| 1 | #!/usr/bin/env python |
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| 2 | # -*- coding: utf-8 -*- |
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| 3 | #******************************************************************************* |
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| 4 | # @Author: Leopold Haimberger (University of Vienna) |
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| 5 | # |
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| 6 | # @Date: November 2015 |
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| 7 | # |
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| 8 | # @Change History: |
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| 9 | # |
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| 10 | # February 2018 - Anne Philipp (University of Vienna): |
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| 11 | # - applied PEP8 style guide |
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| 12 | # - added documentation |
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| 13 | # - applied some minor modifications in programming style/structure |
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| 14 | # - changed name of class Control to ControlFile for more |
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| 15 | # self-explanation naming |
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| 16 | # - outsource of class ControlFile |
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| 17 | # - initialisation of class attributes ( to avoid high number of |
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| 18 | # conditional statements and set default values ) |
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| 19 | # - divided assignment of attributes and the check of conditions |
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| 20 | # - outsourced the commandline argument assignments to control attributes |
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| 21 | # |
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| 22 | # @License: |
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| 23 | # (C) Copyright 2015-2018. |
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| 24 | # |
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| 25 | # This software is licensed under the terms of the Apache Licence Version 2.0 |
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| 26 | # which can be obtained at http://www.apache.org/licenses/LICENSE-2.0. |
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| 27 | # |
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| 28 | # @Class Description: |
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| 29 | # The CONTROL file is the steering part of the FLEXPART extraction |
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| 30 | # software. All necessary parameters needed to retrieve the data fields |
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| 31 | # from the MARS archive for driving FLEXPART are set in a CONTROL file. |
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| 32 | # Some specific parameters like the start and end dates can be overwritten |
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| 33 | # by the command line parameters, but in generel all parameters needed |
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| 34 | # for a complete set of fields for FLEXPART can be set in the CONTROL file. |
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| 35 | # |
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| 36 | # @Class Content: |
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| 37 | # - __init__ |
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| 38 | # - __read_controlfile__ |
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| 39 | # - __str__ |
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| 40 | # - assign_args_to_control |
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| 41 | # - assign_envs_to_control |
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| 42 | # - check_conditions |
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| 43 | # - check_install_conditions |
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| 44 | # - to_list |
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| 45 | # |
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| 46 | # @Class Attributes: |
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| 47 | # |
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| 48 | # |
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| 49 | #******************************************************************************* |
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| 50 | |
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| 51 | # ------------------------------------------------------------------------------ |
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| 52 | # MODULES |
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| 53 | # ------------------------------------------------------------------------------ |
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| 54 | import os |
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| 55 | import re |
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| 56 | import sys |
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| 57 | import inspect |
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| 58 | |
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| 59 | # software specific classes and modules from flex_extract |
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| 60 | sys.path.append('../') |
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| 61 | import _config |
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| 62 | from mods.tools import my_error, silent_remove |
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| 63 | |
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| 64 | # ------------------------------------------------------------------------------ |
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| 65 | # CLASS |
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| 66 | # ------------------------------------------------------------------------------ |
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| 67 | class ControlFile(object): |
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| 68 | ''' |
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| 69 | Contains the information which are stored in the CONTROL files. |
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| 70 | ''' |
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| 71 | |
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| 72 | def __init__(self, filename): |
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| 73 | '''Initialises the instance of ControlFile class and defines |
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| 74 | all class attributes with default values. Afterwards calls |
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| 75 | function __read_controlfile__ to read parameter from Control file. |
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| 76 | |
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| 77 | Parameters |
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| 78 | ---------- |
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| 79 | filename : :obj:`string` |
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| 80 | Name of CONTROL file. |
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| 81 | |
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| 82 | Return |
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| 83 | ------ |
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| 84 | |
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| 85 | ''' |
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| 86 | |
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| 87 | # list of all possible class attributes and their default values |
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| 88 | self.controlfile = filename |
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| 89 | self.start_date = None |
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| 90 | self.end_date = None |
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| 91 | self.date_chunk = 3 |
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| 92 | self.dtime = None |
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| 93 | self.basetime = None |
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| 94 | self.maxstep = None |
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| 95 | self.type = None |
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| 96 | self.time = None |
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| 97 | self.step = None |
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| 98 | self.acctype = None |
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| 99 | self.acctime = None |
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| 100 | self.accmaxstep = None |
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| 101 | self.marsclass = None |
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| 102 | self.dataset = None |
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| 103 | self.stream = None |
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| 104 | self.number = 'OFF' |
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| 105 | self.expver = '1' |
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| 106 | self.gaussian = '' |
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| 107 | self.grid = None |
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| 108 | self.area = '' |
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| 109 | self.left = None |
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| 110 | self.lower = None |
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| 111 | self.upper = None |
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| 112 | self.right = None |
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| 113 | self.level = None |
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| 114 | self.levelist = None |
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| 115 | self.resol = None |
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| 116 | self.gauss = 0 |
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| 117 | self.accuracy = 24 |
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| 118 | self.omega = 0 |
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| 119 | self.omegadiff = 0 |
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| 120 | self.eta = 0 |
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| 121 | self.etadiff = 0 |
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| 122 | self.etapar = 77 |
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| 123 | self.dpdeta = 1 |
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| 124 | self.smooth = 0 |
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| 125 | self.format = 'GRIB1' |
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| 126 | self.addpar = None |
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| 127 | self.prefix = 'EN' |
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| 128 | self.cwc = 0 |
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| 129 | self.wrf = 0 |
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| 130 | self.ecfsdir = 'ectmp:/${USER}/econdemand/' |
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| 131 | self.mailfail = ['${USER}'] |
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| 132 | self.mailops = ['${USER}'] |
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| 133 | self.grib2flexpart = 0 |
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| 134 | self.ecstorage = 0 |
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| 135 | self.ectrans = 0 |
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| 136 | self.inputdir = _config.PATH_INPUT_DIR |
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| 137 | self.outputdir = None |
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| 138 | self.ecmwfdatadir = _config.PATH_FLEXEXTRACT_DIR |
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| 139 | self.exedir = _config.PATH_FORTRAN_SRC |
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| 140 | self.flexpart_root_scripts = None |
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| 141 | self.makefile = 'Makefile.gfortran' |
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| 142 | self.destination = None |
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| 143 | self.gateway = None |
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| 144 | self.ecuid = None |
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| 145 | self.ecgid = None |
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| 146 | self.install_target = None |
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| 147 | self.debug = 0 |
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| 148 | self.request = 0 |
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| 149 | self.public = 0 |
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| 150 | |
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| 151 | self.logicals = ['gauss', 'omega', 'omegadiff', 'eta', 'etadiff', |
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| 152 | 'dpdeta', 'cwc', 'wrf', 'grib2flexpart', 'ecstorage', |
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| 153 | 'ectrans', 'debug', 'request', 'public'] |
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| 154 | |
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| 155 | self.__read_controlfile__() |
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| 156 | |
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| 157 | return |
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| 158 | |
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| 159 | def __read_controlfile__(self): |
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| 160 | '''Read CONTROL file and assign all CONTROL file variables. |
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| 161 | |
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| 162 | Parameters |
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| 163 | ---------- |
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| 164 | |
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| 165 | Return |
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| 166 | ------ |
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| 167 | |
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| 168 | ''' |
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| 169 | |
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| 170 | try: |
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| 171 | cfile = os.path.join(_config.PATH_CONTROLFILES, self.controlfile) |
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| 172 | with open(cfile) as f: |
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| 173 | fdata = f.read().split('\n') |
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| 174 | except IOError: |
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| 175 | print('Could not read CONTROL file "' + cfile + '"') |
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| 176 | print('Either it does not exist or its syntax is wrong.') |
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| 177 | print('Try "' + sys.argv[0].split('/')[-1] + \ |
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| 178 | ' -h" to print usage information') |
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| 179 | sys.exit(1) |
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| 180 | |
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| 181 | # go through every line and store parameter |
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| 182 | for ldata in fdata: |
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| 183 | data = ldata.split() |
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| 184 | if len(data) > 1: |
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| 185 | if 'm_' in data[0].lower(): |
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| 186 | data[0] = data[0][2:] |
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| 187 | if data[0].lower() == 'class': |
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| 188 | data[0] = 'marsclass' |
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| 189 | if data[0].lower() == 'day1': |
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| 190 | data[0] = 'start_date' |
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| 191 | if data[0].lower() == 'day2': |
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| 192 | data[0] = 'end_date' |
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| 193 | if data[0].lower() == 'addpar': |
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| 194 | if '/' in data[1]: |
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| 195 | # remove leading '/' sign from addpar content |
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| 196 | if data[1][0] == '/': |
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| 197 | data[1] = data[1][1:] |
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| 198 | dd = data[1].split('/') |
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| 199 | data = [data[0]] |
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| 200 | for d in dd: |
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| 201 | data.append(d) |
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| 202 | if len(data) == 2: |
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| 203 | if '$' in data[1]: |
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| 204 | setattr(self, data[0].lower(), data[1]) |
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| 205 | while '$' in data[1]: |
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| 206 | i = data[1].index('$') |
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| 207 | j = data[1].find('{') |
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| 208 | k = data[1].find('}') |
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| 209 | var = os.getenv(data[1][j+1:k]) |
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| 210 | if var is not None: |
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| 211 | data[1] = data[1][:i] + var + data[1][k+1:] |
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| 212 | else: |
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| 213 | my_error(self.mailfail, |
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| 214 | 'Could not find variable ' |
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| 215 | + data[1][j+1:k] + ' while reading ' + |
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| 216 | self.controlfile) |
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| 217 | setattr(self, data[0].lower() + '_expanded', data[1]) |
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| 218 | else: |
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| 219 | if data[1].lower() != 'none': |
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| 220 | setattr(self, data[0].lower(), data[1]) |
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| 221 | else: |
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| 222 | setattr(self, data[0].lower(), None) |
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| 223 | elif len(data) > 2: |
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| 224 | setattr(self, data[0].lower(), (data[1:])) |
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| 225 | else: |
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| 226 | pass |
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| 227 | |
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| 228 | return |
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| 229 | |
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| 230 | def __str__(self): |
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| 231 | '''Prepares a string which have all the ControlFile class attributes |
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| 232 | with its associated values. Each attribute is printed in one line and |
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| 233 | in alphabetical order. |
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| 234 | |
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| 235 | Example |
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| 236 | ------- |
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| 237 | 'age': 10 |
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| 238 | 'color': 'Spotted' |
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| 239 | 'kids': 0 |
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| 240 | 'legs': 2 |
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| 241 | 'name': 'Dog' |
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| 242 | 'smell': 'Alot' |
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| 243 | |
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| 244 | Parameters |
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| 245 | ---------- |
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| 246 | |
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| 247 | Return |
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| 248 | ------ |
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| 249 | string |
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| 250 | Single string of concatenated ControlFile class attributes |
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| 251 | with their values |
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| 252 | ''' |
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| 253 | import collections |
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| 254 | |
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| 255 | attrs = vars(self).copy() |
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| 256 | attrs = collections.OrderedDict(sorted(attrs.items())) |
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| 257 | |
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| 258 | return '\n'.join("%s: %s" % item for item in attrs.items()) |
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| 259 | |
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| 260 | def assign_args_to_control(self, args): |
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| 261 | '''Overwrites the existing ControlFile instance attributes with |
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| 262 | the command line arguments. |
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| 263 | |
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| 264 | Parameters |
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| 265 | ---------- |
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| 266 | args : :obj:`Namespace` |
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| 267 | Contains the commandline arguments from script/program call. |
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| 268 | |
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| 269 | Return |
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| 270 | ------ |
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| 271 | |
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| 272 | ''' |
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| 273 | |
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| 274 | # get dictionary of command line parameters and eliminate all |
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| 275 | # parameters which are None (were not specified) |
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| 276 | args_dict = vars(args) |
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| 277 | arguments = {k : args_dict[k] for k in args_dict |
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| 278 | if args_dict[k] != None} |
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| 279 | |
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| 280 | # assign all passed command line arguments to ControlFile instance |
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| 281 | for k, v in arguments.iteritems(): |
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| 282 | setattr(self, str(k), v) |
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| 283 | |
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| 284 | return |
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| 285 | |
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| 286 | def assign_envs_to_control(self, envs): |
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| 287 | '''Assigns the ECMWF environment parameter. |
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| 288 | |
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| 289 | Parameters |
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| 290 | ---------- |
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| 291 | envs : :obj:`dictionary` of :obj:`strings` |
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| 292 | Contains the ECMWF environment parameternames "ECUID", "ECGID", |
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| 293 | "DESTINATION" and "GATEWAY" with its corresponding values. |
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| 294 | They were read from the file "ECMWF_ENV". |
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| 295 | |
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| 296 | Return |
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| 297 | ------ |
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| 298 | |
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| 299 | ''' |
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| 300 | |
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| 301 | for k, v in envs.iteritems(): |
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| 302 | setattr(self, str(k).lower(), str(v)) |
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| 303 | |
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| 304 | return |
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| 305 | |
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| 306 | def check_conditions(self, queue): |
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| 307 | '''Checks a couple of necessary attributes and conditions, |
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| 308 | such as if they exist and contain values. |
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| 309 | Otherwise set default values. |
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| 310 | |
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| 311 | Parameters |
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| 312 | ---------- |
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| 313 | queue : :obj:`string` |
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| 314 | Name of the queue if submitted to the ECMWF servers. |
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| 315 | Used to check if ecuid, ecgid, gateway and destination |
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| 316 | are set correctly and are not empty. |
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| 317 | |
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| 318 | Return |
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| 319 | ------ |
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| 320 | |
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| 321 | ''' |
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| 322 | from mods.tools import my_error |
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| 323 | import numpy as np |
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| 324 | |
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| 325 | # check for having at least a starting date |
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| 326 | # otherwise program is not allowed to run |
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| 327 | if not self.start_date: |
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| 328 | print('start_date specified neither in command line nor \ |
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| 329 | in CONTROL file ' + self.controlfile) |
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| 330 | print('Try "' + sys.argv[0].split('/')[-1] + |
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| 331 | ' -h" to print usage information') |
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| 332 | sys.exit(1) |
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| 333 | |
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| 334 | # retrieve just one day if end_date isn't set |
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| 335 | if not self.end_date: |
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| 336 | self.end_date = self.start_date |
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| 337 | |
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| 338 | # basetime has only two possible values |
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| 339 | if self.basetime: |
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| 340 | if int(self.basetime) != 0 and int(self.basetime) != 12: |
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| 341 | print('Basetime has an invalid value!') |
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| 342 | print('Basetime = ' + str(self.basetime)) |
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| 343 | sys.exit(1) |
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| 344 | |
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| 345 | # assure consistency of levelist and level |
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| 346 | # up-to-date available maximum level numbers at ECMWF, 05.10.2018 |
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| 347 | max_level_list = [16, 19, 31, 40, 50, 60, 62, 91, 137] |
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| 348 | if not self.levelist and not self.level: |
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| 349 | print('Warning: neither levelist nor level \ |
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| 350 | specified in CONTROL file') |
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| 351 | sys.exit(1) |
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| 352 | elif not self.levelist and self.level: |
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| 353 | self.levelist = '1/to/' + self.level |
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| 354 | elif (self.levelist and not self.level) or \ |
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| 355 | (self.levelist[-1] != self.level[-1]): |
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| 356 | self.level = self.levelist.split('/')[-1] |
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| 357 | else: |
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| 358 | pass |
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| 359 | |
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| 360 | # check if max level is a valid level |
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| 361 | if int(self.level) not in max_level_list: |
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| 362 | print('ERROR: ') |
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| 363 | print('LEVEL must be the maximum level of a specified ' |
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| 364 | 'level list from ECMWF, e.g.') |
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| 365 | print('[16, 19, 31, 40, 50, 60, 62, 91 or 137]') |
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| 366 | print('Check parameter "LEVEL" or the max level of "LEVELIST"!') |
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| 367 | sys.exit(1) |
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| 368 | |
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| 369 | # if area was provided (only from commandline) |
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| 370 | # decompose area into its 4 components |
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| 371 | if self.area: |
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| 372 | components = self.area.split('/') |
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| 373 | # convert float to integer coordinates |
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| 374 | if '.' in self.area: |
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| 375 | components = [str(int(float(item) * 1000)) |
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| 376 | for i, item in enumerate(components)] |
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| 377 | self.upper, self.left, self.lower, self.right = components |
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| 378 | |
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| 379 | # prepare step list if "/" signs are found |
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| 380 | if '/' in self.step: |
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| 381 | steps = self.step.split('/') |
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| 382 | if 'to' in self.step.lower() and 'by' in self.step.lower(): |
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| 383 | ilist = np.arange(int(steps[0]), |
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| 384 | int(steps[2]) + 1, |
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| 385 | int(steps[4])) |
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| 386 | self.step = ['{:0>3}'.format(i) for i in ilist] |
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| 387 | elif 'to' in self.step.lower() and 'by' not in self.step.lower(): |
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| 388 | my_error(self.mailfail, self.step + ':\n' + |
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| 389 | 'if "to" is used in steps parameter, \ |
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| 390 | please use "by" as well') |
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| 391 | else: |
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| 392 | self.step = steps |
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| 393 | |
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| 394 | # if maxstep wasn't provided |
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| 395 | # search for it in the "step" parameter |
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| 396 | if not self.maxstep: |
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| 397 | self.maxstep = 0 |
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| 398 | for s in self.step: |
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| 399 | if int(s) > self.maxstep: |
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| 400 | self.maxstep = int(s) |
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| 401 | else: |
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| 402 | self.maxstep = int(self.maxstep) |
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| 403 | |
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| 404 | # set root scripts since it is needed later on |
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| 405 | if not self.flexpart_root_scripts: |
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| 406 | self.flexpart_root_scripts = self.ecmwfdatadir |
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| 407 | |
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| 408 | if not self.outputdir: |
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| 409 | self.outputdir = self.inputdir |
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| 410 | |
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| 411 | if not isinstance(self.mailfail, list): |
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| 412 | if ',' in self.mailfail: |
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| 413 | self.mailfail = self.mailfail.split(',') |
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| 414 | elif ' ' in self.mailfail: |
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| 415 | self.mailfail = self.mailfail.split() |
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| 416 | else: |
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| 417 | self.mailfail = [self.mailfail] |
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| 418 | |
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| 419 | if not isinstance(self.mailops, list): |
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| 420 | if ',' in self.mailops: |
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| 421 | self.mailops = self.mailops.split(',') |
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| 422 | elif ' ' in self.mailops: |
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| 423 | self.mailops = self.mailops.split() |
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| 424 | else: |
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| 425 | self.mailops = [self.mailops] |
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| 426 | |
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| 427 | if queue in _config.QUEUES_LIST and \ |
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| 428 | not self.gateway or not self.destination or \ |
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| 429 | not self.ecuid or not self.ecgid: |
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| 430 | print('\nEnvironment variables GATEWAY, DESTINATION, ECUID and \ |
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| 431 | ECGID were not set properly!') |
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| 432 | print('Please check for existence of file "ECMWF_ENV" in the \ |
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| 433 | python directory!') |
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| 434 | sys.exit(1) |
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| 435 | |
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| 436 | if self.request != 0: |
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| 437 | marsfile = os.path.join(self.inputdir, |
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| 438 | _config.FILE_MARS_REQUESTS) |
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| 439 | if os.path.isfile(marsfile): |
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| 440 | silent_remove(marsfile) |
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| 441 | |
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| 442 | # check all logical variables for data type |
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| 443 | # if its a string change to integer |
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| 444 | for var in self.logicals: |
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| 445 | if not isinstance(getattr(self, var), int): |
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| 446 | setattr(self, var, int(getattr(self, var))) |
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| 447 | |
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| 448 | if self.public and not self.dataset: |
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| 449 | print('ERROR: ') |
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| 450 | print('If public mars data wants to be retrieved, ' |
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| 451 | 'the "dataset"-parameter has to be set in the control file!') |
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| 452 | sys.exit(1) |
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| 453 | |
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| 454 | if not isinstance(self.type, list): |
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| 455 | self.type = [self.type] |
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| 456 | |
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| 457 | for i, val in enumerate(self.type): |
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| 458 | if self.type[i] == 'AN' and int(self.step[i]) != 0: |
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| 459 | print('Analysis retrievals must have STEP = 0 (is set to 0)') |
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| 460 | self.type[i] = 0 |
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| 461 | |
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| 462 | if not isinstance(self.time, list): |
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| 463 | self.time = [self.time] |
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| 464 | |
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| 465 | if not isinstance(self.step, list): |
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| 466 | self.step = [self.step] |
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| 467 | |
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| 468 | if not self.acctype: |
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| 469 | print('... Control paramter ACCTYPE was not defined.') |
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| 470 | try: |
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| 471 | if len(self.type) > 1 and self.type[1] != 'AN': |
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| 472 | print('Use old setting by using TYPE[1] for flux forecast!') |
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| 473 | self.acctype = self.type[1] |
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| 474 | except: |
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| 475 | print('Use default value "FC" for flux forecast!') |
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| 476 | self.acctype='FC' |
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| 477 | |
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| 478 | if not self.acctime: |
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| 479 | print('... Control paramter ACCTIME was not defined.') |
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| 480 | print('Use default value "00/12" for flux forecast!') |
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| 481 | self.acctime='00/12' |
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| 482 | |
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| 483 | if not self.accmaxstep: |
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| 484 | print('... Control paramter ACCMAXSTEP was not defined.') |
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| 485 | print('Use default value "12" for flux forecast!') |
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| 486 | self.accmaxstep='12' |
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| 487 | |
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| 488 | return |
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| 489 | |
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| 490 | def check_install_conditions(self): |
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| 491 | '''Checks a couple of necessary attributes and conditions |
|---|
| 492 | for the installation such as if they exist and contain values. |
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| 493 | Otherwise set default values. |
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| 494 | |
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| 495 | Parameters |
|---|
| 496 | ---------- |
|---|
| 497 | |
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| 498 | Return |
|---|
| 499 | ------ |
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| 500 | |
|---|
| 501 | ''' |
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| 502 | |
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| 503 | if self.install_target and \ |
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| 504 | self.install_target not in ['local', 'ecgate', 'cca']: |
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| 505 | print('ERROR: unknown or missing installation target ') |
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| 506 | print('target: ', self.install_target) |
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| 507 | print('please specify correct installation target ' + |
|---|
| 508 | '(local | ecgate | cca)') |
|---|
| 509 | print('use -h or --help for help') |
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| 510 | sys.exit(1) |
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| 511 | |
|---|
| 512 | if self.install_target and self.install_target != 'local': |
|---|
| 513 | if not self.ecgid or not self.ecuid or \ |
|---|
| 514 | not self.gateway or not self.destination: |
|---|
| 515 | print('Please enter your ECMWF user id and group id as well ' + |
|---|
| 516 | 'as the \nname of the local gateway and the ectrans ' + |
|---|
| 517 | 'destination ') |
|---|
| 518 | print('with command line options --ecuid --ecgid \ |
|---|
| 519 | --gateway --destination') |
|---|
| 520 | print('Try "' + sys.argv[0].split('/')[-1] + \ |
|---|
| 521 | ' -h" to print usage information') |
|---|
| 522 | print('Please consult ecaccess documentation or ECMWF user \ |
|---|
| 523 | support for further details') |
|---|
| 524 | sys.exit(1) |
|---|
| 525 | |
|---|
| 526 | if not self.flexpart_root_scripts: |
|---|
| 527 | self.flexpart_root_scripts = '${HOME}' |
|---|
| 528 | else: |
|---|
| 529 | self.flexpart_root_scripts = self.flexpart_root_scripts |
|---|
| 530 | else: # local |
|---|
| 531 | if not self.flexpart_root_scripts: |
|---|
| 532 | self.flexpart_root_scripts = _config.PATH_FLEXEXTRACT_DIR |
|---|
| 533 | |
|---|
| 534 | return |
|---|
| 535 | |
|---|
| 536 | def to_list(self): |
|---|
| 537 | '''Just generates a list of strings containing the attributes and |
|---|
| 538 | assigned values except the attributes "_expanded", "exedir", |
|---|
| 539 | "ecmwfdatadir" and "flexpart_root_scripts". |
|---|
| 540 | |
|---|
| 541 | Parameters |
|---|
| 542 | ---------- |
|---|
| 543 | |
|---|
| 544 | Return |
|---|
| 545 | ------ |
|---|
| 546 | l : :obj:`list` |
|---|
| 547 | A sorted list of the all ControlFile class attributes with |
|---|
| 548 | their values except the attributes "_expanded", "exedir", |
|---|
| 549 | "ecmwfdatadir" and "flexpart_root_scripts". |
|---|
| 550 | ''' |
|---|
| 551 | |
|---|
| 552 | import collections |
|---|
| 553 | |
|---|
| 554 | attrs = collections.OrderedDict(sorted(vars(self).copy().items())) |
|---|
| 555 | |
|---|
| 556 | l = list() |
|---|
| 557 | |
|---|
| 558 | for item in attrs.items(): |
|---|
| 559 | if '_expanded' in item[0]: |
|---|
| 560 | pass |
|---|
| 561 | elif 'exedir' in item[0]: |
|---|
| 562 | pass |
|---|
| 563 | elif 'flexpart_root_scripts' in item[0]: |
|---|
| 564 | pass |
|---|
| 565 | elif 'ecmwfdatadir' in item[0]: |
|---|
| 566 | pass |
|---|
| 567 | else: |
|---|
| 568 | if isinstance(item[1], list): |
|---|
| 569 | stot = '' |
|---|
| 570 | for s in item[1]: |
|---|
| 571 | stot += s + ' ' |
|---|
| 572 | |
|---|
| 573 | l.append("%s %s" % (item[0], stot)) |
|---|
| 574 | else: |
|---|
| 575 | l.append("%s %s" % item) |
|---|
| 576 | |
|---|
| 577 | return sorted(l) |
|---|
| 578 | |
|---|
