
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[991df6a] | 3 | #******************************************************************************* |
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| 4 | # @Author: Anne Philipp (University of Vienna) |
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| 5 | # |
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| 6 | # @Date: May 2018 |
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| 7 | # |
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| 8 | # @Change History: |
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| 9 | # October 2014 - Anne Fouilloux (University of Oslo) |
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[ff99eae] | 10 | # - created functions silent_remove and product (taken from ECMWF) |
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[991df6a] | 11 | # |
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| 12 | # November 2015 - Leopold Haimberger (University of Vienna) |
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[ff99eae] | 13 | # - created functions: interpret_args_and_control, clean_up |
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| 14 | # my_error, normal_exit, init128, to_param_id |
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[991df6a] | 15 | # |
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[6f951ca] | 16 | # April - December 2018 - Anne Philipp (University of Vienna): |
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[991df6a] | 17 | # - applied PEP8 style guide |
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| 18 | # - added documentation |
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[6f951ca] | 19 | # - moved all non class methods from former file Flexparttools in here |
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[54a8a01] | 20 | # - seperated args and control interpretation |
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[6f951ca] | 21 | # - added functions get_list_as_string, read_ecenv, send_mail, make_dir, |
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| 22 | # put_file_to_ecserver, submit_job_to_ecserver, get_informations, |
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| 23 | # get_dimensions, execute_subprocess, none_or_int, none_or_str |
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[991df6a] | 24 | # |
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| 25 | # @License: |
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[6f951ca] | 26 | # (C) Copyright 2014-2019. |
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| 27 | # Anne Philipp, Leopold Haimberger |
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[991df6a] | 28 | # |
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[6f951ca] | 29 | # This work is licensed under the Creative Commons Attribution 4.0 |
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| 30 | # International License. To view a copy of this license, visit |
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| 31 | # http://creativecommons.org/licenses/by/4.0/ or send a letter to |
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| 32 | # Creative Commons, PO Box 1866, Mountain View, CA 94042, USA. |
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[991df6a] | 33 | # |
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[6f951ca] | 34 | # @Methods: |
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| 35 | # none_or_str |
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| 36 | # none_or_int |
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| 37 | # get_cmdline_args |
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| 38 | # read_ecenv |
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| 39 | # clean_up |
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| 40 | # my_error |
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| 41 | # send_mail |
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| 42 | # normal_exit |
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| 43 | # product |
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| 44 | # silent_remove |
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| 45 | # init128 |
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| 46 | # to_param_id |
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| 47 | # get_list_as_string |
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| 48 | # make_dir |
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| 49 | # put_file_to_ecserver |
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| 50 | # submit_job_to_ecserver |
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| 51 | # get_informations |
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| 52 | # get_dimensions |
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| 53 | # execute_subprocess |
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[991df6a] | 54 | #******************************************************************************* |
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[6f951ca] | 55 | '''This module contains a collection of diverse tasks within flex_extract. |
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| 56 | ''' |
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[efdb01a] | 57 | |
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| 58 | # ------------------------------------------------------------------------------ |
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| 59 | # MODULES |
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| 60 | # ------------------------------------------------------------------------------ |
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| 61 | import os |
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| 62 | import errno |
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| 63 | import sys |
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| 64 | import glob |
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[ff99eae] | 65 | import subprocess |
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[991df6a] | 66 | import traceback |
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[f20af73] | 67 | try: |
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| 68 | import exceptions |
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| 69 | except ImportError: |
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| 70 | import builtins as exceptions |
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[095dc73] | 71 | from datetime import datetime |
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[991df6a] | 72 | from argparse import ArgumentParser, ArgumentDefaultsHelpFormatter |
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[efdb01a] | 73 | |
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[f20af73] | 74 | |
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| 75 | |
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[efdb01a] | 76 | # ------------------------------------------------------------------------------ |
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[6f951ca] | 77 | # METHODS |
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[efdb01a] | 78 | # ------------------------------------------------------------------------------ |
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| 79 | |
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[f20af73] | 80 | def setup_controldata(): |
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| 81 | '''Collects, stores and checks controlling arguments from command line, |
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| 82 | CONTROL file and ECMWF_ENV file. |
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| 83 | |
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| 84 | Parameters |
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| 85 | ---------- |
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| 86 | |
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| 87 | Return |
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| 88 | ------ |
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| 89 | c : ControlFile |
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| 90 | Contains all the parameters of CONTROL file and |
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| 91 | command line. |
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| 92 | |
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| 93 | ppid : str |
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| 94 | Parent process id. |
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| 95 | |
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| 96 | queue : str |
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| 97 | Name of queue for submission to ECMWF (e.g. ecgate or cca ) |
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| 98 | |
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| 99 | job_template : str |
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| 100 | Name of the job template file for submission to ECMWF server. |
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| 101 | ''' |
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| 102 | import _config |
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| 103 | from classes.ControlFile import ControlFile |
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| 104 | |
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| 105 | args = get_cmdline_args() |
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| 106 | c = ControlFile(args.controlfile) |
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| 107 | c.assign_args_to_control(args) |
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| 108 | if os.path.isfile(_config.PATH_ECMWF_ENV): |
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| 109 | env_parameter = read_ecenv(_config.PATH_ECMWF_ENV) |
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| 110 | c.assign_envs_to_control(env_parameter) |
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| 111 | c.check_conditions(args.queue) |
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| 112 | |
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| 113 | return c, args.ppid, args.queue, args.job_template |
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| 114 | |
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[ca867de] | 115 | def none_or_str(value): |
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[274f9ef] | 116 | '''Converts the input string into pythons None-type if the string |
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| 117 | contains string "None". |
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| 118 | |
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| 119 | Parameters |
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| 120 | ---------- |
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[6f951ca] | 121 | value : str |
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[274f9ef] | 122 | String to be checked for the "None" word. |
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| 123 | |
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| 124 | Return |
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| 125 | ------ |
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| 126 | None or value: |
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| 127 | Return depends on the content of the input value. If it was "None", |
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| 128 | then the python type None is returned. Otherwise the string itself. |
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[ca867de] | 129 | ''' |
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| 130 | if value == 'None': |
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| 131 | return None |
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| 132 | return value |
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| 133 | |
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| 134 | def none_or_int(value): |
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[274f9ef] | 135 | '''Converts the input string into pythons None-type if the string |
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| 136 | contains string "None". Otherwise it is converted to an integer value. |
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| 137 | |
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| 138 | Parameters |
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| 139 | ---------- |
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[6f951ca] | 140 | value : str |
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[274f9ef] | 141 | String to be checked for the "None" word. |
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| 142 | |
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| 143 | Return |
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| 144 | ------ |
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| 145 | None or int(value): |
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| 146 | Return depends on the content of the input value. If it was "None", |
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| 147 | then the python type None is returned. Otherwise the string is |
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| 148 | converted into an integer value. |
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[ca867de] | 149 | ''' |
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| 150 | if value == 'None': |
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| 151 | return None |
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| 152 | return int(value) |
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| 153 | |
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[9aefaad] | 154 | def get_cmdline_args(): |
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[274f9ef] | 155 | '''Decomposes the command line arguments and assigns them to variables. |
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| 156 | Apply default values for non mentioned arguments. |
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[efdb01a] | 157 | |
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[274f9ef] | 158 | Parameters |
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| 159 | ---------- |
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[efdb01a] | 160 | |
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[274f9ef] | 161 | Return |
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| 162 | ------ |
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[6f951ca] | 163 | args : Namespace |
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[274f9ef] | 164 | Contains the commandline arguments from script/program call. |
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[efdb01a] | 165 | ''' |
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[54a8a01] | 166 | |
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[efdb01a] | 167 | parser = ArgumentParser(description='Retrieve FLEXPART input from \ |
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[54a8a01] | 168 | ECMWF MARS archive', |
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[efdb01a] | 169 | formatter_class=ArgumentDefaultsHelpFormatter) |
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| 170 | |
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[095dc73] | 171 | # control parameters that override control file values |
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[ca867de] | 172 | parser.add_argument("--start_date", dest="start_date", |
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| 173 | type=none_or_str, default=None, |
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[efdb01a] | 174 | help="start date YYYYMMDD") |
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[ca867de] | 175 | parser.add_argument("--end_date", dest="end_date", |
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| 176 | type=none_or_str, default=None, |
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[efdb01a] | 177 | help="end_date YYYYMMDD") |
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[ca867de] | 178 | parser.add_argument("--date_chunk", dest="date_chunk", |
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| 179 | type=none_or_int, default=None, |
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[efdb01a] | 180 | help="# of days to be retrieved at once") |
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[f2616a3] | 181 | parser.add_argument("--job_chunk", dest="job_chunk", |
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| 182 | type=none_or_int, default=None, |
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| 183 | help="# of days to be retrieved within a single job") |
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[ca867de] | 184 | parser.add_argument("--controlfile", dest="controlfile", |
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| 185 | type=none_or_str, default='CONTROL.temp', |
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| 186 | help="file with CONTROL parameters") |
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| 187 | parser.add_argument("--basetime", dest="basetime", |
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| 188 | type=none_or_int, default=None, |
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[d4696e0] | 189 | help="base such as 0 or 12 (for half day retrievals)") |
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[ca867de] | 190 | parser.add_argument("--step", dest="step", |
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| 191 | type=none_or_str, default=None, |
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[efdb01a] | 192 | help="steps such as 00/to/48") |
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[ca867de] | 193 | parser.add_argument("--levelist", dest="levelist", |
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| 194 | type=none_or_str, default=None, |
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[efdb01a] | 195 | help="Vertical levels to be retrieved, e.g. 30/to/60") |
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[ca867de] | 196 | parser.add_argument("--area", dest="area", |
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| 197 | type=none_or_str, default=None, |
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[efdb01a] | 198 | help="area defined as north/west/south/east") |
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| 199 | |
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[095dc73] | 200 | # some switches |
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| 201 | parser.add_argument("--debug", dest="debug", |
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| 202 | type=none_or_int, default=None, |
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| 203 | help="debug mode - leave temporary files intact") |
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[d4696e0] | 204 | parser.add_argument("--oper", dest="oper", |
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| 205 | type=none_or_int, default=None, |
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| 206 | help="operational mode - prepares dates with \ |
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| 207 | environment variables") |
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[095dc73] | 208 | parser.add_argument("--request", dest="request", |
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| 209 | type=none_or_int, default=None, |
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| 210 | help="list all mars requests in file mars_requests.dat") |
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| 211 | parser.add_argument("--public", dest="public", |
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| 212 | type=none_or_int, default=None, |
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| 213 | help="public mode - retrieves the public datasets") |
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| 214 | parser.add_argument("--rrint", dest="rrint", |
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| 215 | type=none_or_int, default=None, |
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| 216 | help="select old or new precipitation interpolation \ |
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| 217 | 0 - old method\ |
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| 218 | 1 - new method (additional subgrid points)") |
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| 219 | |
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| 220 | # set directories |
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[ca867de] | 221 | parser.add_argument("--inputdir", dest="inputdir", |
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| 222 | type=none_or_str, default=None, |
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[efdb01a] | 223 | help="root directory for storing intermediate files") |
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[ca867de] | 224 | parser.add_argument("--outputdir", dest="outputdir", |
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| 225 | type=none_or_str, default=None, |
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[efdb01a] | 226 | help="root directory for storing output files") |
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[2fef1f2] | 227 | parser.add_argument("--flexpartdir", dest="flexpartdir", |
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[ca867de] | 228 | type=none_or_str, default=None, |
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[efdb01a] | 229 | help="FLEXPART root directory (to find grib2flexpart \ |
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[54a8a01] | 230 | and COMMAND file)\n Normally flex_extract resides in \ |
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[efdb01a] | 231 | the scripts directory of the FLEXPART distribution") |
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| 232 | |
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[ff99eae] | 233 | # this is only used by prepare_flexpart.py to rerun a postprocessing step |
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[ca867de] | 234 | parser.add_argument("--ppid", dest="ppid", |
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[786cfd6] | 235 | type=none_or_str, default=None, |
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[54a8a01] | 236 | help="specify parent process id for \ |
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[ff99eae] | 237 | rerun of prepare_flexpart") |
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[efdb01a] | 238 | |
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| 239 | # arguments for job submission to ECMWF, only needed by submit.py |
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| 240 | parser.add_argument("--job_template", dest='job_template', |
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[ca867de] | 241 | type=none_or_str, default="job.temp", |
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[efdb01a] | 242 | help="job template file for submission to ECMWF") |
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[ca867de] | 243 | parser.add_argument("--queue", dest="queue", |
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| 244 | type=none_or_str, default=None, |
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[efdb01a] | 245 | help="queue for submission to ECMWF \ |
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| 246 | (e.g. ecgate or cca )") |
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| 247 | |
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| 248 | args = parser.parse_args() |
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| 249 | |
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[54a8a01] | 250 | return args |
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[efdb01a] | 251 | |
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[96e1533] | 252 | def read_ecenv(filepath): |
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[274f9ef] | 253 | '''Reads the file into a dictionary where the key values are the parameter |
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| 254 | names. |
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| 255 | |
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| 256 | Parameters |
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| 257 | ---------- |
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[6f951ca] | 258 | filepath : str |
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[274f9ef] | 259 | Path to file where the ECMWF environment parameters are stored. |
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| 260 | |
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| 261 | Return |
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| 262 | ------ |
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[6f951ca] | 263 | envs : dict |
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[274f9ef] | 264 | Contains the environment parameter ecuid, ecgid, gateway |
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| 265 | and destination for ECMWF server environments. |
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[54a8a01] | 266 | ''' |
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| 267 | envs= {} |
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[96e1533] | 268 | try: |
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| 269 | with open(filepath, 'r') as f: |
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| 270 | for line in f: |
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| 271 | data = line.strip().split() |
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| 272 | envs[str(data[0])] = str(data[1]) |
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| 273 | except OSError as e: |
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| 274 | print('... ERROR CODE: ' + str(e.errno)) |
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| 275 | print('... ERROR MESSAGE:\n \t ' + str(e.strerror)) |
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[2fb99de] | 276 | |
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[96e1533] | 277 | sys.exit('\n... Error occured while trying to read ECMWF_ENV ' |
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| 278 | 'file: ' + str(filepath)) |
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[efdb01a] | 279 | |
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[54a8a01] | 280 | return envs |
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[efdb01a] | 281 | |
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[ff99eae] | 282 | def clean_up(c): |
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[96e1533] | 283 | '''Remove files from the intermediate directory (inputdir). |
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| 284 | |
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| 285 | It keeps the final FLEXPART input files if program runs without |
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| 286 | ECMWF Api and keywords "ectrans" or "ecstorage" are set to "1". |
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[274f9ef] | 287 | |
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| 288 | Parameters |
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| 289 | ---------- |
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[6f951ca] | 290 | c : ControlFile |
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[274f9ef] | 291 | Contains all the parameters of CONTROL file and |
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| 292 | command line. |
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| 293 | |
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| 294 | Return |
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| 295 | ------ |
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| 296 | |
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[efdb01a] | 297 | ''' |
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| 298 | |
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[96e1533] | 299 | print("... clean inputdir!") |
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[efdb01a] | 300 | |
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[f20af73] | 301 | cleanlist = [file for file in glob.glob(os.path.join(c.inputdir, "*")) |
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| 302 | if not os.path.basename(file).startswith(c.prefix)] |
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[efdb01a] | 303 | |
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[96e1533] | 304 | if cleanlist: |
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| 305 | for element in cleanlist: |
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[f20af73] | 306 | silent_remove(element) |
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[96e1533] | 307 | print("... done!") |
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| 308 | else: |
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| 309 | print("... nothing to clean!") |
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[efdb01a] | 310 | |
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| 311 | return |
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| 312 | |
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| 313 | |
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[f20af73] | 314 | def my_error(message='ERROR'): |
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[274f9ef] | 315 | '''Prints a specified error message which can be passed to the function |
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| 316 | before exiting the program. |
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| 317 | |
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| 318 | Parameters |
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| 319 | ---------- |
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[6f951ca] | 320 | message : str, optional |
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[274f9ef] | 321 | Error message. Default value is "ERROR". |
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[efdb01a] | 322 | |
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[274f9ef] | 323 | Return |
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| 324 | ------ |
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[efdb01a] | 325 | |
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| 326 | ''' |
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[ff99eae] | 327 | |
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[96e1533] | 328 | trace = '\n'.join(traceback.format_stack()) |
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| 329 | full_message = message + '\n\n' + trace |
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[ff99eae] | 330 | |
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[96e1533] | 331 | print(full_message) |
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[54a8a01] | 332 | |
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| 333 | sys.exit(1) |
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[efdb01a] | 334 | |
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| 335 | return |
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| 336 | |
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| 337 | |
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[96e1533] | 338 | def send_mail(users, success_mode, message): |
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[274f9ef] | 339 | '''Prints a specific exit message which can be passed to the function. |
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[efdb01a] | 340 | |
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[274f9ef] | 341 | Parameters |
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| 342 | ---------- |
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[6f951ca] | 343 | users : list of str |
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[274f9ef] | 344 | Contains all email addresses which should be notified. |
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| 345 | It might also contain just the ecmwf user name which wil trigger |
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| 346 | mailing to the associated email address for this user. |
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[efdb01a] | 347 | |
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[6f951ca] | 348 | success_mode : str |
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[96e1533] | 349 | States the exit mode of the program to put into |
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| 350 | the mail subject line. |
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| 351 | |
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[6f951ca] | 352 | message : str, optional |
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[274f9ef] | 353 | Message for exiting program. Default value is "Done!". |
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[efdb01a] | 354 | |
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[274f9ef] | 355 | Return |
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| 356 | ------ |
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[efdb01a] | 357 | |
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| 358 | ''' |
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[ff99eae] | 359 | |
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[54a8a01] | 360 | for user in users: |
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| 361 | if '${USER}' in user: |
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| 362 | user = os.getenv('USER') |
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| 363 | try: |
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[96e1533] | 364 | p = subprocess.Popen(['mail', '-s flex_extract_v7.1 ' + |
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| 365 | success_mode, os.path.expandvars(user)], |
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[ff99eae] | 366 | stdin=subprocess.PIPE, |
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| 367 | stdout=subprocess.PIPE, |
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| 368 | stderr=subprocess.PIPE, |
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| 369 | bufsize=1) |
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[79729d5] | 370 | pout = p.communicate(input=message.encode() + '\n\n')[0] |
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[54a8a01] | 371 | except ValueError as e: |
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[96e1533] | 372 | print('... ERROR: ' + str(e)) |
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| 373 | sys.exit('... Email could not be sent!') |
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| 374 | except OSError as e: |
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| 375 | print('... ERROR CODE: ' + str(e.errno)) |
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| 376 | print('... ERROR MESSAGE:\n \t ' + str(e.strerror)) |
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| 377 | sys.exit('... Email could not be sent!') |
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[54a8a01] | 378 | else: |
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[96e1533] | 379 | print('Email sent to ' + os.path.expandvars(user)) |
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| 380 | |
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| 381 | return |
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| 382 | |
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| 383 | |
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| 384 | def normal_exit(message='Done!'): |
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| 385 | '''Prints a specific exit message which can be passed to the function. |
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| 386 | |
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| 387 | Parameters |
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| 388 | ---------- |
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[6f951ca] | 389 | message : str, optional |
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[96e1533] | 390 | Message for exiting program. Default value is "Done!". |
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| 391 | |
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| 392 | Return |
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| 393 | ------ |
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| 394 | |
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| 395 | ''' |
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| 396 | |
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| 397 | print(str(message)) |
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[efdb01a] | 398 | |
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| 399 | return |
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| 400 | |
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| 401 | |
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| 402 | def product(*args, **kwds): |
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[96e1533] | 403 | '''Creates combinations of all passed arguments. |
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| 404 | |
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| 405 | This method combines the single characters of the passed arguments |
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[274f9ef] | 406 | with each other. So that each character of each argument value |
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| 407 | will be combined with each character of the other arguments as a tuple. |
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| 408 | |
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| 409 | Note |
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| 410 | ---- |
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| 411 | This method is taken from an example at the ECMWF wiki website. |
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| 412 | https://software.ecmwf.int/wiki/display/GRIB/index.py; 2018-03-16 |
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| 413 | |
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| 414 | Example |
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| 415 | ------- |
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| 416 | product('ABCD', 'xy') --> Ax Ay Bx By Cx Cy Dx Dy |
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| 417 | |
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| 418 | product(range(2), repeat = 3) --> 000 001 010 011 100 101 110 111 |
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| 419 | |
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| 420 | Parameters |
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| 421 | ---------- |
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[6f951ca] | 422 | \*args : list or str |
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[274f9ef] | 423 | Positional arguments (arbitrary number). |
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| 424 | |
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[6f951ca] | 425 | \*\*kwds : dict |
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[274f9ef] | 426 | Contains all the keyword arguments from \*args. |
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| 427 | |
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| 428 | Return |
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| 429 | ------ |
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| 430 | prod : :obj:`tuple` |
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| 431 | Return will be done with "yield". A tuple of combined arguments. |
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| 432 | See example in description above. |
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[efdb01a] | 433 | ''' |
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[96e1533] | 434 | try: |
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[79729d5] | 435 | pools = [tuple(arg) for arg in args] * kwds.get('repeat', 1) |
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[96e1533] | 436 | result = [[]] |
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| 437 | for pool in pools: |
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| 438 | result = [x + [y] for x in result for y in pool] |
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| 439 | for prod in result: |
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| 440 | yield tuple(prod) |
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| 441 | except TypeError as e: |
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| 442 | sys.exit('... PRODUCT GENERATION FAILED!') |
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[efdb01a] | 443 | |
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| 444 | return |
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| 445 | |
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| 446 | |
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[ff99eae] | 447 | def silent_remove(filename): |
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[274f9ef] | 448 | '''Remove file if it exists. |
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| 449 | The function does not fail if the file does not exist. |
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| 450 | |
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| 451 | Parameters |
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| 452 | ---------- |
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[6f951ca] | 453 | filename : str |
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[274f9ef] | 454 | The name of the file to be removed without notification. |
---|
[efdb01a] | 455 | |
---|
[274f9ef] | 456 | Return |
---|
| 457 | ------ |
---|
[efdb01a] | 458 | |
---|
| 459 | ''' |
---|
| 460 | try: |
---|
| 461 | os.remove(filename) |
---|
| 462 | except OSError as e: |
---|
[96e1533] | 463 | # errno.ENOENT = no such file or directory |
---|
| 464 | if e.errno == errno.ENOENT: |
---|
| 465 | pass |
---|
| 466 | else: |
---|
[efdb01a] | 467 | raise # re-raise exception if a different error occured |
---|
| 468 | |
---|
| 469 | return |
---|
| 470 | |
---|
| 471 | |
---|
[ff99eae] | 472 | def init128(filepath): |
---|
[274f9ef] | 473 | '''Opens and reads the grib file with table 128 information. |
---|
| 474 | |
---|
| 475 | Parameters |
---|
| 476 | ---------- |
---|
[6f951ca] | 477 | filepath : str |
---|
[274f9ef] | 478 | Path to file of ECMWF grib table number 128. |
---|
| 479 | |
---|
| 480 | Return |
---|
| 481 | ------ |
---|
[6f951ca] | 482 | table128 : dict |
---|
[274f9ef] | 483 | Contains the ECMWF grib table 128 information. |
---|
| 484 | The key is the parameter number and the value is the |
---|
| 485 | short name of the parameter. |
---|
[efdb01a] | 486 | ''' |
---|
| 487 | table128 = dict() |
---|
[96e1533] | 488 | try: |
---|
| 489 | with open(filepath) as f: |
---|
| 490 | fdata = f.read().split('\n') |
---|
| 491 | except OSError as e: |
---|
| 492 | print('... ERROR CODE: ' + str(e.errno)) |
---|
| 493 | print('... ERROR MESSAGE:\n \t ' + str(e.strerror)) |
---|
| 494 | |
---|
| 495 | sys.exit('\n... Error occured while trying to read parameter ' |
---|
| 496 | 'table file: ' + str(filepath)) |
---|
| 497 | else: |
---|
| 498 | for data in fdata: |
---|
[f20af73] | 499 | if data != '' and data[0] != '!': |
---|
| 500 | table128[data[0:3]] = data[59:65].strip() |
---|
[efdb01a] | 501 | |
---|
| 502 | return table128 |
---|
| 503 | |
---|
| 504 | |
---|
[ff99eae] | 505 | def to_param_id(pars, table): |
---|
[274f9ef] | 506 | '''Transform parameter names to parameter ids with ECMWF grib table 128. |
---|
| 507 | |
---|
| 508 | Parameters |
---|
| 509 | ---------- |
---|
[6f951ca] | 510 | pars : str |
---|
[274f9ef] | 511 | Addpar argument from CONTROL file in the format of |
---|
| 512 | parameter names instead of ids. The parameter short |
---|
| 513 | names are sepearted with "/" and they are passed as |
---|
| 514 | one single string. |
---|
| 515 | |
---|
[6f951ca] | 516 | table : dict |
---|
[274f9ef] | 517 | Contains the ECMWF grib table 128 information. |
---|
| 518 | The key is the parameter number and the value is the |
---|
| 519 | short name of the parameter. |
---|
| 520 | |
---|
| 521 | Return |
---|
| 522 | ------ |
---|
[6f951ca] | 523 | ipar : list of int |
---|
[274f9ef] | 524 | List of addpar parameters from CONTROL file transformed to |
---|
| 525 | parameter ids in the format of integer. |
---|
[efdb01a] | 526 | ''' |
---|
[96e1533] | 527 | if not pars: |
---|
| 528 | return [] |
---|
| 529 | if not isinstance(pars, str): |
---|
| 530 | pars=str(pars) |
---|
| 531 | |
---|
[efdb01a] | 532 | cpar = pars.upper().split('/') |
---|
| 533 | ipar = [] |
---|
| 534 | for par in cpar: |
---|
[79729d5] | 535 | for k, v in table.items(): |
---|
[efdb01a] | 536 | if par == k or par == v: |
---|
| 537 | ipar.append(int(k)) |
---|
| 538 | break |
---|
[ff99eae] | 539 | else: |
---|
[2fb99de] | 540 | print('Warning: par ' + par + ' not found in table 128') |
---|
[efdb01a] | 541 | |
---|
| 542 | return ipar |
---|
| 543 | |
---|
[f20af73] | 544 | def to_param_id_with_tablenumber(pars, table): |
---|
| 545 | '''Transform parameter names to parameter ids and add table id. |
---|
| 546 | |
---|
| 547 | Conversion with ECMWF grib table 128. |
---|
| 548 | |
---|
| 549 | Parameters |
---|
| 550 | ---------- |
---|
| 551 | pars : str |
---|
| 552 | Addpar argument from CONTROL file in the format of |
---|
| 553 | parameter names instead of ids. The parameter short |
---|
| 554 | names are sepearted with "/" and they are passed as |
---|
| 555 | one single string. |
---|
| 556 | |
---|
| 557 | table : dict |
---|
| 558 | Contains the ECMWF grib table 128 information. |
---|
| 559 | The key is the parameter number and the value is the |
---|
| 560 | short name of the parameter. |
---|
| 561 | |
---|
| 562 | Return |
---|
| 563 | ------ |
---|
| 564 | spar : str |
---|
| 565 | List of addpar parameters from CONTROL file transformed to |
---|
| 566 | parameter ids in the format of integer. |
---|
| 567 | ''' |
---|
| 568 | if not pars: |
---|
| 569 | return [] |
---|
| 570 | if not isinstance(pars, str): |
---|
| 571 | pars=str(pars) |
---|
| 572 | |
---|
| 573 | cpar = pars.upper().split('/') |
---|
| 574 | spar = [] |
---|
| 575 | for par in cpar: |
---|
[79729d5] | 576 | for k, v in table.items(): |
---|
[f20af73] | 577 | if par == k or par == v: |
---|
| 578 | spar.append(k + '.128') |
---|
| 579 | break |
---|
| 580 | else: |
---|
| 581 | print('\n\n\t\tWarning: par ' + par + ' not found in table 128\n\n') |
---|
| 582 | |
---|
| 583 | return '/'.join(spar) |
---|
| 584 | |
---|
[ff99eae] | 585 | def get_list_as_string(list_obj, concatenate_sign=', '): |
---|
[274f9ef] | 586 | '''Converts a list of arbitrary content into a single string. |
---|
[991df6a] | 587 | |
---|
[274f9ef] | 588 | Parameters |
---|
| 589 | ---------- |
---|
[6f951ca] | 590 | list_obj : list of * |
---|
[274f9ef] | 591 | A list with arbitrary content. |
---|
[991df6a] | 592 | |
---|
[6f951ca] | 593 | concatenate_sign : str, optional |
---|
[274f9ef] | 594 | A string which is used to concatenate the single |
---|
| 595 | list elements. Default value is ", ". |
---|
[ff99eae] | 596 | |
---|
[274f9ef] | 597 | Return |
---|
| 598 | ------ |
---|
[6f951ca] | 599 | str_of_list : str |
---|
[274f9ef] | 600 | The content of the list as a single string. |
---|
[efdb01a] | 601 | ''' |
---|
[991df6a] | 602 | |
---|
[96e1533] | 603 | if not isinstance(list_obj, list): |
---|
| 604 | list_obj = list(list_obj) |
---|
[ff99eae] | 605 | str_of_list = concatenate_sign.join(str(l) for l in list_obj) |
---|
[991df6a] | 606 | |
---|
[ff99eae] | 607 | return str_of_list |
---|
[54a8a01] | 608 | |
---|
| 609 | def make_dir(directory): |
---|
[96e1533] | 610 | '''Creates a directory. |
---|
| 611 | |
---|
| 612 | It gives a warning if the directory already exists and skips process. |
---|
| 613 | The program stops only if there is another problem. |
---|
[54a8a01] | 614 | |
---|
[274f9ef] | 615 | Parameters |
---|
| 616 | ---------- |
---|
[6f951ca] | 617 | directory : str |
---|
[96e1533] | 618 | The path to directory which should be created. |
---|
[274f9ef] | 619 | |
---|
| 620 | Return |
---|
| 621 | ------ |
---|
[54a8a01] | 622 | |
---|
| 623 | ''' |
---|
| 624 | try: |
---|
| 625 | os.makedirs(directory) |
---|
| 626 | except OSError as e: |
---|
[96e1533] | 627 | # errno.EEXIST = directory already exists |
---|
| 628 | if e.errno == errno.EEXIST: |
---|
[2fb99de] | 629 | print('WARNING: Directory {0} already exists!'.format(directory)) |
---|
[96e1533] | 630 | else: |
---|
| 631 | raise # re-raise exception if a different error occured |
---|
[54a8a01] | 632 | |
---|
| 633 | return |
---|
| 634 | |
---|
| 635 | def put_file_to_ecserver(ecd, filename, target, ecuid, ecgid): |
---|
[274f9ef] | 636 | '''Uses the ecaccess-file-put command to send a file to the ECMWF servers. |
---|
[97e09f4] | 637 | |
---|
[274f9ef] | 638 | Note |
---|
| 639 | ---- |
---|
| 640 | The return value is just for testing reasons. It does not have |
---|
| 641 | to be used from the calling function since the whole error handling |
---|
| 642 | is done in here. |
---|
[54a8a01] | 643 | |
---|
[274f9ef] | 644 | Parameters |
---|
| 645 | ---------- |
---|
[6f951ca] | 646 | ecd : str |
---|
[274f9ef] | 647 | The path were the file is stored. |
---|
[54a8a01] | 648 | |
---|
[6f951ca] | 649 | filename : str |
---|
[274f9ef] | 650 | The name of the file to send to the ECMWF server. |
---|
[54a8a01] | 651 | |
---|
[6f951ca] | 652 | target : str |
---|
[274f9ef] | 653 | The target queue where the file should be sent to. |
---|
[54a8a01] | 654 | |
---|
[6f951ca] | 655 | ecuid : str |
---|
[274f9ef] | 656 | The user id on ECMWF server. |
---|
[54a8a01] | 657 | |
---|
[6f951ca] | 658 | ecgid : str |
---|
[274f9ef] | 659 | The group id on ECMWF server. |
---|
[54a8a01] | 660 | |
---|
[274f9ef] | 661 | Return |
---|
| 662 | ------ |
---|
[96e1533] | 663 | |
---|
[54a8a01] | 664 | ''' |
---|
| 665 | |
---|
| 666 | try: |
---|
[96e1533] | 667 | subprocess.check_output(['ecaccess-file-put', |
---|
| 668 | ecd + '/' + filename, |
---|
| 669 | target + ':/home/ms/' + |
---|
| 670 | ecgid + '/' + ecuid + |
---|
| 671 | '/' + filename], |
---|
| 672 | stderr=subprocess.STDOUT) |
---|
[54a8a01] | 673 | except subprocess.CalledProcessError as e: |
---|
[96e1533] | 674 | print('... ERROR CODE: ' + str(e.returncode)) |
---|
| 675 | print('... ERROR MESSAGE:\n \t ' + str(e)) |
---|
[54a8a01] | 676 | |
---|
[2fb99de] | 677 | print('\n... Do you have a valid ecaccess certification key?') |
---|
[97e09f4] | 678 | sys.exit('... ECACCESS-FILE-PUT FAILED!') |
---|
[96e1533] | 679 | except OSError as e: |
---|
| 680 | print('... ERROR CODE: ' + str(e.errno)) |
---|
| 681 | print('... ERROR MESSAGE:\n \t ' + str(e.strerror)) |
---|
| 682 | |
---|
| 683 | print('\n... Most likely the ECACCESS library is not available!') |
---|
| 684 | sys.exit('... ECACCESS-FILE-PUT FAILED!') |
---|
[97e09f4] | 685 | |
---|
[96e1533] | 686 | return |
---|
[54a8a01] | 687 | |
---|
[b1d07c9] | 688 | def submit_job_to_ecserver(target, jobname): |
---|
[274f9ef] | 689 | '''Uses ecaccess-job-submit command to submit a job to the ECMWF server. |
---|
| 690 | |
---|
| 691 | Note |
---|
| 692 | ---- |
---|
| 693 | The return value is just for testing reasons. It does not have |
---|
| 694 | to be used from the calling function since the whole error handling |
---|
| 695 | is done in here. |
---|
| 696 | |
---|
| 697 | Parameters |
---|
| 698 | ---------- |
---|
[6f951ca] | 699 | target : str |
---|
[274f9ef] | 700 | The target where the file should be sent to, e.g. the queue. |
---|
| 701 | |
---|
[6f951ca] | 702 | jobname : str |
---|
[274f9ef] | 703 | The name of the jobfile to be submitted to the ECMWF server. |
---|
| 704 | |
---|
| 705 | Return |
---|
| 706 | ------ |
---|
[6f951ca] | 707 | job_id : int |
---|
[96e1533] | 708 | The id number of the job as a reference at the ecmwf server. |
---|
[54a8a01] | 709 | ''' |
---|
| 710 | |
---|
| 711 | try: |
---|
[96e1533] | 712 | job_id = subprocess.check_output(['ecaccess-job-submit', '-queueName', |
---|
| 713 | target, jobname]) |
---|
[2fb99de] | 714 | |
---|
[96e1533] | 715 | except subprocess.CalledProcessError as e: |
---|
| 716 | print('... ERROR CODE: ' + str(e.returncode)) |
---|
| 717 | print('... ERROR MESSAGE:\n \t ' + str(e)) |
---|
[97e09f4] | 718 | |
---|
[2fb99de] | 719 | print('\n... Do you have a valid ecaccess certification key?') |
---|
[54a8a01] | 720 | sys.exit('... ECACCESS-JOB-SUBMIT FAILED!') |
---|
[96e1533] | 721 | except OSError as e: |
---|
| 722 | print('... ERROR CODE: ' + str(e.errno)) |
---|
| 723 | print('... ERROR MESSAGE:\n \t ' + str(e.strerror)) |
---|
| 724 | |
---|
| 725 | print('\n... Most likely the ECACCESS library is not available!') |
---|
| 726 | sys.exit('... ECACCESS-JOB-SUBMIT FAILED!') |
---|
[54a8a01] | 727 | |
---|
[79729d5] | 728 | return job_id.decode() |
---|
[095dc73] | 729 | |
---|
| 730 | |
---|
| 731 | def get_informations(filename): |
---|
| 732 | '''Gets basic information from an example grib file. |
---|
| 733 | |
---|
| 734 | These information are important for later use and the |
---|
| 735 | initialization of numpy arrays for data storing. |
---|
| 736 | |
---|
| 737 | Parameters |
---|
| 738 | ---------- |
---|
[6f951ca] | 739 | filename : str |
---|
[095dc73] | 740 | Name of the file which will be opened to extract basic information. |
---|
| 741 | |
---|
| 742 | Return |
---|
| 743 | ------ |
---|
[6f951ca] | 744 | data : dict |
---|
[095dc73] | 745 | Contains basic informations of the ECMWF grib files, e.g. |
---|
| 746 | 'Ni', 'Nj', 'latitudeOfFirstGridPointInDegrees', |
---|
| 747 | 'longitudeOfFirstGridPointInDegrees', 'latitudeOfLastGridPointInDegrees', |
---|
| 748 | 'longitudeOfLastGridPointInDegrees', 'jDirectionIncrementInDegrees', |
---|
| 749 | 'iDirectionIncrementInDegrees', 'missingValue' |
---|
| 750 | ''' |
---|
[2fef1f2] | 751 | from eccodes import codes_grib_new_from_file, codes_get, codes_release |
---|
[095dc73] | 752 | |
---|
| 753 | data = {} |
---|
| 754 | |
---|
| 755 | # --- open file --- |
---|
| 756 | print("Opening file for getting information data --- %s" % filename) |
---|
| 757 | with open(filename) as f: |
---|
| 758 | # load first message from file |
---|
| 759 | gid = codes_grib_new_from_file(f) |
---|
| 760 | |
---|
| 761 | # information needed from grib message |
---|
| 762 | keys = [ |
---|
| 763 | 'Ni', |
---|
| 764 | 'Nj', |
---|
| 765 | 'latitudeOfFirstGridPointInDegrees', |
---|
| 766 | 'longitudeOfFirstGridPointInDegrees', |
---|
| 767 | 'latitudeOfLastGridPointInDegrees', |
---|
| 768 | 'longitudeOfLastGridPointInDegrees', |
---|
| 769 | 'jDirectionIncrementInDegrees', |
---|
| 770 | 'iDirectionIncrementInDegrees', |
---|
| 771 | 'missingValue', |
---|
| 772 | ] |
---|
| 773 | |
---|
| 774 | print('\nInformations are: ') |
---|
| 775 | for key in keys: |
---|
| 776 | # Get the value of the key in a grib message. |
---|
| 777 | data[key] = codes_get(gid,key) |
---|
| 778 | print("%s = %s" % (key,data[key])) |
---|
| 779 | |
---|
| 780 | # Free the memory for the message referred as gribid. |
---|
| 781 | codes_release(gid) |
---|
| 782 | |
---|
| 783 | return data |
---|
| 784 | |
---|
| 785 | |
---|
[2fef1f2] | 786 | def get_dimensions(info, purefc, dtime, index_vals, start_date, end_date): |
---|
[095dc73] | 787 | '''This function specifies the correct dimensions for x, y and t. |
---|
| 788 | |
---|
| 789 | Parameters |
---|
| 790 | ---------- |
---|
[6f951ca] | 791 | info : dict |
---|
[095dc73] | 792 | Contains basic informations of the ECMWF grib files, e.g. |
---|
| 793 | 'Ni', 'Nj', 'latitudeOfFirstGridPointInDegrees', |
---|
| 794 | 'longitudeOfFirstGridPointInDegrees', 'latitudeOfLastGridPointInDegrees', |
---|
| 795 | 'longitudeOfLastGridPointInDegrees', 'jDirectionIncrementInDegrees', |
---|
| 796 | 'iDirectionIncrementInDegrees', 'missingValue' |
---|
| 797 | |
---|
[6f951ca] | 798 | purefc : int |
---|
[2fef1f2] | 799 | Switch for definition of pure forecast mode or not. |
---|
| 800 | |
---|
[6f951ca] | 801 | dtime : str |
---|
[2fef1f2] | 802 | Time step in hours. |
---|
| 803 | |
---|
[6f951ca] | 804 | index_vals : list of list of str |
---|
[2fef1f2] | 805 | Contains the values from the keys used for a distinct selection |
---|
| 806 | of grib messages in processing the grib files. |
---|
| 807 | Content looks like e.g.: |
---|
| 808 | index_vals[0]: ('20171106', '20171107', '20171108') ; date |
---|
| 809 | index_vals[1]: ('0', '1200', '1800', '600') ; time |
---|
| 810 | index_vals[2]: ('0', '12', '3', '6', '9') ; stepRange |
---|
| 811 | |
---|
[6f951ca] | 812 | start_date : str |
---|
[2fef1f2] | 813 | The start date of the retrieval job. |
---|
| 814 | |
---|
[6f951ca] | 815 | end_date : str |
---|
[2fef1f2] | 816 | The end date of the retrieval job. |
---|
| 817 | |
---|
[095dc73] | 818 | Return |
---|
| 819 | ------ |
---|
[6f951ca] | 820 | (ix, jy, it) : tuple of int |
---|
[095dc73] | 821 | Dimension in x-direction, y-direction and in time. |
---|
| 822 | ''' |
---|
| 823 | |
---|
| 824 | ix = info['Ni'] |
---|
| 825 | |
---|
| 826 | jy = info['Nj'] |
---|
| 827 | |
---|
[2fef1f2] | 828 | if not purefc: |
---|
[79729d5] | 829 | it = ((end_date - start_date).days + 1) * 24 // int(dtime) |
---|
[2fef1f2] | 830 | else: |
---|
| 831 | # #no of step * #no of times * #no of days |
---|
| 832 | it = len(index_vals[2]) * len(index_vals[1]) * len(index_vals[0]) |
---|
[095dc73] | 833 | |
---|
| 834 | return (ix, jy, it) |
---|
[bf48c8a] | 835 | |
---|
| 836 | |
---|
| 837 | def execute_subprocess(cmd_list, error_msg='SUBPROCESS FAILED!'): |
---|
| 838 | '''Executes a command line instruction via a subprocess. |
---|
| 839 | |
---|
| 840 | Error handling is done if an error occures. |
---|
| 841 | |
---|
| 842 | Parameters |
---|
| 843 | ---------- |
---|
[6f951ca] | 844 | cmd_list : list of str |
---|
[bf48c8a] | 845 | A list of the components for the command line execution. Each |
---|
| 846 | list entry is a single part of the command which is seperated from |
---|
| 847 | the rest by a blank space. |
---|
| 848 | E.g. ['mv', file1, file2] |
---|
| 849 | |
---|
| 850 | Return |
---|
| 851 | ------ |
---|
[6f951ca] | 852 | error_msg : str, optional |
---|
[bf48c8a] | 853 | The possible error message if the subprocess failed. |
---|
| 854 | By default it will just tell "SUBPROCESS FAILED!". |
---|
| 855 | ''' |
---|
| 856 | |
---|
| 857 | try: |
---|
| 858 | subprocess.check_call(cmd_list) |
---|
| 859 | except subprocess.CalledProcessError as e: |
---|
| 860 | print('... ERROR CODE: ' + str(e.returncode)) |
---|
| 861 | print('... ERROR MESSAGE:\n \t ' + str(e)) |
---|
| 862 | |
---|
| 863 | sys.exit('... ' + error_msg) |
---|
| 864 | except OSError as e: |
---|
| 865 | print('... ERROR CODE: ' + str(e.errno)) |
---|
| 866 | print('... ERROR MESSAGE:\n \t ' + str(e.strerror)) |
---|
| 867 | |
---|
| 868 | sys.exit('... ' + error_msg) |
---|
| 869 | |
---|
| 870 | return |
---|