1 | #!/usr/bin/env python |
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2 | # -*- coding: utf-8 -*- |
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3 | #************************************************************************ |
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4 | # TODO AP |
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5 | #AP |
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6 | # - Functionality Provided is not correct for this file |
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7 | # - localpythonpath should not be set in module load section! |
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8 | # - create a class Installation and divide installation in 3 subdefs for |
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9 | # ecgate, local and cca seperatly |
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10 | # - Change History ist nicht angepasst ans File! Original geben lassen |
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11 | #************************************************************************ |
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12 | """ |
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13 | @Author: Anne Fouilloux (University of Oslo) |
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14 | |
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15 | @Date: October 2014 |
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16 | |
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17 | @ChangeHistory: |
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18 | November 2015 - Leopold Haimberger (University of Vienna): |
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19 | - using the WebAPI also for general MARS retrievals |
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20 | - job submission on ecgate and cca |
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21 | - job templates suitable for twice daily operational dissemination |
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22 | - dividing retrievals of longer periods into digestable chunks |
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23 | - retrieve also longer term forecasts, not only analyses and |
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24 | short term forecast data |
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25 | - conversion into GRIB2 |
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26 | - conversion into .fp format for faster execution of FLEXPART |
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27 | |
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28 | February 2018 - Anne Philipp (University of Vienna): |
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29 | - applied PEP8 style guide |
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30 | - added documentation |
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31 | |
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32 | @License: |
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33 | (C) Copyright 2014 UIO. |
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34 | |
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35 | This software is licensed under the terms of the Apache Licence Version 2.0 |
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36 | which can be obtained at http://www.apache.org/licenses/LICENSE-2.0. |
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37 | |
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38 | @Requirements: |
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39 | - A standard python 2.6 or 2.7 installation |
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40 | - dateutils |
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41 | - matplotlib (optional, for debugging) |
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42 | - ECMWF specific packages, all available from https://software.ecmwf.int/ |
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43 | ECMWF WebMARS, gribAPI with python enabled, emoslib and |
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44 | ecaccess web toolkit |
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45 | |
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46 | @Description: |
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47 | Further documentation may be obtained from www.flexpart.eu. |
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48 | |
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49 | Functionality provided: |
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50 | Prepare input 3D-wind fields in hybrid coordinates + |
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51 | surface fields for FLEXPART runs |
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52 | """ |
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53 | # ------------------------------------------------------------------------------ |
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54 | # MODULES |
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55 | # ------------------------------------------------------------------------------ |
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56 | import calendar |
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57 | import shutil |
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58 | import datetime |
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59 | import time |
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60 | import os,sys,glob |
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61 | import subprocess |
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62 | import inspect |
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63 | # add path to submit.py to pythonpath so that python finds its buddies |
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64 | localpythonpath=os.path.dirname(os.path.abspath(inspect.getfile(inspect.currentframe()))) |
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65 | sys.path.append(localpythonpath) |
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66 | from UIOFiles import UIOFiles |
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67 | from string import strip |
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68 | from argparse import ArgumentParser,ArgumentDefaultsHelpFormatter |
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69 | from GribTools import GribTools |
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70 | from Control import Control |
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71 | from getMARSdata import getMARSdata |
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72 | from prepareFLEXPART import prepareFLEXPART |
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73 | from ECFlexpart import ECFlexpart |
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74 | |
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75 | # ------------------------------------------------------------------------------ |
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76 | # FUNCTIONS |
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77 | # ------------------------------------------------------------------------------ |
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78 | def install_args_and_control(): |
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79 | ''' |
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80 | @Description: |
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81 | Assigns the command line arguments for installation and reads |
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82 | control file content. Apply default values for non mentioned arguments. |
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83 | |
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84 | @Input: |
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85 | <nothing> |
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86 | |
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87 | @Return: |
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88 | args: instance of ArgumentParser |
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89 | Contains the commandline arguments from script/program call. |
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90 | |
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91 | c: instance of class Control |
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92 | Contains all necessary information of a control file. The parameters |
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93 | are: DAY1, DAY2, DTIME, MAXSTEP, TYPE, TIME, STEP, CLASS, STREAM, |
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94 | NUMBER, EXPVER, GRID, LEFT, LOWER, UPPER, RIGHT, LEVEL, LEVELIST, |
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95 | RESOL, GAUSS, ACCURACY, OMEGA, OMEGADIFF, ETA, ETADIFF, DPDETA, |
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96 | SMOOTH, FORMAT, ADDPAR, WRF, CWC, PREFIX, ECSTORAGE, ECTRANS, |
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97 | ECFSDIR, MAILOPS, MAILFAIL, GRIB2FLEXPART, FLEXPARTDIR |
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98 | For more information about format and content of the parameter see |
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99 | documentation. |
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100 | ''' |
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101 | parser = ArgumentParser(description='Install ECMWFDATA software locally or \ |
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102 | on ECMWF machines', |
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103 | formatter_class=ArgumentDefaultsHelpFormatter) |
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104 | |
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105 | parser.add_argument('--target', dest='install_target', |
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106 | help="Valid targets: local | ecgate | cca , \ |
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107 | the latter two are at ECMWF") |
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108 | parser.add_argument("--makefile", dest="makefile", |
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109 | help='Name of Makefile to use for compiling CONVERT2') |
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110 | parser.add_argument("--ecuid", dest="ecuid", |
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111 | help='user id at ECMWF') |
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112 | parser.add_argument("--ecgid", dest="ecgid", |
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113 | help='group id at ECMWF') |
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114 | parser.add_argument("--gateway", dest="gateway", |
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115 | help='name of local gateway server') |
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116 | parser.add_argument("--destination", dest="destination", |
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117 | help='ecaccess destination, e.g. leo@genericSftp') |
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118 | |
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119 | parser.add_argument("--flexpart_root_scripts", dest="flexpart_root_scripts", |
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120 | help="FLEXPART root directory on ECMWF servers \ |
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121 | (to find grib2flexpart and COMMAND file)\n\ |
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122 | Normally ECMWFDATA resides in the scripts directory \ |
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123 | of the FLEXPART distribution, thus the:") |
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124 | |
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125 | # arguments for job submission to ECMWF, only needed by submit.py |
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126 | parser.add_argument("--job_template", dest='job_template', |
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127 | default="job.temp.o", |
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128 | help="job template file for submission to ECMWF") |
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129 | |
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130 | parser.add_argument("--controlfile", dest="controlfile", |
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131 | default='CONTROL.temp', |
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132 | help="file with control parameters") |
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133 | |
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134 | args = parser.parse_args() |
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135 | |
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136 | try: |
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137 | c = Control(args.controlfile) |
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138 | except: |
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139 | print('Could not read control file "' + args.controlfile + '"') |
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140 | print('Either it does not exist or its syntax is wrong.') |
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141 | print('Try "' + sys.argv[0].split('/')[-1] + |
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142 | ' -h" to print usage information') |
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143 | exit(1) |
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144 | |
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145 | if args.install_target != 'local': |
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146 | if (args.ecgid is None or args.ecuid is None or args.gateway is None |
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147 | or args.destination is None): |
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148 | print('Please enter your ECMWF user id and group id as well as \ |
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149 | the \nname of the local gateway and the ectrans \ |
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150 | destination ') |
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151 | print('with command line options --ecuid --ecgid \ |
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152 | --gateway --destination') |
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153 | print('Try "' + sys.argv[0].split('/')[-1] + |
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154 | ' -h" to print usage information') |
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155 | print('Please consult ecaccess documentation or ECMWF user support \ |
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156 | for further details') |
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157 | sys.exit(1) |
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158 | else: |
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159 | c.ecuid = args.ecuid |
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160 | c.ecgid = args.ecgid |
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161 | c.gateway = args.gateway |
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162 | c.destination = args.destination |
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163 | |
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164 | try: |
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165 | c.makefile = args.makefile |
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166 | except: |
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167 | pass |
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168 | |
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169 | if args.install_target == 'local': |
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170 | if args.flexpart_root_scripts is None: |
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171 | c.flexpart_root_scripts = '../' |
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172 | else: |
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173 | c.flexpart_root_scripts = args.flexpart_root_scripts |
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174 | |
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175 | if args.install_target != 'local': |
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176 | if args.flexpart_root_scripts is None: |
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177 | c.ec_flexpart_root_scripts = '${HOME}' |
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178 | else: |
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179 | c.ec_flexpart_root_scripts = args.flexpart_root_scripts |
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180 | |
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181 | return args, c |
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182 | |
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183 | |
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184 | def main(): |
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185 | ''' |
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186 | ''' |
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187 | os.chdir(localpythonpath) |
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188 | args, c = install_args_and_control() |
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189 | if args.install_target is not None: |
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190 | install_via_gateway(c, args.install_target) |
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191 | else: |
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192 | print('Please specify installation target (local|ecgate|cca)') |
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193 | print('use -h or --help for help') |
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194 | sys.exit() |
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195 | |
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196 | def install_via_gateway(c, target): |
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197 | |
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198 | ecd = c.ecmwfdatadir |
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199 | template = ecd + 'python/compilejob.temp' |
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200 | job = ecd + 'python/compilejob.ksh' |
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201 | fo = open(job, 'w') |
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202 | #AP could do with open(template) as f, open(job, 'w') as fo: |
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203 | #AP or nested with statements |
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204 | with open(template) as f: |
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205 | fdata = f.read().split('\n') |
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206 | for data in fdata: |
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207 | if 'MAKEFILE=' in data: |
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208 | if c.makefile is not None: |
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209 | data = 'export MAKEFILE=' + c.makefile |
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210 | if 'FLEXPART_ROOT_SCRIPTS=' in data: |
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211 | if c.flexpart_root_scripts != '../': |
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212 | data = 'export FLEXPART_ROOT_SCRIPTS=' + \ |
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213 | c.flexpart_root_scripts |
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214 | else: |
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215 | data='export FLEXPART_ROOT_SCRIPTS=$HOME' |
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216 | if target.lower() != 'local': |
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217 | if '--workdir' in data: |
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218 | data = '#SBATCH --workdir=/scratch/ms/' + c.ecgid + \ |
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219 | '/' + c.ecuid |
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220 | if '##PBS -o' in data: |
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221 | data = '##PBS -o /scratch/ms/' + c.ecgid + '/' + c.ecuid + \ |
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222 | 'flex_ecmwf.$Jobname.$Job_ID.out' |
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223 | if 'FLEXPART_ROOT_SCRIPTS=' in data: |
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224 | if c.ec_flexpart_root_scripts != '../': |
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225 | data = 'export FLEXPART_ROOT_SCRIPTS=' + \ |
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226 | c.ec_flexpart_root_scripts |
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227 | else: |
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228 | data = 'export FLEXPART_ROOT_SCRIPTS=$HOME' |
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229 | fo.write(data + '\n') |
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230 | f.close() |
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231 | fo.close() |
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232 | |
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233 | if target.lower() != 'local': |
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234 | template = ecd + 'python/job.temp.o' |
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235 | #AP hier eventuell Zeile für Zeile lesen und dann if Entscheidung |
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236 | with open(template) as f: |
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237 | fdata = f.read().split('\n') |
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238 | f.close() |
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239 | fo = open(template[:-2], 'w') |
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240 | for data in fdata: |
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241 | if '--workdir' in data: |
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242 | data = '#SBATCH --workdir=/scratch/ms/' + c.ecgid + \ |
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243 | '/' + c.ecuid |
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244 | if '##PBS -o' in data: |
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245 | data = '##PBS -o /scratch/ms/' + c.ecgid + '/' + \ |
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246 | c.ecuid + 'flex_ecmwf.$Jobname.$Job_ID.out' |
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247 | if 'export PATH=${PATH}:' in data: |
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248 | data += c.ec_flexpart_root_scripts + '/ECMWFDATA7.1/python' |
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249 | if 'cat>>' in data or 'cat >>' in data: |
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250 | i = data.index('>') |
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251 | fo.write(data[:i] + data[i+1:] + '\n') |
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252 | fo.write('GATEWAY ' + c.gateway + '\n') |
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253 | fo.write('DESTINATION ' + c.destination + '\n') |
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254 | fo.write('EOF\n') |
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255 | |
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256 | fo.write(data + '\n') |
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257 | fo.close() |
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258 | |
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259 | job = ecd + 'python/ECMWF_ENV' |
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260 | with open(job, 'w') as fo: |
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261 | fo.write('ECUID ' + c.ecuid + '\n') |
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262 | fo.write('ECGID ' + c.ecgid + '\n') |
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263 | fo.write('GATEWAY ' + c.gateway + '\n') |
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264 | fo.write('DESTINATION ' + c.destination + '\n') |
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265 | fo.close() |
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266 | |
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267 | |
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268 | |
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269 | if target.lower() == 'local': |
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270 | # compile CONVERT2 |
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271 | if c.flexpart_root_scripts is None or c.flexpart_root_scripts == '../': |
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272 | print('Warning: FLEXPART_ROOT_SCRIPTS has not been specified') |
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273 | print('Only CONVERT2 will be compiled in ' + ecd + '/../src') |
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274 | else: |
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275 | c.flexpart_root_scripts = os.path.expandvars(os.path.expanduser( |
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276 | c.flexpart_root_scripts)) |
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277 | if os.path.abspath(ecd) != os.path.abspath(c.flexpart_root_scripts): |
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278 | os.chdir('/') |
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279 | p = subprocess.check_call(['tar', '-cvf', |
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280 | ecd + '../ECMWFDATA7.1.tar', |
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281 | ecd + 'python', |
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282 | ecd + 'grib_templates', |
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283 | ecd + 'src']) |
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284 | try: |
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285 | os.makedirs(c.flexpart_root_scripts + '/ECMWFDATA7.1') |
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286 | except: |
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287 | pass |
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288 | os.chdir(c.flexpart_root_scripts + '/ECMWFDATA7.1') |
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289 | p = subprocess.check_call(['tar', '-xvf', |
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290 | ecd + '../ECMWFDATA7.1.tar']) |
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291 | os.chdir(c.flexpart_root_scripts + '/ECMWFDATA7.1/src') |
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292 | |
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293 | os.chdir('../src') |
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294 | print(('install ECMWFDATA7.1 software on ' + target + ' in directory ' |
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295 | + os.getcwd())) |
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296 | if c.makefile is None: |
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297 | makefile = 'Makefile.local.ifort' |
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298 | else: |
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299 | makefile = c.makefile |
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300 | flist = glob.glob('*.mod') + glob.glob('*.o') |
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301 | if flist: |
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302 | p = subprocess.check_call(['rm'] + flist) |
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303 | try: |
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304 | print(('Using makefile: ' + makefile)) |
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305 | p = subprocess.check_call(['make', '-f', makefile]) |
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306 | p = subprocess.check_call(['ls', '-l','CONVERT2']) |
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307 | except: |
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308 | print('compile failed - please edit ' + makefile + |
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309 | ' or try another Makefile in the src directory.') |
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310 | print('most likely GRIB_API_INCLUDE_DIR, GRIB_API_LIB ' |
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311 | 'and EMOSLIB must be adapted.') |
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312 | print('Available Makefiles:') |
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313 | print(glob.glob('Makefile*')) |
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314 | |
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315 | elif target.lower() == 'ecgate': |
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316 | os.chdir('/') |
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317 | p = subprocess.check_call(['tar', '-cvf', |
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318 | ecd + '../ECMWFDATA7.1.tar', |
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319 | ecd + 'python', |
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320 | ecd + 'grib_templates', |
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321 | ecd + 'src']) |
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322 | try: |
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323 | p = subprocess.check_call(['ecaccess-file-put', |
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324 | ecd + '../ECMWFDATA7.1.tar', |
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325 | 'ecgate:/home/ms/' + c.ecgid + '/' + |
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326 | c.ecuid + '/ECMWFDATA7.1.tar']) |
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327 | except: |
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328 | print('ecaccess-file-put failed! Probably the eccert key has expired.') |
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329 | exit(1) |
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330 | p = subprocess.check_call(['ecaccess-job-submit', |
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331 | '-queueName', |
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332 | target, |
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333 | ecd + 'python/compilejob.ksh']) |
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334 | print('compilejob.ksh has been submitted to ecgate for ' |
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335 | 'installation in ' + c.ec_flexpart_root_scripts + |
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336 | '/ECMWFDATA7.1') |
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337 | print('You should get an email with subject flexcompile within ' |
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338 | 'the next few minutes') |
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339 | |
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340 | elif target.lower() == 'cca': |
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341 | os.chdir('/') |
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342 | p = subprocess.check_call(['tar', '-cvf', |
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343 | ecd + '../ECMWFDATA7.1.tar', |
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344 | ecd + 'python', |
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345 | ecd + 'grib_templates', |
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346 | ecd + 'src']) |
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347 | try: |
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348 | p = subprocess.check_call(['ecaccess-file-put', |
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349 | ecd + '../ECMWFDATA7.1.tar', |
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350 | 'cca:/home/ms/' + c.ecgid + '/' + |
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351 | c.ecuid + '/ECMWFDATA7.1.tar']) |
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352 | except: |
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353 | print('ecaccess-file-put failed! ' |
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354 | 'Probably the eccert key has expired.') |
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355 | exit(1) |
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356 | |
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357 | p=subprocess.check_call(['ecaccess-job-submit', |
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358 | '-queueName', |
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359 | target, |
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360 | ecd + 'python/compilejob.ksh']) |
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361 | print('compilejob.ksh has been submitted to cca for installation in ' + |
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362 | c.ec_flexpart_root_scripts + '/ECMWFDATA7.1') |
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363 | print('You should get an email with subject flexcompile ' |
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364 | 'within the next few minutes') |
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365 | |
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366 | else: |
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367 | print('ERROR: unknown installation target ', target) |
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368 | print('Valid targets: ecgate, cca, local') |
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369 | |
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370 | return |
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371 | |
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372 | |
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373 | if __name__ == "__main__": |
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374 | main() |
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