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 UIOTools 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 FlexpartTools import ECFlexpart, Control, install_args_and_control |
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71 | from getMARSdata import getMARSdata |
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72 | from prepareFLEXPART import prepareFLEXPART |
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73 | |
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74 | # ------------------------------------------------------------------------------ |
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75 | # FUNCTIONS |
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76 | # ------------------------------------------------------------------------------ |
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77 | def main(): |
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78 | ''' |
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79 | ''' |
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80 | os.chdir(localpythonpath) |
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81 | args, c = install_args_and_control() |
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82 | if args.install_target is not None: |
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83 | install_via_gateway(c, args.install_target) |
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84 | else: |
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85 | print('Please specify installation target (local|ecgate|cca)') |
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86 | print('use -h or --help for help') |
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87 | sys.exit() |
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88 | |
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89 | def install_via_gateway(c, target): |
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90 | |
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91 | ecd = c.ecmwfdatadir |
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92 | template = ecd + 'python/compilejob.temp' |
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93 | job = ecd + 'python/compilejob.ksh' |
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94 | fo = open(job, 'w') |
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95 | #AP could do with open(template) as f, open(job, 'w') as fo: |
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96 | #AP or nested with statements |
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97 | with open(template) as f: |
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98 | fdata = f.read().split('\n') |
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99 | for data in fdata: |
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100 | if 'MAKEFILE=' in data: |
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101 | if c.makefile is not None: |
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102 | data = 'export MAKEFILE=' + c.makefile |
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103 | if 'FLEXPART_ROOT_SCRIPTS=' in data: |
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104 | if c.flexpart_root_scripts != '../': |
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105 | data = 'export FLEXPART_ROOT_SCRIPTS=' + \ |
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106 | c.flexpart_root_scripts |
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107 | else: |
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108 | data='export FLEXPART_ROOT_SCRIPTS=$HOME' |
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109 | if target.lower() != 'local': |
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110 | if '--workdir' in data: |
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111 | data = '#SBATCH --workdir=/scratch/ms/' + c.ecgid + \ |
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112 | '/' + c.ecuid |
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113 | if '##PBS -o' in data: |
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114 | data = '##PBS -o /scratch/ms/' + c.ecgid + '/' + c.ecuid + \ |
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115 | 'flex_ecmwf.$Jobname.$Job_ID.out' |
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116 | if 'FLEXPART_ROOT_SCRIPTS=' in data: |
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117 | if c.ec_flexpart_root_scripts != '../': |
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118 | data = 'export FLEXPART_ROOT_SCRIPTS=' + \ |
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119 | c.ec_flexpart_root_scripts |
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120 | else: |
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121 | data = 'export FLEXPART_ROOT_SCRIPTS=$HOME' |
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122 | fo.write(data + '\n') |
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123 | f.close() |
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124 | fo.close() |
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125 | |
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126 | if target.lower() != 'local': |
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127 | template = ecd + 'python/job.temp.o' |
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128 | #AP hier eventuell Zeile für Zeile lesen und dann if Entscheidung |
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129 | with open(template) as f: |
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130 | fdata = f.read().split('\n') |
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131 | f.close() |
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132 | fo = open(template[:-2], 'w') |
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133 | for data in fdata: |
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134 | if '--workdir' in data: |
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135 | data = '#SBATCH --workdir=/scratch/ms/' + c.ecgid + \ |
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136 | '/' + c.ecuid |
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137 | if '##PBS -o' in data: |
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138 | data = '##PBS -o /scratch/ms/' + c.ecgid + '/' + \ |
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139 | c.ecuid + 'flex_ecmwf.$Jobname.$Job_ID.out' |
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140 | if 'export PATH=${PATH}:' in data: |
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141 | data += c.ec_flexpart_root_scripts + '/ECMWFDATA7.0/python' |
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142 | if 'cat>>' in data or 'cat >>' in data: |
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143 | i = data.index('>') |
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144 | fo.write(data[:i] + data[i+1:] + '\n') |
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145 | fo.write('GATEWAY ' + c.gateway + '\n') |
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146 | fo.write('DESTINATION ' + c.destination + '\n') |
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147 | fo.write('EOF\n') |
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148 | |
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149 | fo.write(data + '\n') |
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150 | fo.close() |
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151 | |
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152 | job = ecd + 'python/ECMWF_ENV' |
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153 | with open(job, 'w') as fo: |
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154 | fo.write('ECUID ' + c.ecuid + '\n') |
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155 | fo.write('ECGID ' + c.ecgid + '\n') |
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156 | fo.write('GATEWAY ' + c.gateway + '\n') |
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157 | fo.write('DESTINATION ' + c.destination + '\n') |
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158 | fo.close() |
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159 | |
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160 | |
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161 | |
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162 | if target.lower() == 'local': |
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163 | # compile CONVERT2 |
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164 | if c.flexpart_root_scripts is None or c.flexpart_root_scripts == '../': |
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165 | print('Warning: FLEXPART_ROOT_SCRIPTS has not been specified') |
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166 | print('Only CONVERT2 will be compiled in ' + ecd + '/../src') |
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167 | else: |
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168 | c.flexpart_root_scripts = os.path.expandvars(os.path.expanduser( |
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169 | c.flexpart_root_scripts)) |
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170 | if os.path.abspath(ecd) != os.path.abspath(c.flexpart_root_scripts): |
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171 | os.chdir('/') |
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172 | p = subprocess.check_call(['tar', '-cvf', |
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173 | ecd + '../ECMWFDATA7.0.tar', |
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174 | ecd + 'python', |
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175 | ecd + 'grib_templates', |
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176 | ecd + 'src']) |
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177 | try: |
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178 | os.makedirs(c.flexpart_root_scripts + '/ECMWFDATA7.0') |
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179 | except: |
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180 | pass |
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181 | os.chdir(c.flexpart_root_scripts + '/ECMWFDATA7.0') |
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182 | p = subprocess.check_call(['tar', '-xvf', |
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183 | ecd + '../ECMWFDATA7.0.tar']) |
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184 | os.chdir(c.flexpart_root_scripts + '/ECMWFDATA7.0/src') |
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185 | |
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186 | os.chdir('../src') |
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187 | print(('install ECMWFDATA7.0 software on ' + target + ' in directory ' |
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188 | + os.getcwd())) |
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189 | if c.makefile is None: |
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190 | makefile = 'Makefile.local.ifort' |
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191 | else: |
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192 | makefile = c.makefile |
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193 | flist = glob.glob('*.mod') + glob.glob('*.o') |
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194 | if flist: |
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195 | p = subprocess.check_call(['rm'] + flist) |
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196 | try: |
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197 | print(('Using makefile: ' + makefile)) |
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198 | p = subprocess.check_call(['make', '-f', makefile]) |
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199 | p = subprocess.check_call(['ls', '-l',' CONVERT2']) |
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200 | except: |
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201 | print('compile failed - please edit ' + makefile + |
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202 | ' or try another Makefile in the src directory.') |
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203 | print('most likely GRIB_API_INCLUDE_DIR, GRIB_API_LIB \ |
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204 | and EMOSLIB must be adapted.') |
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205 | print('Available Makefiles:') |
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206 | print(glob.glob('Makefile*')) |
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207 | |
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208 | elif target.lower() == 'ecgate': |
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209 | os.chdir('/') |
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210 | p = subprocess.check_call(['tar', '-cvf', |
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211 | ecd + '../ECMWFDATA7.0.tar', |
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212 | ecd + 'python', |
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213 | ecd + 'grib_templates', |
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214 | ecd + 'src']) |
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215 | try: |
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216 | p = subprocess.check_call(['ecaccess-file-put', |
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217 | ecd + '../ECMWFDATA7.0.tar', |
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218 | 'ecgate:/scratch/ms/' + c.ecgid + '/' + |
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219 | c.ecuid + '/ECMWFDATA7.0.tar']) |
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220 | except: |
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221 | print('ecaccess-file-put failed! Probably the eccert key has expired.') |
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222 | exit(1) |
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223 | p = subprocess.check_call(['ecaccess-job-submit', |
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224 | '-queueName', |
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225 | target, |
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226 | ecd + 'python/compilejob.ksh']) |
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227 | print('compilejob.ksh has been submitted to ecgate for \ |
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228 | installation in ' + c.ec_flexpart_root_scripts + |
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229 | '/ECMWFDATA7.0') |
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230 | print('You should get an email with subject flexcompile within \ |
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231 | the next few minutes') |
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232 | |
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233 | elif target.lower() == 'cca': |
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234 | os.chdir('/') |
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235 | p = subprocess.check_call(['tar', '-cvf', |
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236 | ecd + '../ECMWFDATA7.0.tar', |
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237 | ecd + 'python', |
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238 | ecd + 'grib_templates', |
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239 | ecd + 'src']) |
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240 | try: |
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241 | p = subprocess.check_call(['ecaccess-file-put', |
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242 | ecd + '../ECMWFDATA7.0.tar', |
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243 | 'cca:/scratch/ms/' + c.ecgid + '/' + |
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244 | c.ecuid + '/ECMWFDATA7.0.tar']) |
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245 | except: |
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246 | print('ecaccess-file-put failed! \ |
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247 | Probably the eccert key has expired.') |
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248 | exit(1) |
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249 | |
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250 | p=subprocess.check_call(['ecaccess-job-submit', |
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251 | '-queueName', |
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252 | target, |
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253 | ecd + 'python/compilejob.ksh'])) |
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254 | print('compilejob.ksh has been submitted to cca for installation in ' + |
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255 | c.ec_flexpart_root_scripts + '/ECMWFDATA7.0') |
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256 | print('You should get an email with subject flexcompile \ |
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257 | within the next few minutes') |
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258 | |
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259 | else: |
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260 | print('ERROR: unknown installation target ', target) |
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261 | print('Valid targets: ecgate, cca, local') |
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262 | |
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263 | return |
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264 | |
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265 | |
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266 | if __name__ == "__main__": |
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267 | main() |
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