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| 59 | 7.1 |
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| 136 | <li><a href="index.html">Module code</a> »</li> |
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| 137 | |
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| 138 | <li>prepare_flexpart</li> |
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| 152 | |
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| 153 | <h1>Source code for prepare_flexpart</h1><div class="highlight"><pre> |
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| 154 | <span></span><span class="ch">#!/usr/bin/env python</span> |
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| 155 | <span class="c1"># -*- coding: utf-8 -*-</span> |
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| 156 | <span class="c1">#*******************************************************************************</span> |
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| 157 | <span class="c1"># @Author: Anne Fouilloux (University of Oslo)</span> |
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| 158 | <span class="c1">#</span> |
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| 159 | <span class="c1"># @Date: October 2014</span> |
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| 160 | <span class="c1">#</span> |
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| 161 | <span class="c1"># @Change History:</span> |
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| 162 | <span class="c1">#</span> |
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| 163 | <span class="c1"># November 2015 - Leopold Haimberger (University of Vienna):</span> |
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| 164 | <span class="c1"># - using the WebAPI also for general MARS retrievals</span> |
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| 165 | <span class="c1"># - job submission on ecgate and cca</span> |
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| 166 | <span class="c1"># - job templates suitable for twice daily operational dissemination</span> |
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| 167 | <span class="c1"># - dividing retrievals of longer periods into digestable chunks</span> |
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| 168 | <span class="c1"># - retrieve also longer term forecasts, not only analyses and</span> |
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| 169 | <span class="c1"># short term forecast data</span> |
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| 170 | <span class="c1"># - conversion into GRIB2</span> |
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| 171 | <span class="c1"># - conversion into .fp format for faster execution of FLEXPART</span> |
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| 172 | <span class="c1">#</span> |
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| 173 | <span class="c1"># February 2018 - Anne Philipp (University of Vienna):</span> |
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| 174 | <span class="c1"># - applied PEP8 style guide</span> |
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| 175 | <span class="c1"># - added documentation</span> |
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| 176 | <span class="c1"># - minor changes in programming style for consistence</span> |
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[2625ca8] | 177 | <span class="c1"># - BUGFIX: removed call of clean_up-Function after call of</span> |
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[274f9ef] | 178 | <span class="c1"># prepareFlexpart in main since it is already called in</span> |
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| 179 | <span class="c1"># prepareFlexpart at the end!</span> |
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| 180 | <span class="c1"># - created function main and moved the two function calls for</span> |
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| 181 | <span class="c1"># arguments and prepare_flexpart into it</span> |
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| 182 | <span class="c1">#</span> |
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| 183 | <span class="c1"># @License:</span> |
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[2625ca8] | 184 | <span class="c1"># (C) Copyright 2014-2019.</span> |
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| 185 | <span class="c1"># Anne Philipp, Leopold Haimberger</span> |
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[274f9ef] | 186 | <span class="c1">#</span> |
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[2625ca8] | 187 | <span class="c1"># This work is licensed under the Creative Commons Attribution 4.0</span> |
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| 188 | <span class="c1"># International License. To view a copy of this license, visit</span> |
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| 189 | <span class="c1"># http://creativecommons.org/licenses/by/4.0/ or send a letter to</span> |
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| 190 | <span class="c1"># Creative Commons, PO Box 1866, Mountain View, CA 94042, USA.</span> |
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[274f9ef] | 191 | <span class="c1">#*******************************************************************************</span> |
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[2625ca8] | 192 | <span class="sd">'''This script prepares the final version of the grib files which are</span> |
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| 193 | <span class="sd">then used by FLEXPART.</span> |
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| 194 | |
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| 195 | <span class="sd">It converts the bunch of grib files extracted via get_mars_data before,</span> |
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| 196 | <span class="sd">by doing the necessary conversion to get consistent grids or the</span> |
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| 197 | <span class="sd">disaggregation of flux data. Finally, the data fields are combined</span> |
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| 198 | <span class="sd">in files per available hour with the naming convention xxYYMMDDHH,</span> |
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| 199 | <span class="sd">where xx should be 2 arbitrary letters (mostly xx is chosen to be "EN").</span> |
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| 200 | |
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| 201 | <span class="sd">This file can also be imported as a module which then contains the following</span> |
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| 202 | <span class="sd">functions:</span> |
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| 203 | |
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| 204 | <span class="sd"> * main</span> |
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| 205 | <span class="sd"> * prepare_flexpart</span> |
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| 206 | |
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| 207 | <span class="sd">Type: prepare_flexpart.py --help</span> |
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| 208 | <span class="sd">to get information about command line parameters.</span> |
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| 209 | <span class="sd">Read the documentation for usage instructions.</span> |
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| 210 | <span class="sd">'''</span> |
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[274f9ef] | 211 | |
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| 212 | <span class="c1"># ------------------------------------------------------------------------------</span> |
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| 213 | <span class="c1"># MODULES</span> |
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| 214 | <span class="c1"># ------------------------------------------------------------------------------</span> |
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| 215 | <span class="kn">import</span> <span class="nn">datetime</span> |
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| 216 | <span class="kn">import</span> <span class="nn">os</span> |
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| 217 | <span class="kn">import</span> <span class="nn">inspect</span> |
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| 218 | <span class="kn">import</span> <span class="nn">sys</span> |
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| 219 | <span class="kn">import</span> <span class="nn">socket</span> |
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| 220 | |
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| 221 | <span class="c1"># software specific classes and modules from flex_extract</span> |
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[2625ca8] | 222 | <span class="c1"># add path to local main python path for flex_extract to get full access</span> |
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[274f9ef] | 223 | <span class="n">sys</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">dirname</span><span class="p">(</span><span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">abspath</span><span class="p">(</span> |
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| 224 | <span class="n">inspect</span><span class="o">.</span><span class="n">getfile</span><span class="p">(</span><span class="n">inspect</span><span class="o">.</span><span class="n">currentframe</span><span class="p">())))</span> <span class="o">+</span> <span class="s1">'/../'</span><span class="p">)</span> |
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| 225 | <span class="kn">import</span> <span class="nn">_config</span> |
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[2625ca8] | 226 | <span class="kn">from</span> <span class="nn">checks</span> <span class="k">import</span> <span class="n">check_ppid</span> |
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[274f9ef] | 227 | <span class="kn">from</span> <span class="nn">classes.UioFiles</span> <span class="k">import</span> <span class="n">UioFiles</span> |
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| 228 | <span class="kn">from</span> <span class="nn">classes.ControlFile</span> <span class="k">import</span> <span class="n">ControlFile</span> |
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[2625ca8] | 229 | <span class="kn">from</span> <span class="nn">tools</span> <span class="k">import</span> <span class="n">clean_up</span><span class="p">,</span> <span class="n">get_cmdline_args</span><span class="p">,</span> <span class="n">read_ecenv</span><span class="p">,</span> <span class="n">make_dir</span> |
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[274f9ef] | 230 | <span class="kn">from</span> <span class="nn">classes.EcFlexpart</span> <span class="k">import</span> <span class="n">EcFlexpart</span> |
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| 231 | |
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| 232 | <span class="n">ecapi</span> <span class="o">=</span> <span class="s1">'ecmwf'</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">socket</span><span class="o">.</span><span class="n">gethostname</span><span class="p">()</span> |
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| 233 | <span class="k">try</span><span class="p">:</span> |
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| 234 | <span class="k">if</span> <span class="n">ecapi</span><span class="p">:</span> |
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| 235 | <span class="kn">import</span> <span class="nn">ecmwfapi</span> |
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| 236 | <span class="k">except</span> <span class="ne">ImportError</span><span class="p">:</span> |
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| 237 | <span class="n">ecapi</span> <span class="o">=</span> <span class="kc">False</span> |
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| 238 | |
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| 239 | <span class="c1"># ------------------------------------------------------------------------------</span> |
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| 240 | <span class="c1"># FUNCTION</span> |
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| 241 | <span class="c1"># ------------------------------------------------------------------------------</span> |
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| 242 | <div class="viewcode-block" id="main"><a class="viewcode-back" href="../api.html#prepare_flexpart.main">[docs]</a><span class="k">def</span> <span class="nf">main</span><span class="p">():</span> |
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| 243 | <span class="sd">'''Controls the program to prepare flexpart input files from mars data.</span> |
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| 244 | |
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| 245 | <span class="sd"> This is done if it is called directly from command line.</span> |
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| 246 | <span class="sd"> Then it also takes program call arguments and control file input.</span> |
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| 247 | |
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| 248 | <span class="sd"> Parameters</span> |
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| 249 | <span class="sd"> ----------</span> |
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| 250 | |
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| 251 | <span class="sd"> Return</span> |
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| 252 | <span class="sd"> ------</span> |
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| 253 | |
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| 254 | <span class="sd"> '''</span> |
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| 255 | |
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[2625ca8] | 256 | <span class="n">args</span> <span class="o">=</span> <span class="n">get_cmdline_args</span><span class="p">()</span> |
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[274f9ef] | 257 | <span class="n">c</span> <span class="o">=</span> <span class="n">ControlFile</span><span class="p">(</span><span class="n">args</span><span class="o">.</span><span class="n">controlfile</span><span class="p">)</span> |
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| 258 | |
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| 259 | <span class="n">env_parameter</span> <span class="o">=</span> <span class="n">read_ecenv</span><span class="p">(</span><span class="n">_config</span><span class="o">.</span><span class="n">PATH_ECMWF_ENV</span><span class="p">)</span> |
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| 260 | <span class="n">c</span><span class="o">.</span><span class="n">assign_args_to_control</span><span class="p">(</span><span class="n">args</span><span class="p">)</span> |
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| 261 | <span class="n">c</span><span class="o">.</span><span class="n">assign_envs_to_control</span><span class="p">(</span><span class="n">env_parameter</span><span class="p">)</span> |
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| 262 | <span class="n">c</span><span class="o">.</span><span class="n">check_conditions</span><span class="p">(</span><span class="n">args</span><span class="o">.</span><span class="n">queue</span><span class="p">)</span> |
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| 263 | |
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| 264 | <span class="n">prepare_flexpart</span><span class="p">(</span><span class="n">args</span><span class="o">.</span><span class="n">ppid</span><span class="p">,</span> <span class="n">c</span><span class="p">)</span> |
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| 265 | |
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| 266 | <span class="k">return</span></div> |
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| 267 | |
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| 268 | <div class="viewcode-block" id="prepare_flexpart"><a class="viewcode-back" href="../api.html#prepare_flexpart.prepare_flexpart">[docs]</a><span class="k">def</span> <span class="nf">prepare_flexpart</span><span class="p">(</span><span class="n">ppid</span><span class="p">,</span> <span class="n">c</span><span class="p">):</span> |
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| 269 | <span class="sd">'''Converts the mars data into flexpart ready input files.</span> |
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| 270 | |
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| 271 | <span class="sd"> Specific data fields are converted to a different grid and the flux</span> |
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| 272 | <span class="sd"> data are going to be disaggregated. The data fields are collected by</span> |
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| 273 | <span class="sd"> hour and stored in a file with a specific FLEXPART relevant naming</span> |
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| 274 | <span class="sd"> convention.</span> |
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| 275 | |
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| 276 | <span class="sd"> Parameters</span> |
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| 277 | <span class="sd"> ----------</span> |
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[2625ca8] | 278 | <span class="sd"> ppid : int</span> |
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[274f9ef] | 279 | <span class="sd"> Contains the ppid number of the current ECMWF job. It will be None if</span> |
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| 280 | <span class="sd"> the method was called within this module.</span> |
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| 281 | |
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[2625ca8] | 282 | <span class="sd"> c : ControlFile</span> |
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[274f9ef] | 283 | <span class="sd"> Contains all the parameters of CONTROL file and</span> |
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| 284 | <span class="sd"> command line.</span> |
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| 285 | |
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| 286 | <span class="sd"> Return</span> |
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| 287 | <span class="sd"> ------</span> |
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| 288 | |
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| 289 | <span class="sd"> '''</span> |
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[2625ca8] | 290 | <span class="n">check_ppid</span><span class="p">(</span><span class="n">c</span><span class="p">,</span> <span class="n">ppid</span><span class="p">)</span> |
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[274f9ef] | 291 | |
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| 292 | <span class="n">c</span><span class="o">.</span><span class="n">ecapi</span> <span class="o">=</span> <span class="n">ecapi</span> |
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| 293 | |
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| 294 | <span class="c1"># create the start and end date</span> |
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| 295 | <span class="n">start</span> <span class="o">=</span> <span class="n">datetime</span><span class="o">.</span><span class="n">date</span><span class="p">(</span><span class="n">year</span><span class="o">=</span><span class="nb">int</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">start_date</span><span class="p">[:</span><span class="mi">4</span><span class="p">]),</span> |
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| 296 | <span class="n">month</span><span class="o">=</span><span class="nb">int</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">start_date</span><span class="p">[</span><span class="mi">4</span><span class="p">:</span><span class="mi">6</span><span class="p">]),</span> |
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| 297 | <span class="n">day</span><span class="o">=</span><span class="nb">int</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">start_date</span><span class="p">[</span><span class="mi">6</span><span class="p">:]))</span> |
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| 298 | |
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| 299 | <span class="n">end</span> <span class="o">=</span> <span class="n">datetime</span><span class="o">.</span><span class="n">date</span><span class="p">(</span><span class="n">year</span><span class="o">=</span><span class="nb">int</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">end_date</span><span class="p">[:</span><span class="mi">4</span><span class="p">]),</span> |
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| 300 | <span class="n">month</span><span class="o">=</span><span class="nb">int</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">end_date</span><span class="p">[</span><span class="mi">4</span><span class="p">:</span><span class="mi">6</span><span class="p">]),</span> |
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| 301 | <span class="n">day</span><span class="o">=</span><span class="nb">int</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">end_date</span><span class="p">[</span><span class="mi">6</span><span class="p">:]))</span> |
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| 302 | |
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[2625ca8] | 303 | <span class="c1"># if basetime is 00</span> |
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[274f9ef] | 304 | <span class="c1"># assign starting date minus 1 day</span> |
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[2625ca8] | 305 | <span class="c1"># since we need the 12 hours upfront</span> |
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[274f9ef] | 306 | <span class="c1"># (the day before from 12 UTC to current day 00 UTC)</span> |
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| 307 | <span class="k">if</span> <span class="n">c</span><span class="o">.</span><span class="n">basetime</span> <span class="o">==</span> <span class="s1">'00'</span><span class="p">:</span> |
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| 308 | <span class="n">start</span> <span class="o">=</span> <span class="n">start</span> <span class="o">-</span> <span class="n">datetime</span><span class="o">.</span><span class="n">timedelta</span><span class="p">(</span><span class="n">days</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span> |
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| 309 | |
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| 310 | <span class="nb">print</span><span class="p">(</span><span class="s1">'Prepare '</span> <span class="o">+</span> <span class="n">start</span><span class="o">.</span><span class="n">strftime</span><span class="p">(</span><span class="s2">"%Y%m</span><span class="si">%d</span><span class="s2">"</span><span class="p">)</span> <span class="o">+</span> |
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| 311 | <span class="s2">"/to/"</span> <span class="o">+</span> <span class="n">end</span><span class="o">.</span><span class="n">strftime</span><span class="p">(</span><span class="s2">"%Y%m</span><span class="si">%d</span><span class="s2">"</span><span class="p">))</span> |
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| 312 | |
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| 313 | <span class="c1"># create output dir if necessary</span> |
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| 314 | <span class="k">if</span> <span class="ow">not</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">exists</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">outputdir</span><span class="p">):</span> |
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| 315 | <span class="n">make_dir</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">outputdir</span><span class="p">)</span> |
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| 316 | |
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| 317 | <span class="c1"># get all files with flux data to be deaccumulated</span> |
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| 318 | <span class="n">inputfiles</span> <span class="o">=</span> <span class="n">UioFiles</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">inputdir</span><span class="p">,</span> <span class="s1">'*OG_acc_SL*.'</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">ppid</span><span class="p">)</span> <span class="o">+</span> <span class="s1">'.*'</span><span class="p">)</span> |
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| 319 | |
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| 320 | <span class="c1"># deaccumulate the flux data</span> |
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| 321 | <span class="n">flexpart</span> <span class="o">=</span> <span class="n">EcFlexpart</span><span class="p">(</span><span class="n">c</span><span class="p">,</span> <span class="n">fluxes</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span> |
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| 322 | <span class="n">flexpart</span><span class="o">.</span><span class="n">write_namelist</span><span class="p">(</span><span class="n">c</span><span class="p">)</span> |
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| 323 | <span class="n">flexpart</span><span class="o">.</span><span class="n">deacc_fluxes</span><span class="p">(</span><span class="n">inputfiles</span><span class="p">,</span> <span class="n">c</span><span class="p">)</span> |
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| 324 | |
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[2625ca8] | 325 | <span class="c1"># get a list of all other files</span> |
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[274f9ef] | 326 | <span class="n">inputfiles</span> <span class="o">=</span> <span class="n">UioFiles</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">inputdir</span><span class="p">,</span> <span class="s1">'????__??.*'</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">ppid</span><span class="p">)</span> <span class="o">+</span> <span class="s1">'.*'</span><span class="p">)</span> |
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| 327 | |
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| 328 | <span class="c1"># produce FLEXPART-ready GRIB files and process them -</span> |
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| 329 | <span class="c1"># copy/transfer/interpolate them or make them GRIB2</span> |
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| 330 | <span class="n">flexpart</span> <span class="o">=</span> <span class="n">EcFlexpart</span><span class="p">(</span><span class="n">c</span><span class="p">,</span> <span class="n">fluxes</span><span class="o">=</span><span class="kc">False</span><span class="p">)</span> |
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| 331 | <span class="n">flexpart</span><span class="o">.</span><span class="n">create</span><span class="p">(</span><span class="n">inputfiles</span><span class="p">,</span> <span class="n">c</span><span class="p">)</span> |
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| 332 | <span class="n">flexpart</span><span class="o">.</span><span class="n">process_output</span><span class="p">(</span><span class="n">c</span><span class="p">)</span> |
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[2625ca8] | 333 | |
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| 334 | <span class="c1"># make use of a possible conversion to a</span> |
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| 335 | <span class="c1"># specific flexpart binary format</span> |
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[274f9ef] | 336 | <span class="k">if</span> <span class="n">c</span><span class="o">.</span><span class="n">grib2flexpart</span><span class="p">:</span> |
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| 337 | <span class="n">flexpart</span><span class="o">.</span><span class="n">prepare_fp_files</span><span class="p">(</span><span class="n">c</span><span class="p">)</span> |
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| 338 | |
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| 339 | <span class="c1"># check if in debugging mode, then store all files</span> |
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| 340 | <span class="c1"># otherwise delete temporary files</span> |
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| 341 | <span class="k">if</span> <span class="n">c</span><span class="o">.</span><span class="n">debug</span><span class="p">:</span> |
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| 342 | <span class="nb">print</span><span class="p">(</span><span class="s1">'</span><span class="se">\n</span><span class="s1">Temporary files left intact'</span><span class="p">)</span> |
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| 343 | <span class="k">else</span><span class="p">:</span> |
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| 344 | <span class="n">clean_up</span><span class="p">(</span><span class="n">c</span><span class="p">)</span> |
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| 345 | |
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| 346 | <span class="k">return</span></div> |
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| 347 | |
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| 348 | <span class="k">if</span> <span class="vm">__name__</span> <span class="o">==</span> <span class="s2">"__main__"</span><span class="p">:</span> |
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| 349 | <span class="n">main</span><span class="p">()</span> |
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| 350 | </pre></div> |
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| 351 | |
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| 352 | </div> |
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| 353 | |
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| 354 | </div> |
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| 355 | <footer> |
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| 356 | |
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| 357 | |
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| 358 | <hr/> |
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| 359 | |
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| 360 | <div role="contentinfo"> |
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| 361 | <p> |
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[2625ca8] | 362 | © Copyright 2018, Anne Philipp and Leopold Haimberger |
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[274f9ef] | 363 | |
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| 364 | </p> |
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| 365 | </div> |
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| 366 | Built with <a href="http://sphinx-doc.org/">Sphinx</a> using a <a href="https://github.com/rtfd/sphinx_rtd_theme">theme</a> provided by <a href="https://readthedocs.org">Read the Docs</a>. |
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| 367 | |
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| 368 | </footer> |
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| 369 | |
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| 370 | </div> |
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| 371 | </div> |
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| 372 | |
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| 373 | </section> |
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| 374 | |
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| 375 | </div> |
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| 376 | |
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| 377 | |
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| 378 | |
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| 379 | |
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| 380 | |
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[2625ca8] | 381 | |
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| 382 | |
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| 383 | <script type="text/javascript" id="documentation_options" data-url_root="../" src="../_static/documentation_options.js"></script> |
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| 384 | <script type="text/javascript" src="../_static/jquery.js"></script> |
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| 385 | <script type="text/javascript" src="../_static/underscore.js"></script> |
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| 386 | <script type="text/javascript" src="../_static/doctools.js"></script> |
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| 387 | |
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[274f9ef] | 388 | |
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| 389 | |
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| 390 | |
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| 391 | <script type="text/javascript" src="../_static/js/theme.js"></script> |
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| 392 | |
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| 393 | <script type="text/javascript"> |
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| 394 | jQuery(function () { |
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| 395 | SphinxRtdTheme.Navigation.enable(true); |
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| 396 | }); |
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| 397 | </script> |
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| 398 | |
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| 399 | </body> |
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| 400 | </html> |
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