1 | #!/usr/bin/env python |
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2 | # |
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3 | # This software is licensed under the terms of the Apache Licence Version 2.0 |
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4 | # which can be obtained at http://www.apache.org/licenses/LICENSE-2.0. |
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5 | # |
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6 | # Functionality provided: Prepare input 3D-wind fields in hybrid coordinates + surface fields for FLEXPART runs |
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7 | # |
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8 | # Creation: October 2014 - Anne Fouilloux - University of Oslo |
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9 | # Extension November 2015 - Leopold Haimberger - University of Vienna for: |
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10 | # - using the WebAPI also for general MARS retrievals |
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11 | # - job submission on ecgate and cca |
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12 | # - job templates suitable for twice daily operational dissemination |
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13 | # - dividing retrievals of longer periods into digestable chunks |
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14 | # - retrieve also longer term forecasts, not only analyses and short term forecast data |
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15 | # - conversion into GRIB2 |
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16 | # - conversion into .fp format for faster execution of FLEXPART |
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17 | # |
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18 | # |
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19 | # Further documentation may be obtained from www.flexpart.eu |
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20 | # |
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21 | # Requirements: |
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22 | # in addition to a standard python 2.6 or 2.7 installation the following packages need to be installed |
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23 | # ECMWF WebMARS, gribAPI with python enabled, emoslib, ecaccess web toolkit, all available from https://software.ecmwf.int/ |
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24 | # dateutils |
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25 | # matplotlib (optional, for debugging) |
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26 | # |
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27 | # |
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28 | import calendar |
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29 | import shutil |
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30 | import datetime |
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31 | import time |
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32 | import os,sys,glob |
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33 | import subprocess |
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34 | import inspect |
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35 | # add path to submit.py to pythonpath so that python finds its buddies |
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36 | localpythonpath=os.path.dirname(os.path.abspath(inspect.getfile(inspect.currentframe()))) |
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37 | sys.path.append(localpythonpath) |
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38 | from UIOTools import UIOFiles |
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39 | from string import strip |
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40 | from argparse import ArgumentParser,ArgumentDefaultsHelpFormatter |
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41 | from GribTools import GribTools |
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42 | from FlexpartTools import EIFlexpart, Control, install_args_and_control |
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43 | from getMARSdata import getMARSdata |
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44 | from prepareFLEXPART import prepareFLEXPART |
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45 | |
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46 | |
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47 | |
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48 | def main(): |
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49 | |
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50 | calledfromdir=os.getcwd() |
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51 | os.chdir(localpythonpath) |
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52 | args,c=install_args_and_control() |
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53 | # if c.outputdir[0]!='/': |
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54 | # c.outputdir=os.path.join(calledfromdir,c.outputdir) |
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55 | # c.inputdir=c.outputdir |
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56 | if args.install_target!=None: |
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57 | install_via_gateway(c,args.install_target) |
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58 | |
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59 | else: |
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60 | print 'Please specify installation target (local|ecgate|cca)' |
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61 | print 'use -h or --help for help' |
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62 | sys.exit() |
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63 | |
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64 | def install_via_gateway(c,target): |
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65 | |
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66 | ecd=c.flexextractdir |
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67 | template=ecd+'python/compilejob.temp' |
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68 | job=ecd+'python/compilejob.ksh' |
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69 | fo=open(job,'w') |
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70 | with open(template) as f: |
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71 | fdata = f.read().split('\n') |
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72 | for data in fdata: |
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73 | if 'MAKEFILE=' in data: |
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74 | if c.makefile is not None: |
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75 | data='export MAKEFILE='+c.makefile |
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76 | if 'FLEXPART_ROOT_SCRIPTS=' in data: |
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77 | if c.flexpart_root_scripts!='../': |
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78 | data='export FLEXPART_ROOT_SCRIPTS='+c.flexpart_root_scripts |
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79 | else: |
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80 | data='export FLEXPART_ROOT_SCRIPTS=$HOME' |
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81 | if target.lower()!='local': |
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82 | if '--workdir' in data: |
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83 | data='#SBATCH --workdir=/scratch/ms/'+c.ecgid+'/'+c.ecuid |
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84 | if '##PBS -o' in data: |
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85 | data='##PBS -o /scratch/ms/'+c.ecgid+'/'+c.ecuid+'flex_ecmwf.$Jobname.$Job_ID.out' |
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86 | if 'FLEXPART_ROOT_SCRIPTS=' in data: |
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87 | if c.ec_flexpart_root_scripts!='../': |
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88 | data='export FLEXPART_ROOT_SCRIPTS='+c.ec_flexpart_root_scripts |
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89 | else: |
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90 | data='export FLEXPART_ROOT_SCRIPTS=$HOME' |
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91 | |
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92 | fo.write(data+'\n') |
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93 | f.close() |
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94 | fo.close() |
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95 | |
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96 | if target.lower()!='local': |
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97 | template=ecd+'python/job.temp.o' |
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98 | with open(template) as f: |
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99 | fdata = f.read().split('\n') |
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100 | f.close() |
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101 | fo=open(template[:-2],'w') |
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102 | for data in fdata: |
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103 | if '--workdir' in data: |
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104 | data='#SBATCH --workdir=/scratch/ms/'+c.ecgid+'/'+c.ecuid |
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105 | if '##PBS -o' in data: |
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106 | data='##PBS -o /scratch/ms/'+c.ecgid+'/'+c.ecuid+'flex_ecmwf.$Jobname.$Job_ID.out' |
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107 | if 'export PATH=${PATH}:' in data: |
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108 | data+=c.ec_flexpart_root_scripts+'/flex_extract_v7.0.4/python' |
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109 | |
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110 | if 'cat>>' in data or 'cat >>' in data: |
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111 | i=data.index('>') |
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112 | fo.write(data[:i]+data[i+1:]+'\n') |
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113 | fo.write('GATEWAY '+c.gateway+'\n') |
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114 | fo.write('DESTINATION '+c.destination+'\n') |
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115 | fo.write('EOF\n') |
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116 | |
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117 | fo.write(data+'\n') |
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118 | fo.close() |
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119 | |
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120 | job=ecd+'python/ECMWF_ENV' |
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121 | fo=open(job,'w') |
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122 | fo.write('ECUID '+c.ecuid+'\n') |
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123 | fo.write('ECGID '+c.ecgid+'\n') |
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124 | fo.write('GATEWAY '+c.gateway+'\n') |
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125 | fo.write('DESTINATION '+c.destination+'\n') |
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126 | fo.close() |
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127 | |
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128 | |
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129 | |
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130 | if target.lower()=='local': |
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131 | # compile CONVERT2 |
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132 | if c.flexpart_root_scripts==None or c.flexpart_root_scripts=='../': |
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133 | print 'Warning: FLEXPART_ROOT_SCRIPTS has not been specified' |
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134 | print 'Only CONVERT2 will be compiled in '+ecd+'/../src' |
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135 | else: |
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136 | c.flexpart_root_scripts=os.path.expandvars(os.path.expanduser(c.flexpart_root_scripts)) |
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137 | if os.path.abspath(ecd)!=os.path.abspath(c.flexpart_root_scripts): |
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138 | os.chdir('/') |
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139 | p=subprocess.check_call(['tar','-cvf',ecd+'../flex_extract_v7.0.4.tar',ecd+'python',ecd+'grib_templates',ecd+'src']) |
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140 | try: |
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141 | os.makedirs(c.flexpart_root_scripts+'/flex_extract_v7.0.4') |
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142 | except: |
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143 | pass |
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144 | os.chdir(c.flexpart_root_scripts+'/flex_extract_v7.0.4') |
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145 | p=subprocess.check_call(['tar','-xvf',ecd+'../flex_extract_v7.0.4.tar']) |
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146 | os.chdir(c.flexpart_root_scripts+'/flex_extract_v7.0.4/src') |
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147 | |
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148 | os.chdir('../src') |
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149 | print 'install flex_extract_v7.0.4 software on '+target+' in directory '+os.getcwd() |
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150 | if c.makefile==None: |
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151 | makefile='Makefile.local.ifort' |
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152 | else: |
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153 | makefile=c.makefile |
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154 | flist=glob.glob('*.mod')+glob.glob('*.o') |
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155 | if flist: |
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156 | p=subprocess.check_call(['rm']+flist) |
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157 | try: |
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158 | print 'Using makefile: '+makefile |
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159 | p=subprocess.check_call(['make','-f',makefile]) |
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160 | p=subprocess.check_call(['ls','-l','CONVERT2']) |
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161 | except: |
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162 | print 'compile failed - please edit '+makefile+' or try another Makefile in the src directory.' |
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163 | print 'most likely GRIB_API_INCLUDE_DIR, GRIB_API_LIB and EMOSLIB must be adapted.' |
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164 | print 'Available Makefiles:' |
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165 | print glob.glob('Makefile*') |
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166 | |
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167 | elif target.lower()=='ecgate': |
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168 | os.chdir('/') |
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169 | p=subprocess.check_call(['tar','-cvf',ecd+'../flex_extract_v7.0.4.tar',ecd+'python',ecd+'grib_templates',ecd+'src']) |
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170 | try: |
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171 | p=subprocess.check_call(['ecaccess-file-put',ecd+'../flex_extract_v7.0.4.tar','ecgate:/home/ms/'+c.ecgid+'/'+c.ecuid+'/flex_extract_v7.0.4.tar']) |
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172 | except: |
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173 | print 'ecaccess-file-put failed! Probably the eccert key has expired.' |
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174 | exit(1) |
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175 | p=subprocess.check_call(['ecaccess-job-submit','-queueName',target,ecd+'python/compilejob.ksh']) |
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176 | print 'compilejob.ksh has been submitted to ecgate for installation in '+c.ec_flexpart_root_scripts+'/flex_extract_v7.0.4' |
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177 | print 'You should get an email with subject flexcompile within the next few minutes' |
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178 | elif target.lower()=='cca': |
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179 | os.chdir('/') |
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180 | p=subprocess.check_call(['tar','-cvf',ecd+'../flex_extract_v7.0.4.tar',ecd+'python',ecd+'grib_templates',ecd+'src']) |
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181 | try: |
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182 | p=subprocess.check_call(['ecaccess-file-put',ecd+'../flex_extract_v7.0.4.tar','cca:/home/ms/'+c.ecgid+'/'+c.ecuid+'/flex_extract_v7.0.4.tar']) |
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183 | except: |
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184 | print 'ecaccess-file-put failed! Probably the eccert key has expired.' |
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185 | exit(1) |
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186 | |
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187 | p=subprocess.check_call(['ecaccess-job-submit','-queueName',target,ecd+'python/compilejob.ksh']) |
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188 | print 'compilejob.ksh has been submitted to cca for installation in '+c.ec_flexpart_root_scripts+'/flex_extract_v7.0.4' |
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189 | print 'You should get an email with subject flexcompile within the next few minutes' |
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190 | else: |
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191 | print 'ERROR: unknown installation target ',target |
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192 | print 'Valid targets: ecgate, cca, local' |
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193 | return |
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194 | |
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195 | |
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196 | if __name__ == "__main__": |
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197 | main() |
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