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| 63 | <div class="version"> |
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[6931f61] | 64 | 7.1.2 |
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[0b00607] | 65 | </div> |
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| 89 | <ul> |
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| 90 | <li class="toctree-l1"><a class="reference internal" href="../ecmwf_data.html">ECMWF Data</a></li> |
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[5bee29a] | 91 | <li class="toctree-l1"><a class="reference internal" href="../installation.html">Installation</a></li> |
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| 147 | <li>install</li> |
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| 162 | <h1>Source code for install</h1><div class="highlight"><pre> |
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[30f7911] | 163 | <span></span><span class="ch">#!/usr/bin/env python3</span> |
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[0b00607] | 164 | <span class="c1"># -*- coding: utf-8 -*-</span> |
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| 165 | <span class="c1">#*******************************************************************************</span> |
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| 166 | <span class="c1"># @Author: Leopold Haimberger (University of Vienna)</span> |
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| 167 | <span class="c1">#</span> |
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| 168 | <span class="c1"># @Date: November 2015</span> |
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| 169 | <span class="c1">#</span> |
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| 170 | <span class="c1"># @Change History:</span> |
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| 171 | <span class="c1">#</span> |
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| 172 | <span class="c1"># February 2018 - Anne Philipp (University of Vienna):</span> |
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| 173 | <span class="c1"># - applied PEP8 style guide</span> |
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| 174 | <span class="c1"># - added documentation</span> |
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| 175 | <span class="c1"># - moved install_args_and_control in here</span> |
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| 176 | <span class="c1"># - splitted code in smaller functions</span> |
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[08c9091] | 177 | <span class="c1"># - delete fortran build files in here instead of compile job script</span> |
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[0b00607] | 178 | <span class="c1"># - changed static path names to variables from config file</span> |
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| 179 | <span class="c1"># - splitted install function into several smaller pieces</span> |
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| 180 | <span class="c1"># - use of tarfile package in python</span> |
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[08c9091] | 181 | <span class="c1"># June 2020 - Anne Philipp</span> |
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| 182 | <span class="c1"># - renamed "convert" functions to "fortran" functions</span> |
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[47be2684] | 183 | <span class="c1"># - reconfigured mk_tarball to select *.template files instead</span> |
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[08c9091] | 184 | <span class="c1"># of *.nl and *.temp</span> |
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| 185 | <span class="c1"># - added check for makefile settings</span> |
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[0b00607] | 186 | <span class="c1">#</span> |
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| 187 | <span class="c1"># @License:</span> |
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[08c9091] | 188 | <span class="c1"># (C) Copyright 2014-2020.</span> |
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[0b00607] | 189 | <span class="c1"># Anne Philipp, Leopold Haimberger</span> |
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| 190 | <span class="c1">#</span> |
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[30f7911] | 191 | <span class="c1"># SPDX-License-Identifier: CC-BY-4.0</span> |
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| 192 | <span class="c1">#</span> |
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[0b00607] | 193 | <span class="c1"># This work is licensed under the Creative Commons Attribution 4.0</span> |
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| 194 | <span class="c1"># International License. To view a copy of this license, visit</span> |
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| 195 | <span class="c1"># http://creativecommons.org/licenses/by/4.0/ or send a letter to</span> |
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| 196 | <span class="c1"># Creative Commons, PO Box 1866, Mountain View, CA 94042, USA.</span> |
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| 197 | <span class="c1">#</span> |
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| 198 | <span class="c1"># @Methods:</span> |
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| 199 | <span class="c1"># main</span> |
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| 200 | <span class="c1"># get_install_cmdline_args</span> |
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| 201 | <span class="c1"># install_via_gateway</span> |
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| 202 | <span class="c1"># check_install_conditions</span> |
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| 203 | <span class="c1"># mk_tarball</span> |
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| 204 | <span class="c1"># un_tarball</span> |
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| 205 | <span class="c1"># mk_env_vars</span> |
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| 206 | <span class="c1"># mk_compilejob</span> |
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| 207 | <span class="c1"># mk_job_template</span> |
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[08c9091] | 208 | <span class="c1"># del_fortran_build</span> |
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| 209 | <span class="c1"># mk_fortran_build</span> |
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[0b00607] | 210 | <span class="c1">#</span> |
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| 211 | <span class="c1">#*******************************************************************************</span> |
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| 212 | <span class="sd">'''This script installs the flex_extract program.</span> |
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| 213 | |
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| 214 | <span class="sd">Depending on the selected installation environment (locally or on the</span> |
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[5920b7f] | 215 | <span class="sd">ECMWF server ecgate or cca) the program extracts the command line</span> |
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[0b00607] | 216 | <span class="sd">arguments and the CONTROL file parameter and prepares the corresponding</span> |
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| 217 | <span class="sd">environment.</span> |
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[5920b7f] | 218 | <span class="sd">The necessary files are collected in a tar ball and placed</span> |
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| 219 | <span class="sd">at the target location. There, is is untared, the environment variables are</span> |
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| 220 | <span class="sd">set, and the Fortran code is compiled.</span> |
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| 221 | <span class="sd">If the ECMWF environment is selected, a job script is prepared and submitted</span> |
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| 222 | <span class="sd">for the remaining configurations after putting the tar ball on the</span> |
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[0b00607] | 223 | <span class="sd">target ECMWF server.</span> |
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| 224 | |
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| 225 | <span class="sd">Type: install.py --help</span> |
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| 226 | <span class="sd">to get information about command line parameters.</span> |
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| 227 | <span class="sd">Read the documentation for usage instructions.</span> |
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| 228 | <span class="sd">'''</span> |
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| 229 | |
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| 230 | <span class="c1"># ------------------------------------------------------------------------------</span> |
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| 231 | <span class="c1"># MODULES</span> |
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| 232 | <span class="c1"># ------------------------------------------------------------------------------</span> |
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[b1674ed] | 233 | <span class="kn">from</span> <span class="nn">__future__</span> <span class="kn">import</span> <span class="n">print_function</span> |
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[0b00607] | 234 | |
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| 235 | <span class="kn">import</span> <span class="nn">os</span> |
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| 236 | <span class="kn">import</span> <span class="nn">sys</span> |
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| 237 | <span class="kn">import</span> <span class="nn">subprocess</span> |
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| 238 | <span class="kn">import</span> <span class="nn">tarfile</span> |
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[47be2684] | 239 | <span class="kn">import</span> <span class="nn">shutil</span> |
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[b1674ed] | 240 | <span class="kn">from</span> <span class="nn">argparse</span> <span class="kn">import</span> <span class="n">ArgumentParser</span><span class="p">,</span> <span class="n">ArgumentDefaultsHelpFormatter</span> |
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[0b00607] | 241 | |
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| 242 | <span class="c1"># software specific classes and modules from flex_extract</span> |
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| 243 | <span class="kn">import</span> <span class="nn">_config</span> |
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[b1674ed] | 244 | <span class="kn">from</span> <span class="nn">Classes.ControlFile</span> <span class="kn">import</span> <span class="n">ControlFile</span> |
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| 245 | <span class="kn">from</span> <span class="nn">Classes.UioFiles</span> <span class="kn">import</span> <span class="n">UioFiles</span> |
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| 246 | <span class="kn">from</span> <span class="nn">Mods.tools</span> <span class="kn">import</span> <span class="p">(</span><span class="n">make_dir</span><span class="p">,</span> <span class="n">put_file_to_ecserver</span><span class="p">,</span> <span class="n">submit_job_to_ecserver</span><span class="p">,</span> |
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[47be2684] | 247 | <span class="n">silent_remove</span><span class="p">,</span> <span class="n">execute_subprocess</span><span class="p">,</span> <span class="n">none_or_str</span><span class="p">,</span> |
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| 248 | <span class="n">overwrite_lines_in_file</span><span class="p">,</span> <span class="n">check_for_string_in_file</span><span class="p">)</span> |
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[0b00607] | 249 | |
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| 250 | <span class="c1"># ------------------------------------------------------------------------------</span> |
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| 251 | <span class="c1"># FUNCTIONS</span> |
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| 252 | <span class="c1"># ------------------------------------------------------------------------------</span> |
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| 253 | <div class="viewcode-block" id="main"><a class="viewcode-back" href="../Documentation/Api/api_python.html#install.main">[docs]</a><span class="k">def</span> <span class="nf">main</span><span class="p">():</span> |
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| 254 | <span class="sd">'''Controls the installation process. Calls the installation function</span> |
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| 255 | <span class="sd"> if target is specified.</span> |
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| 256 | |
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| 257 | <span class="sd"> Parameters</span> |
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| 258 | <span class="sd"> ----------</span> |
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| 259 | |
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| 260 | <span class="sd"> Return</span> |
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| 261 | <span class="sd"> ------</span> |
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| 262 | <span class="sd"> '''</span> |
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| 263 | |
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| 264 | <span class="n">args</span> <span class="o">=</span> <span class="n">get_install_cmdline_args</span><span class="p">()</span> |
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| 265 | <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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| 266 | <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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| 267 | <span class="n">check_install_conditions</span><span class="p">(</span><span class="n">c</span><span class="p">)</span> |
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| 268 | |
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[47be2684] | 269 | <span class="k">if</span> <span class="n">c</span><span class="o">.</span><span class="n">install_target</span><span class="o">.</span><span class="n">lower</span><span class="p">()</span> <span class="ow">not</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">'local'</span><span class="p">,</span> <span class="s1">'syslocal'</span><span class="p">]:</span> <span class="c1"># ecgate or cca</span> |
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[0b00607] | 270 | <span class="n">install_via_gateway</span><span class="p">(</span><span class="n">c</span><span class="p">)</span> |
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| 271 | <span class="k">else</span><span class="p">:</span> <span class="c1"># local</span> |
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| 272 | <span class="n">install_local</span><span class="p">(</span><span class="n">c</span><span class="p">)</span> |
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| 273 | |
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[47be2684] | 274 | <span class="nb">print</span><span class="p">(</span><span class="s2">"SUCCESS: INSTALLATION FINISHED!"</span><span class="p">)</span> |
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| 275 | |
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[0b00607] | 276 | <span class="k">return</span></div> |
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| 277 | |
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| 278 | <div class="viewcode-block" id="get_install_cmdline_args"><a class="viewcode-back" href="../Documentation/Api/api_python.html#install.get_install_cmdline_args">[docs]</a><span class="k">def</span> <span class="nf">get_install_cmdline_args</span><span class="p">():</span> |
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| 279 | <span class="sd">'''Decomposes the command line arguments and assigns them to variables.</span> |
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[5920b7f] | 280 | <span class="sd"> Apply default values for arguments not present.</span> |
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[0b00607] | 281 | |
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| 282 | <span class="sd"> Parameters</span> |
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| 283 | <span class="sd"> ----------</span> |
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| 284 | |
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| 285 | <span class="sd"> Return</span> |
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| 286 | <span class="sd"> ------</span> |
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| 287 | <span class="sd"> args : Namespace</span> |
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| 288 | <span class="sd"> Contains the commandline arguments from script/program call.</span> |
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| 289 | <span class="sd"> '''</span> |
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| 290 | <span class="n">parser</span> <span class="o">=</span> <span class="n">ArgumentParser</span><span class="p">(</span><span class="n">description</span><span class="o">=</span><span class="s1">'Install flex_extract software '</span> |
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| 291 | <span class="s1">'locally or on ECMWF machines'</span><span class="p">,</span> |
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| 292 | <span class="n">formatter_class</span><span class="o">=</span><span class="n">ArgumentDefaultsHelpFormatter</span><span class="p">)</span> |
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| 293 | |
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| 294 | <span class="n">parser</span><span class="o">.</span><span class="n">add_argument</span><span class="p">(</span><span class="s1">'--target'</span><span class="p">,</span> <span class="n">dest</span><span class="o">=</span><span class="s1">'install_target'</span><span class="p">,</span> |
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| 295 | <span class="nb">type</span><span class="o">=</span><span class="n">none_or_str</span><span class="p">,</span> <span class="n">default</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> |
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[47be2684] | 296 | <span class="n">help</span><span class="o">=</span><span class="s2">"Valid targets: syslocal | local | ecgate | cca , </span><span class="se">\</span> |
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[0b00607] | 297 | <span class="s2"> the latter two are at ECMWF"</span><span class="p">)</span> |
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| 298 | <span class="n">parser</span><span class="o">.</span><span class="n">add_argument</span><span class="p">(</span><span class="s2">"--makefile"</span><span class="p">,</span> <span class="n">dest</span><span class="o">=</span><span class="s2">"makefile"</span><span class="p">,</span> |
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| 299 | <span class="nb">type</span><span class="o">=</span><span class="n">none_or_str</span><span class="p">,</span> <span class="n">default</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> |
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[5920b7f] | 300 | <span class="n">help</span><span class="o">=</span><span class="s1">'Name of makefile for compiling the '</span> |
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[0b00607] | 301 | <span class="s1">'Fortran program'</span><span class="p">)</span> |
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| 302 | <span class="n">parser</span><span class="o">.</span><span class="n">add_argument</span><span class="p">(</span><span class="s2">"--ecuid"</span><span class="p">,</span> <span class="n">dest</span><span class="o">=</span><span class="s2">"ecuid"</span><span class="p">,</span> |
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| 303 | <span class="nb">type</span><span class="o">=</span><span class="n">none_or_str</span><span class="p">,</span> <span class="n">default</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> |
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[5920b7f] | 304 | <span class="n">help</span><span class="o">=</span><span class="s1">'User id at ECMWF'</span><span class="p">)</span> |
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[0b00607] | 305 | <span class="n">parser</span><span class="o">.</span><span class="n">add_argument</span><span class="p">(</span><span class="s2">"--ecgid"</span><span class="p">,</span> <span class="n">dest</span><span class="o">=</span><span class="s2">"ecgid"</span><span class="p">,</span> |
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| 306 | <span class="nb">type</span><span class="o">=</span><span class="n">none_or_str</span><span class="p">,</span> <span class="n">default</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> |
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[5920b7f] | 307 | <span class="n">help</span><span class="o">=</span><span class="s1">'Group id at ECMWF'</span><span class="p">)</span> |
---|
[0b00607] | 308 | <span class="n">parser</span><span class="o">.</span><span class="n">add_argument</span><span class="p">(</span><span class="s2">"--gateway"</span><span class="p">,</span> <span class="n">dest</span><span class="o">=</span><span class="s2">"gateway"</span><span class="p">,</span> |
---|
| 309 | <span class="nb">type</span><span class="o">=</span><span class="n">none_or_str</span><span class="p">,</span> <span class="n">default</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> |
---|
[5920b7f] | 310 | <span class="n">help</span><span class="o">=</span><span class="s1">'Name of the local gateway server'</span><span class="p">)</span> |
---|
[0b00607] | 311 | <span class="n">parser</span><span class="o">.</span><span class="n">add_argument</span><span class="p">(</span><span class="s2">"--destination"</span><span class="p">,</span> <span class="n">dest</span><span class="o">=</span><span class="s2">"destination"</span><span class="p">,</span> |
---|
| 312 | <span class="nb">type</span><span class="o">=</span><span class="n">none_or_str</span><span class="p">,</span> <span class="n">default</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> |
---|
[5920b7f] | 313 | <span class="n">help</span><span class="o">=</span><span class="s1">'ecaccess association, e.g. '</span> |
---|
[0b00607] | 314 | <span class="s1">'myUser@genericSftp'</span><span class="p">)</span> |
---|
| 315 | |
---|
| 316 | <span class="n">parser</span><span class="o">.</span><span class="n">add_argument</span><span class="p">(</span><span class="s2">"--installdir"</span><span class="p">,</span> <span class="n">dest</span><span class="o">=</span><span class="s2">"installdir"</span><span class="p">,</span> |
---|
| 317 | <span class="nb">type</span><span class="o">=</span><span class="n">none_or_str</span><span class="p">,</span> <span class="n">default</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> |
---|
[47be2684] | 318 | <span class="n">help</span><span class="o">=</span><span class="s1">'Root (user) directory of the '</span> |
---|
[5920b7f] | 319 | <span class="s1">'flex_extract installation'</span><span class="p">)</span> |
---|
[47be2684] | 320 | <span class="n">parser</span><span class="o">.</span><span class="n">add_argument</span><span class="p">(</span><span class="s2">"--sysinstalldir"</span><span class="p">,</span> <span class="n">dest</span><span class="o">=</span><span class="s2">"sysinstalldir"</span><span class="p">,</span> |
---|
| 321 | <span class="nb">type</span><span class="o">=</span><span class="n">none_or_str</span><span class="p">,</span> <span class="n">default</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> |
---|
| 322 | <span class="n">help</span><span class="o">=</span><span class="s1">'System installation path; where '</span> |
---|
| 323 | <span class="s1">'executables are stored.'</span><span class="p">)</span> |
---|
[0b00607] | 324 | |
---|
| 325 | <span class="c1"># arguments for job submission to ECMWF, only needed by submit.py</span> |
---|
| 326 | <span class="n">parser</span><span class="o">.</span><span class="n">add_argument</span><span class="p">(</span><span class="s2">"--job_template"</span><span class="p">,</span> <span class="n">dest</span><span class="o">=</span><span class="s1">'job_template'</span><span class="p">,</span> |
---|
| 327 | <span class="nb">type</span><span class="o">=</span><span class="n">none_or_str</span><span class="p">,</span> <span class="n">default</span><span class="o">=</span><span class="s2">"job.template"</span><span class="p">,</span> |
---|
[5920b7f] | 328 | <span class="n">help</span><span class="o">=</span><span class="s1">'Rudimentary template file to create a batch '</span> |
---|
| 329 | <span class="s1">'job template for submission to ECMWF servers'</span><span class="p">)</span> |
---|
[0b00607] | 330 | |
---|
| 331 | <span class="n">parser</span><span class="o">.</span><span class="n">add_argument</span><span class="p">(</span><span class="s2">"--controlfile"</span><span class="p">,</span> <span class="n">dest</span><span class="o">=</span><span class="s2">"controlfile"</span><span class="p">,</span> |
---|
| 332 | <span class="nb">type</span><span class="o">=</span><span class="n">none_or_str</span><span class="p">,</span> <span class="n">default</span><span class="o">=</span><span class="s1">'CONTROL_EA5'</span><span class="p">,</span> |
---|
[5920b7f] | 333 | <span class="n">help</span><span class="o">=</span><span class="s2">"A file that contains all CONTROL parameters."</span><span class="p">)</span> |
---|
[0b00607] | 334 | |
---|
| 335 | <span class="n">args</span> <span class="o">=</span> <span class="n">parser</span><span class="o">.</span><span class="n">parse_args</span><span class="p">()</span> |
---|
| 336 | |
---|
| 337 | <span class="k">return</span> <span class="n">args</span></div> |
---|
| 338 | |
---|
| 339 | |
---|
| 340 | <div class="viewcode-block" id="install_via_gateway"><a class="viewcode-back" href="../Documentation/Api/api_python.html#install.install_via_gateway">[docs]</a><span class="k">def</span> <span class="nf">install_via_gateway</span><span class="p">(</span><span class="n">c</span><span class="p">):</span> |
---|
[5920b7f] | 341 | <span class="sd">'''Prepare data transfer to remote gateway and submit a job script which will</span> |
---|
| 342 | <span class="sd"> install everything on the remote gateway.</span> |
---|
[0b00607] | 343 | |
---|
| 344 | <span class="sd"> Parameters</span> |
---|
| 345 | <span class="sd"> ----------</span> |
---|
| 346 | <span class="sd"> c : ControlFile</span> |
---|
| 347 | <span class="sd"> Contains all the parameters of CONTROL file and</span> |
---|
| 348 | <span class="sd"> command line.</span> |
---|
| 349 | |
---|
| 350 | <span class="sd"> Return</span> |
---|
| 351 | <span class="sd"> ------</span> |
---|
| 352 | |
---|
| 353 | <span class="sd"> '''</span> |
---|
| 354 | |
---|
| 355 | <span class="n">tarball_name</span> <span class="o">=</span> <span class="n">_config</span><span class="o">.</span><span class="n">FLEXEXTRACT_DIRNAME</span> <span class="o">+</span> <span class="s1">'.tar'</span> |
---|
| 356 | <span class="n">tar_file</span> <span class="o">=</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">_config</span><span class="o">.</span><span class="n">PATH_FLEXEXTRACT_DIR</span><span class="p">,</span> <span class="n">tarball_name</span><span class="p">)</span> |
---|
| 357 | |
---|
[eca358d] | 358 | <span class="n">mk_compilejob</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">makefile</span><span class="p">,</span> <span class="n">c</span><span class="o">.</span><span class="n">ecuid</span><span class="p">,</span> <span class="n">c</span><span class="o">.</span><span class="n">ecgid</span><span class="p">,</span> <span class="n">c</span><span class="o">.</span><span class="n">installdir</span><span class="p">)</span> |
---|
[0b00607] | 359 | |
---|
[eca358d] | 360 | <span class="n">mk_job_template</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">ecuid</span><span class="p">,</span> <span class="n">c</span><span class="o">.</span><span class="n">ecgid</span><span class="p">,</span> <span class="n">c</span><span class="o">.</span><span class="n">installdir</span><span class="p">)</span> |
---|
[0b00607] | 361 | |
---|
| 362 | <span class="n">mk_env_vars</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">ecuid</span><span class="p">,</span> <span class="n">c</span><span class="o">.</span><span class="n">ecgid</span><span class="p">,</span> <span class="n">c</span><span class="o">.</span><span class="n">gateway</span><span class="p">,</span> <span class="n">c</span><span class="o">.</span><span class="n">destination</span><span class="p">)</span> |
---|
| 363 | |
---|
| 364 | <span class="n">mk_tarball</span><span class="p">(</span><span class="n">tar_file</span><span class="p">,</span> <span class="n">c</span><span class="o">.</span><span class="n">install_target</span><span class="p">)</span> |
---|
| 365 | |
---|
| 366 | <span class="n">put_file_to_ecserver</span><span class="p">(</span><span class="n">_config</span><span class="o">.</span><span class="n">PATH_FLEXEXTRACT_DIR</span><span class="p">,</span> <span class="n">tarball_name</span><span class="p">,</span> |
---|
| 367 | <span class="n">c</span><span class="o">.</span><span class="n">install_target</span><span class="p">,</span> <span class="n">c</span><span class="o">.</span><span class="n">ecuid</span><span class="p">,</span> <span class="n">c</span><span class="o">.</span><span class="n">ecgid</span><span class="p">)</span> |
---|
| 368 | |
---|
| 369 | <span class="n">submit_job_to_ecserver</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">install_target</span><span class="p">,</span> |
---|
| 370 | <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">_config</span><span class="o">.</span><span class="n">PATH_REL_JOBSCRIPTS</span><span class="p">,</span> |
---|
| 371 | <span class="n">_config</span><span class="o">.</span><span class="n">FILE_INSTALL_COMPILEJOB</span><span class="p">))</span> |
---|
| 372 | |
---|
| 373 | <span class="n">silent_remove</span><span class="p">(</span><span class="n">tar_file</span><span class="p">)</span> |
---|
| 374 | |
---|
| 375 | <span class="nb">print</span><span class="p">(</span><span class="s1">'Job compilation script has been submitted to ecgate for '</span> <span class="o">+</span> |
---|
| 376 | <span class="s1">'installation in '</span> <span class="o">+</span> <span class="n">c</span><span class="o">.</span><span class="n">installdir</span> <span class="o">+</span> |
---|
[eca358d] | 377 | <span class="s1">'/'</span> <span class="o">+</span> <span class="n">_config</span><span class="o">.</span><span class="n">FLEXEXTRACT_DIRNAME</span><span class="p">)</span> |
---|
[0b00607] | 378 | <span class="nb">print</span><span class="p">(</span><span class="s1">'You should get an email with subject "flexcompile" within '</span> <span class="o">+</span> |
---|
| 379 | <span class="s1">'the next few minutes!'</span><span class="p">)</span> |
---|
| 380 | |
---|
| 381 | <span class="k">return</span></div> |
---|
| 382 | |
---|
| 383 | <div class="viewcode-block" id="install_local"><a class="viewcode-back" href="../Documentation/Api/api_python.html#install.install_local">[docs]</a><span class="k">def</span> <span class="nf">install_local</span><span class="p">(</span><span class="n">c</span><span class="p">):</span> |
---|
| 384 | <span class="sd">'''Perform the actual installation on a local machine.</span> |
---|
| 385 | |
---|
| 386 | <span class="sd"> Parameters</span> |
---|
| 387 | <span class="sd"> ----------</span> |
---|
| 388 | <span class="sd"> c : ControlFile</span> |
---|
| 389 | <span class="sd"> Contains all the parameters of CONTROL file and</span> |
---|
| 390 | <span class="sd"> command line.</span> |
---|
| 391 | |
---|
| 392 | <span class="sd"> Return</span> |
---|
| 393 | <span class="sd"> ------</span> |
---|
| 394 | |
---|
| 395 | <span class="sd"> '''</span> |
---|
| 396 | |
---|
| 397 | <span class="n">tar_file</span> <span class="o">=</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">_config</span><span class="o">.</span><span class="n">PATH_FLEXEXTRACT_DIR</span><span class="p">,</span> |
---|
| 398 | <span class="n">_config</span><span class="o">.</span><span class="n">FLEXEXTRACT_DIRNAME</span> <span class="o">+</span> <span class="s1">'.tar'</span><span class="p">)</span> |
---|
| 399 | |
---|
[47be2684] | 400 | <span class="n">c</span><span class="o">.</span><span class="n">installdir</span> <span class="o">=</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><span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">expandvars</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">expanduser</span><span class="p">(</span> |
---|
| 401 | <span class="n">c</span><span class="o">.</span><span class="n">installdir</span><span class="p">)))</span> |
---|
| 402 | <span class="n">c</span><span class="o">.</span><span class="n">sysinstalldir</span> <span class="o">=</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><span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">expandvars</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">expanduser</span><span class="p">(</span> |
---|
| 403 | <span class="n">c</span><span class="o">.</span><span class="n">sysinstalldir</span><span class="p">)))</span> |
---|
| 404 | |
---|
| 405 | <span class="c1"># this is standard installation into a single directory</span> |
---|
| 406 | <span class="k">if</span> <span class="n">c</span><span class="o">.</span><span class="n">install_target</span> <span class="o">==</span> <span class="s1">'local'</span><span class="p">:</span> |
---|
| 407 | |
---|
| 408 | <span class="c1"># installation into the current directory</span> |
---|
| 409 | <span class="k">if</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><span class="n">_config</span><span class="o">.</span><span class="n">PATH_FLEXEXTRACT_DIR</span><span class="p">)</span> <span class="o">==</span> <span class="n">c</span><span class="o">.</span><span class="n">installdir</span><span class="p">:</span> |
---|
| 410 | <span class="nb">print</span><span class="p">(</span><span class="s1">'WARNING: installdir has not been specified'</span><span class="p">)</span> |
---|
| 411 | <span class="nb">print</span><span class="p">(</span><span class="s1">'flex_extract will be installed in current dir by compiling the '</span> <span class="o">+</span> |
---|
| 412 | <span class="s1">'Fortran source in '</span> <span class="o">+</span> <span class="n">_config</span><span class="o">.</span><span class="n">PATH_FORTRAN_SRC</span><span class="p">)</span> |
---|
| 413 | <span class="n">os</span><span class="o">.</span><span class="n">chdir</span><span class="p">(</span><span class="n">_config</span><span class="o">.</span><span class="n">PATH_FORTRAN_SRC</span><span class="p">)</span> |
---|
| 414 | <span class="c1"># installation into a different path</span> |
---|
| 415 | <span class="k">elif</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><span class="n">_config</span><span class="o">.</span><span class="n">PATH_FLEXEXTRACT_DIR</span><span class="p">)</span> <span class="o">!=</span> <span class="n">c</span><span class="o">.</span><span class="n">installdir</span> <span class="p">:</span> |
---|
| 416 | |
---|
| 417 | <span class="c1"># creates the target working directory for flex_extract</span> |
---|
[0b00607] | 418 | <span class="n">mk_tarball</span><span class="p">(</span><span class="n">tar_file</span><span class="p">,</span> <span class="n">c</span><span class="o">.</span><span class="n">install_target</span><span class="p">)</span> |
---|
| 419 | <span class="n">make_dir</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">join</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">installdir</span><span class="p">,</span> |
---|
[eca358d] | 420 | <span class="n">_config</span><span class="o">.</span><span class="n">FLEXEXTRACT_DIRNAME</span><span class="p">))</span> |
---|
[0b00607] | 421 | <span class="n">os</span><span class="o">.</span><span class="n">chdir</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">join</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">installdir</span><span class="p">,</span> |
---|
[eca358d] | 422 | <span class="n">_config</span><span class="o">.</span><span class="n">FLEXEXTRACT_DIRNAME</span><span class="p">))</span> |
---|
[0b00607] | 423 | <span class="n">un_tarball</span><span class="p">(</span><span class="n">tar_file</span><span class="p">)</span> |
---|
| 424 | <span class="n">os</span><span class="o">.</span><span class="n">chdir</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">join</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">installdir</span><span class="p">,</span> |
---|
[eca358d] | 425 | <span class="n">_config</span><span class="o">.</span><span class="n">FLEXEXTRACT_DIRNAME</span><span class="p">,</span> |
---|
[0b00607] | 426 | <span class="n">_config</span><span class="o">.</span><span class="n">PATH_REL_FORTRAN_SRC</span><span class="p">))</span> |
---|
| 427 | |
---|
[47be2684] | 428 | <span class="c1"># Create Fortran executable</span> |
---|
| 429 | <span class="nb">print</span><span class="p">(</span><span class="s1">'Install '</span> <span class="o">+</span> <span class="n">_config</span><span class="o">.</span><span class="n">FLEXEXTRACT_DIRNAME</span> <span class="o">+</span> <span class="s1">' software at '</span> <span class="o">+</span> |
---|
| 430 | <span class="n">c</span><span class="o">.</span><span class="n">install_target</span> <span class="o">+</span> <span class="s1">' in directory '</span> <span class="o">+</span> <span class="n">c</span><span class="o">.</span><span class="n">installdir</span> <span class="o">+</span> <span class="s1">'</span><span class="se">\n</span><span class="s1">'</span><span class="p">)</span> |
---|
| 431 | |
---|
| 432 | <span class="n">del_fortran_build</span><span class="p">(</span><span class="s1">'.'</span><span class="p">)</span> |
---|
| 433 | <span class="n">mk_fortran_build</span><span class="p">(</span><span class="s1">'.'</span><span class="p">,</span> <span class="n">c</span><span class="o">.</span><span class="n">makefile</span><span class="p">)</span> |
---|
| 434 | <span class="n">os</span><span class="o">.</span><span class="n">chdir</span><span class="p">(</span><span class="s1">'../../'</span><span class="p">)</span> |
---|
| 435 | <span class="c1"># make sure that the correct calling of submit.py script is in run_local.sh</span> |
---|
| 436 | <span class="n">overwrite_lines_in_file</span><span class="p">(</span><span class="s1">'Run/run_local.sh'</span><span class="p">,</span> |
---|
| 437 | <span class="s1">'pyscript='</span><span class="p">,</span> <span class="s1">'pyscript=../Source/Python/submit.py</span><span class="se">\n</span><span class="s1">'</span><span class="p">)</span> |
---|
| 438 | |
---|
| 439 | <span class="c1"># this is system installation were executables and user files are separated</span> |
---|
| 440 | <span class="k">elif</span> <span class="n">c</span><span class="o">.</span><span class="n">install_target</span> <span class="o">==</span> <span class="s1">'syslocal'</span><span class="p">:</span> |
---|
| 441 | <span class="k">if</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><span class="n">_config</span><span class="o">.</span><span class="n">PATH_FLEXEXTRACT_DIR</span><span class="p">)</span> <span class="o">==</span> <span class="n">c</span><span class="o">.</span><span class="n">sysinstalldir</span> <span class="p">:</span> |
---|
| 442 | <span class="n">sys</span><span class="o">.</span><span class="n">exit</span><span class="p">(</span><span class="s1">'ERROR: System installation path is equal to user '</span> |
---|
| 443 | <span class="s1">'installation path.</span><span class="se">\n</span><span class="s1"> Please change either the system '</span> |
---|
| 444 | <span class="s1">'installation path or use installation target "local".'</span><span class="p">)</span> |
---|
| 445 | <span class="k">if</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><span class="n">_config</span><span class="o">.</span><span class="n">PATH_FLEXEXTRACT_DIR</span><span class="p">)</span> <span class="o">==</span> <span class="n">c</span><span class="o">.</span><span class="n">installdir</span> <span class="p">:</span> |
---|
| 446 | <span class="nb">print</span><span class="p">(</span><span class="s1">'Flex_extract will be installed in current directory!'</span><span class="p">)</span> |
---|
| 447 | <span class="k">else</span><span class="p">:</span> <span class="c1"># install user part in different dir</span> |
---|
| 448 | <span class="nb">print</span><span class="p">(</span><span class="s1">'Flex_extract will be installed in '</span> <span class="o">+</span> <span class="n">c</span><span class="o">.</span><span class="n">installdir</span> <span class="p">)</span> |
---|
| 449 | |
---|
| 450 | <span class="n">c</span><span class="o">.</span><span class="n">installdir</span> <span class="o">=</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">installdir</span><span class="p">,</span><span class="n">_config</span><span class="o">.</span><span class="n">FLEXEXTRACT_DIRNAME</span><span class="p">)</span> |
---|
| 451 | <span class="k">if</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">isdir</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">installdir</span><span class="p">):</span> |
---|
| 452 | <span class="n">shutil</span><span class="o">.</span><span class="n">rmtree</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">installdir</span><span class="p">)</span> |
---|
| 453 | |
---|
| 454 | <span class="c1"># copy all files except Python and Fortranfiles to this dir</span> |
---|
| 455 | <span class="n">shutil</span><span class="o">.</span><span class="n">copytree</span><span class="p">(</span><span class="n">_config</span><span class="o">.</span><span class="n">PATH_FLEXEXTRACT_DIR</span><span class="p">,</span> |
---|
| 456 | <span class="n">c</span><span class="o">.</span><span class="n">installdir</span><span class="p">,</span> <span class="n">symlinks</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span> |
---|
| 457 | <span class="n">shutil</span><span class="o">.</span><span class="n">rmtree</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">join</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">installdir</span><span class="p">,</span><span class="s1">'Source'</span><span class="p">))</span> |
---|
| 458 | <span class="n">shutil</span><span class="o">.</span><span class="n">rmtree</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">join</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">installdir</span><span class="p">,</span><span class="s1">'.git'</span><span class="p">))</span> |
---|
| 459 | <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">UioFiles</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">installdir</span><span class="p">,</span> <span class="s1">'*~'</span><span class="p">)</span><span class="o">.</span><span class="n">files</span><span class="p">:</span> |
---|
| 460 | <span class="n">silent_remove</span><span class="p">(</span><span class="n">x</span><span class="p">)</span> |
---|
| 461 | |
---|
| 462 | <span class="n">os</span><span class="o">.</span><span class="n">remove</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">join</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">installdir</span><span class="p">,</span><span class="s1">'setup.sh'</span><span class="p">))</span> |
---|
| 463 | <span class="n">os</span><span class="o">.</span><span class="n">remove</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">join</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">installdir</span><span class="p">,</span><span class="s1">'setup_local.sh'</span><span class="p">))</span> |
---|
| 464 | |
---|
| 465 | <span class="c1"># configure run_local script correctly</span> |
---|
| 466 | <span class="c1"># check if source of system config file is already in run_local.sh,</span> |
---|
| 467 | <span class="c1"># if not, add it</span> |
---|
| 468 | <span class="k">if</span> <span class="ow">not</span> <span class="n">check_for_string_in_file</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">join</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">installdir</span><span class="p">,</span><span class="s1">'Run/run_local.sh'</span><span class="p">),</span> |
---|
| 469 | <span class="s1">'source .setup.rc'</span><span class="p">):</span> |
---|
| 470 | <span class="n">overwrite_lines_in_file</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">join</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">installdir</span><span class="p">,</span><span class="s1">'Run/run_local.sh'</span><span class="p">),</span> |
---|
| 471 | <span class="s1">'# PATH TO SUBMISSION SCRIPT'</span><span class="p">,</span> |
---|
| 472 | <span class="s1">'# PATH TO SUBMISSION SCRIPT</span><span class="se">\n</span><span class="s1">source '</span><span class="o">+</span><span class="n">_config</span><span class="o">.</span><span class="n">FILE_SYS_CONFIG</span><span class="o">+</span><span class="s1">'</span><span class="se">\n</span><span class="s1">'</span><span class="p">)</span> |
---|
| 473 | <span class="c1"># make sure that the correct calling of submit.py script is in run_local.sh</span> |
---|
| 474 | <span class="n">overwrite_lines_in_file</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">join</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">installdir</span><span class="p">,</span><span class="s1">'Run/run_local.sh'</span><span class="p">),</span> |
---|
| 475 | <span class="s1">'pyscript='</span><span class="p">,</span> <span class="s1">'pyscript=submit.py</span><span class="se">\n</span><span class="s1">'</span><span class="p">)</span> |
---|
| 476 | |
---|
| 477 | <span class="c1"># change permission for file to executable</span> |
---|
| 478 | <span class="n">execute_subprocess</span><span class="p">([</span><span class="s1">'chmod'</span><span class="p">,</span> <span class="s1">'0775'</span><span class="p">,</span> |
---|
| 479 | <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</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><span class="n">c</span><span class="o">.</span><span class="n">installdir</span><span class="p">),</span><span class="s1">'Run/run_local.sh'</span><span class="p">)])</span> |
---|
| 480 | |
---|
| 481 | |
---|
| 482 | <span class="c1"># create systemdir</span> |
---|
| 483 | <span class="n">c</span><span class="o">.</span><span class="n">sysinstalldir</span> <span class="o">=</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">sysinstalldir</span><span class="p">,</span><span class="n">_config</span><span class="o">.</span><span class="n">FLEXEXTRACT_DIRNAME</span><span class="p">)</span> |
---|
| 484 | <span class="k">if</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">isdir</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">sysinstalldir</span><span class="p">):</span> |
---|
| 485 | <span class="n">shutil</span><span class="o">.</span><span class="n">rmtree</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">sysinstalldir</span><span class="p">)</span> |
---|
| 486 | |
---|
| 487 | <span class="c1"># create setup file for running flex_extract with system installation</span> |
---|
| 488 | <span class="k">with</span> <span class="nb">open</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">join</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><span class="n">c</span><span class="o">.</span><span class="n">installdir</span><span class="p">),</span><span class="s1">'Run/.setup.rc'</span><span class="p">),</span><span class="s1">'w'</span><span class="p">)</span> <span class="k">as</span> <span class="n">fio</span><span class="p">:</span> |
---|
| 489 | <span class="n">fio</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="s1">'#!/bin/bash </span><span class="se">\n</span><span class="s1">'</span><span class="p">)</span> |
---|
| 490 | <span class="n">fio</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="s1">'export FLEXEXTRACT_USER_DIR='</span><span class="o">+</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><span class="n">c</span><span class="o">.</span><span class="n">installdir</span><span class="p">)</span><span class="o">+</span><span class="s1">'</span><span class="se">\n</span><span class="s1">'</span><span class="p">)</span> |
---|
| 491 | <span class="n">fio</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="s1">'export PATH='</span><span class="o">+</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><span class="n">c</span><span class="o">.</span><span class="n">sysinstalldir</span><span class="p">)</span><span class="o">+</span><span class="s1">'/Python:$</span><span class="si">{PATH}</span><span class="se">\n</span><span class="s1">'</span><span class="p">)</span> |
---|
| 492 | <span class="n">fio</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="s1">'export PATH='</span><span class="o">+</span><span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">abspath</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">sysinstalldir</span><span class="p">)</span><span class="o">+</span><span class="s1">':$</span><span class="si">{PATH}</span><span class="se">\n</span><span class="s1">'</span><span class="p">)</span> |
---|
| 493 | |
---|
| 494 | <span class="c1"># copy all Python and Fortranfiles to this dir</span> |
---|
| 495 | <span class="n">shutil</span><span class="o">.</span><span class="n">copytree</span><span class="p">(</span><span class="n">_config</span><span class="o">.</span><span class="n">PATH_SOURCES</span><span class="p">,</span> <span class="n">c</span><span class="o">.</span><span class="n">sysinstalldir</span><span class="p">,</span> <span class="n">symlinks</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span> |
---|
| 496 | |
---|
| 497 | <span class="n">os</span><span class="o">.</span><span class="n">chdir</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">join</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">sysinstalldir</span><span class="p">,</span><span class="s1">'Fortran'</span><span class="p">))</span> |
---|
| 498 | <span class="c1"># Create Fortran executable</span> |
---|
| 499 | <span class="nb">print</span><span class="p">(</span><span class="s1">'Install '</span> <span class="o">+</span> <span class="n">_config</span><span class="o">.</span><span class="n">FLEXEXTRACT_DIRNAME</span> <span class="o">+</span> <span class="s1">' software as '</span> <span class="o">+</span> |
---|
| 500 | <span class="n">c</span><span class="o">.</span><span class="n">install_target</span> <span class="o">+</span> <span class="s1">' in directory '</span> <span class="o">+</span> |
---|
| 501 | <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><span class="n">c</span><span class="o">.</span><span class="n">sysinstalldir</span><span class="p">)</span> <span class="o">+</span> <span class="s1">'</span><span class="se">\n</span><span class="s1">'</span><span class="p">)</span> |
---|
| 502 | |
---|
| 503 | <span class="n">del_fortran_build</span><span class="p">(</span><span class="s1">'.'</span><span class="p">)</span> |
---|
| 504 | <span class="n">mk_fortran_build</span><span class="p">(</span><span class="s1">'.'</span><span class="p">,</span> <span class="n">c</span><span class="o">.</span><span class="n">makefile</span><span class="p">)</span> |
---|
| 505 | |
---|
| 506 | <span class="n">outfile</span> <span class="o">=</span> <span class="p">[</span><span class="n">x</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">UioFiles</span><span class="p">(</span><span class="s1">'.'</span><span class="p">,</span><span class="s1">'*.out'</span><span class="p">)</span><span class="o">.</span><span class="n">files</span><span class="p">]</span> |
---|
| 507 | <span class="n">test</span><span class="o">=</span><span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">sysinstalldir</span><span class="p">,</span><span class="s1">'calc_etadot'</span><span class="p">)</span> |
---|
| 508 | <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">outfile</span><span class="p">)</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span> |
---|
| 509 | <span class="nb">print</span><span class="p">(</span><span class="s1">'WARNING: Multiple executables for Fortran code are available!'</span><span class="p">)</span> |
---|
| 510 | <span class="c1"># move executable one dir up and delete Fortran dir</span> |
---|
| 511 | <span class="n">os</span><span class="o">.</span><span class="n">chdir</span><span class="p">(</span><span class="s1">'..'</span><span class="p">)</span> |
---|
| 512 | <span class="n">shutil</span><span class="o">.</span><span class="n">move</span><span class="p">(</span><span class="n">outfile</span><span class="p">[</span><span class="mi">0</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">join</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">sysinstalldir</span><span class="p">,</span><span class="s1">'calc_etadot'</span><span class="p">))</span> |
---|
| 513 | <span class="n">shutil</span><span class="o">.</span><span class="n">rmtree</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">join</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><span class="n">c</span><span class="o">.</span><span class="n">sysinstalldir</span><span class="p">),</span><span class="s1">'Fortran'</span><span class="p">))</span> |
---|
[0b00607] | 514 | |
---|
| 515 | <span class="n">os</span><span class="o">.</span><span class="n">chdir</span><span class="p">(</span><span class="n">_config</span><span class="o">.</span><span class="n">PATH_FLEXEXTRACT_DIR</span><span class="p">)</span> |
---|
| 516 | <span class="k">if</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">isfile</span><span class="p">(</span><span class="n">tar_file</span><span class="p">):</span> |
---|
| 517 | <span class="n">os</span><span class="o">.</span><span class="n">remove</span><span class="p">(</span><span class="n">tar_file</span><span class="p">)</span> |
---|
| 518 | |
---|
| 519 | <span class="k">return</span></div> |
---|
| 520 | |
---|
| 521 | |
---|
| 522 | <div class="viewcode-block" id="check_install_conditions"><a class="viewcode-back" href="../Documentation/Api/api_python.html#install.check_install_conditions">[docs]</a><span class="k">def</span> <span class="nf">check_install_conditions</span><span class="p">(</span><span class="n">c</span><span class="p">):</span> |
---|
[5920b7f] | 523 | <span class="sd">'''Checks necessary attributes and conditions</span> |
---|
| 524 | <span class="sd"> for the installation, e.g. whether they exist and contain values.</span> |
---|
[0b00607] | 525 | <span class="sd"> Otherwise set default values.</span> |
---|
| 526 | |
---|
| 527 | <span class="sd"> Parameters</span> |
---|
| 528 | <span class="sd"> ----------</span> |
---|
| 529 | <span class="sd"> c : ControlFile</span> |
---|
| 530 | <span class="sd"> Contains all the parameters of CONTROL file and</span> |
---|
| 531 | <span class="sd"> command line.</span> |
---|
| 532 | |
---|
| 533 | |
---|
| 534 | <span class="sd"> Return</span> |
---|
| 535 | <span class="sd"> ------</span> |
---|
| 536 | |
---|
| 537 | <span class="sd"> '''</span> |
---|
| 538 | |
---|
| 539 | <span class="k">if</span> <span class="n">c</span><span class="o">.</span><span class="n">install_target</span> <span class="ow">and</span> \ |
---|
| 540 | <span class="n">c</span><span class="o">.</span><span class="n">install_target</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">_config</span><span class="o">.</span><span class="n">INSTALL_TARGETS</span><span class="p">:</span> |
---|
| 541 | <span class="nb">print</span><span class="p">(</span><span class="s1">'ERROR: unknown or missing installation target '</span><span class="p">)</span> |
---|
| 542 | <span class="nb">print</span><span class="p">(</span><span class="s1">'target: '</span><span class="p">,</span> <span class="n">c</span><span class="o">.</span><span class="n">install_target</span><span class="p">)</span> |
---|
| 543 | <span class="nb">print</span><span class="p">(</span><span class="s1">'please specify correct installation target '</span> <span class="o">+</span> |
---|
[eca358d] | 544 | <span class="nb">str</span><span class="p">(</span><span class="n">_config</span><span class="o">.</span><span class="n">INSTALL_TARGETS</span><span class="p">))</span> |
---|
[0b00607] | 545 | <span class="nb">print</span><span class="p">(</span><span class="s1">'use -h or --help for help'</span><span class="p">)</span> |
---|
| 546 | <span class="n">sys</span><span class="o">.</span><span class="n">exit</span><span class="p">(</span><span class="mi">1</span><span class="p">)</span> |
---|
| 547 | |
---|
[47be2684] | 548 | <span class="k">if</span> <span class="n">c</span><span class="o">.</span><span class="n">install_target</span> <span class="ow">and</span> <span class="n">c</span><span class="o">.</span><span class="n">install_target</span> <span class="ow">not</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">'local'</span><span class="p">,</span> <span class="s1">'syslocal'</span><span class="p">]:</span> |
---|
[b1674ed] | 549 | <span class="k">if</span> <span class="ow">not</span> <span class="n">c</span><span class="o">.</span><span class="n">ecgid</span> <span class="ow">or</span> <span class="ow">not</span> <span class="n">c</span><span class="o">.</span><span class="n">ecuid</span><span class="p">:</span> |
---|
| 550 | <span class="nb">print</span><span class="p">(</span><span class="s1">'Please enter your ECMWF user id and group id '</span> |
---|
| 551 | <span class="s1">' with command line options --ecuid --ecgid'</span><span class="p">)</span> |
---|
[0b00607] | 552 | <span class="nb">print</span><span class="p">(</span><span class="s1">'Try "'</span> <span class="o">+</span> <span class="n">sys</span><span class="o">.</span><span class="n">argv</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">'/'</span><span class="p">)[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> \ |
---|
| 553 | <span class="s1">' -h" to print usage information'</span><span class="p">)</span> |
---|
[b1674ed] | 554 | <span class="nb">print</span><span class="p">(</span><span class="s1">'Please consult ecaccess documentation or ECMWF user '</span> |
---|
| 555 | <span class="s1">'support for further details.</span><span class="se">\n</span><span class="s1">'</span><span class="p">)</span> |
---|
[0b00607] | 556 | <span class="n">sys</span><span class="o">.</span><span class="n">exit</span><span class="p">(</span><span class="mi">1</span><span class="p">)</span> |
---|
[b1674ed] | 557 | <span class="k">if</span> <span class="ow">not</span> <span class="n">c</span><span class="o">.</span><span class="n">gateway</span> <span class="ow">or</span> <span class="ow">not</span> <span class="n">c</span><span class="o">.</span><span class="n">destination</span><span class="p">:</span> |
---|
| 558 | <span class="nb">print</span><span class="p">(</span><span class="s1">'WARNING: Parameters GATEWAY and DESTINATION were '</span> |
---|
| 559 | <span class="s1">'not properly set for working on ECMWF server. </span><span class="se">\n</span><span class="s1">'</span> |
---|
| 560 | <span class="s1">'There will be no transfer of output files to the '</span> |
---|
| 561 | <span class="s1">'local gateway server possible!'</span><span class="p">)</span> |
---|
[0b00607] | 562 | <span class="k">if</span> <span class="ow">not</span> <span class="n">c</span><span class="o">.</span><span class="n">installdir</span><span class="p">:</span> |
---|
| 563 | <span class="n">c</span><span class="o">.</span><span class="n">installdir</span> <span class="o">=</span> <span class="s1">'$</span><span class="si">{HOME}</span><span class="s1">'</span> |
---|
[47be2684] | 564 | <span class="k">elif</span> <span class="n">c</span><span class="o">.</span><span class="n">install_target</span> <span class="o">==</span> <span class="s1">'local'</span><span class="p">:</span> |
---|
| 565 | <span class="k">if</span> <span class="ow">not</span> <span class="n">c</span><span class="o">.</span><span class="n">installdir</span><span class="p">:</span> |
---|
| 566 | <span class="n">c</span><span class="o">.</span><span class="n">installdir</span> <span class="o">=</span> <span class="n">_config</span><span class="o">.</span><span class="n">PATH_FLEXEXTRACT_DIR</span> |
---|
| 567 | <span class="k">elif</span> <span class="n">c</span><span class="o">.</span><span class="n">install_target</span> <span class="o">==</span> <span class="s1">'syslocal'</span><span class="p">:</span> |
---|
[0b00607] | 568 | <span class="k">if</span> <span class="ow">not</span> <span class="n">c</span><span class="o">.</span><span class="n">installdir</span><span class="p">:</span> |
---|
| 569 | <span class="n">c</span><span class="o">.</span><span class="n">installdir</span> <span class="o">=</span> <span class="n">_config</span><span class="o">.</span><span class="n">PATH_FLEXEXTRACT_DIR</span> |
---|
[47be2684] | 570 | <span class="k">if</span> <span class="ow">not</span> <span class="n">c</span><span class="o">.</span><span class="n">sysinstalldir</span><span class="p">:</span> |
---|
| 571 | <span class="nb">print</span><span class="p">(</span><span class="s1">'ERROR: System installation was selected but '</span> |
---|
| 572 | <span class="s1">'no system installation path was defined.'</span><span class="p">)</span> |
---|
| 573 | <span class="n">sys</span><span class="o">.</span><span class="n">exit</span><span class="p">()</span> |
---|
[0b00607] | 574 | |
---|
[08c9091] | 575 | <span class="k">if</span> <span class="ow">not</span> <span class="n">c</span><span class="o">.</span><span class="n">makefile</span><span class="p">:</span> |
---|
| 576 | <span class="nb">print</span><span class="p">(</span><span class="s1">'WARNING: no makefile was specified.'</span><span class="p">)</span> |
---|
| 577 | <span class="k">if</span> <span class="n">c</span><span class="o">.</span><span class="n">install_target</span> <span class="o">==</span> <span class="s1">'local'</span><span class="p">:</span> |
---|
| 578 | <span class="n">c</span><span class="o">.</span><span class="n">makefile</span> <span class="o">=</span> <span class="s1">'makefile_local_gfortran'</span> |
---|
| 579 | <span class="nb">print</span><span class="p">(</span><span class="s1">'WARNING: default makefile selected: makefile_local_gfortan'</span><span class="p">)</span> |
---|
| 580 | <span class="k">elif</span> <span class="n">c</span><span class="o">.</span><span class="n">install_target</span> <span class="o">==</span> <span class="s1">'ecgate'</span><span class="p">:</span> |
---|
| 581 | <span class="n">c</span><span class="o">.</span><span class="n">makefile</span> <span class="o">=</span> <span class="s1">'makefile_ecgate'</span> |
---|
| 582 | <span class="nb">print</span><span class="p">(</span><span class="s1">'WARNING: default makefile selected: makefile_ecgate'</span><span class="p">)</span> |
---|
| 583 | <span class="k">elif</span> <span class="n">c</span><span class="o">.</span><span class="n">install_target</span> <span class="o">==</span> <span class="s1">'cca'</span> <span class="ow">or</span> \ |
---|
| 584 | <span class="n">c</span><span class="o">.</span><span class="n">install_target</span> <span class="o">==</span> <span class="s1">'ccb'</span><span class="p">:</span> |
---|
| 585 | <span class="n">c</span><span class="o">.</span><span class="n">makefile</span> <span class="o">=</span> <span class="s1">'makefile_cray'</span> |
---|
| 586 | <span class="nb">print</span><span class="p">(</span><span class="s1">'WARNING: default makefile selected: makefile_cray'</span><span class="p">)</span> |
---|
| 587 | <span class="k">else</span><span class="p">:</span> |
---|
| 588 | <span class="k">pass</span> |
---|
[47be2684] | 589 | |
---|
[0b00607] | 590 | <span class="k">return</span></div> |
---|
| 591 | |
---|
| 592 | |
---|
| 593 | <div class="viewcode-block" id="mk_tarball"><a class="viewcode-back" href="../Documentation/Api/api_python.html#install.mk_tarball">[docs]</a><span class="k">def</span> <span class="nf">mk_tarball</span><span class="p">(</span><span class="n">tarball_path</span><span class="p">,</span> <span class="n">target</span><span class="p">):</span> |
---|
| 594 | <span class="sd">'''Creates a tarball with all necessary files which need to be sent to the</span> |
---|
| 595 | <span class="sd"> installation directory.</span> |
---|
[5920b7f] | 596 | <span class="sd"> It does not matter whether this is local or remote.</span> |
---|
| 597 | <span class="sd"> Collects all Python files, the Fortran source and makefiles,</span> |
---|
[0b00607] | 598 | <span class="sd"> the ECMWF_ENV file, the CONTROL files as well as the</span> |
---|
| 599 | <span class="sd"> template files.</span> |
---|
| 600 | |
---|
| 601 | <span class="sd"> Parameters</span> |
---|
| 602 | <span class="sd"> ----------</span> |
---|
| 603 | <span class="sd"> tarball_path : str</span> |
---|
| 604 | <span class="sd"> The complete path to the tar file which will contain all</span> |
---|
| 605 | <span class="sd"> relevant data for flex_extract.</span> |
---|
| 606 | |
---|
| 607 | <span class="sd"> target : str</span> |
---|
| 608 | <span class="sd"> The queue where the job is submitted to.</span> |
---|
| 609 | |
---|
| 610 | <span class="sd"> Return</span> |
---|
| 611 | <span class="sd"> ------</span> |
---|
| 612 | |
---|
| 613 | <span class="sd"> '''</span> |
---|
| 614 | |
---|
| 615 | <span class="nb">print</span><span class="p">(</span><span class="s1">'Create tarball ...'</span><span class="p">)</span> |
---|
| 616 | |
---|
| 617 | <span class="c1"># change to FLEXEXTRACT directory so that the tar can contain</span> |
---|
| 618 | <span class="c1"># relative pathes to the files and directories</span> |
---|
| 619 | <span class="n">ecd</span> <span class="o">=</span> <span class="n">_config</span><span class="o">.</span><span class="n">PATH_FLEXEXTRACT_DIR</span> <span class="o">+</span> <span class="s1">'/'</span> |
---|
| 620 | <span class="n">os</span><span class="o">.</span><span class="n">chdir</span><span class="p">(</span><span class="n">ecd</span><span class="p">)</span> |
---|
| 621 | |
---|
| 622 | <span class="c1"># get lists of the files to be added to the tar file</span> |
---|
| 623 | <span class="k">if</span> <span class="n">target</span> <span class="o">==</span> <span class="s1">'local'</span><span class="p">:</span> |
---|
[eca358d] | 624 | <span class="n">ecmwf_env_file</span> <span class="o">=</span> <span class="p">[]</span> |
---|
[0b00607] | 625 | <span class="n">runfile</span> <span class="o">=</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">relpath</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">ecd</span><span class="p">)</span> |
---|
| 626 | <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">UioFiles</span><span class="p">(</span><span class="n">_config</span><span class="o">.</span><span class="n">PATH_REL_RUN_DIR</span><span class="p">,</span> |
---|
| 627 | <span class="s1">'run_local.sh'</span><span class="p">)</span><span class="o">.</span><span class="n">files</span><span class="p">]</span> |
---|
| 628 | <span class="k">else</span><span class="p">:</span> |
---|
[eca358d] | 629 | <span class="n">ecmwf_env_file</span> <span class="o">=</span> <span class="p">[</span><span class="n">_config</span><span class="o">.</span><span class="n">PATH_REL_ECMWF_ENV</span><span class="p">]</span> |
---|
[0b00607] | 630 | <span class="n">runfile</span> <span class="o">=</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">relpath</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">ecd</span><span class="p">)</span> |
---|
[eca358d] | 631 | <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">UioFiles</span><span class="p">(</span><span class="n">_config</span><span class="o">.</span><span class="n">PATH_REL_RUN_DIR</span><span class="p">,</span> |
---|
| 632 | <span class="s1">'run.sh'</span><span class="p">)</span><span class="o">.</span><span class="n">files</span><span class="p">]</span> |
---|
[0b00607] | 633 | |
---|
| 634 | <span class="n">pyfiles</span> <span class="o">=</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">relpath</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">ecd</span><span class="p">)</span> |
---|
| 635 | <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">UioFiles</span><span class="p">(</span><span class="n">_config</span><span class="o">.</span><span class="n">PATH_REL_PYTHON_SRC</span><span class="p">,</span> <span class="s1">'*py'</span><span class="p">)</span><span class="o">.</span><span class="n">files</span><span class="p">]</span> |
---|
| 636 | <span class="n">pytestfiles</span> <span class="o">=</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">relpath</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">ecd</span><span class="p">)</span> |
---|
[eca358d] | 637 | <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">UioFiles</span><span class="p">(</span><span class="n">_config</span><span class="o">.</span><span class="n">PATH_REL_PYTHONTEST_SRC</span><span class="p">,</span> <span class="s1">'*py'</span><span class="p">)</span><span class="o">.</span><span class="n">files</span><span class="p">]</span> |
---|
[0b00607] | 638 | <span class="n">controlfiles</span> <span class="o">=</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">relpath</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">ecd</span><span class="p">)</span> |
---|
| 639 | <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">UioFiles</span><span class="p">(</span><span class="n">_config</span><span class="o">.</span><span class="n">PATH_REL_CONTROLFILES</span><span class="p">,</span> |
---|
| 640 | <span class="s1">'CONTROL*'</span><span class="p">)</span><span class="o">.</span><span class="n">files</span><span class="p">]</span> |
---|
| 641 | <span class="n">testfiles</span> <span class="o">=</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">relpath</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">ecd</span><span class="p">)</span> |
---|
[08c9091] | 642 | <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">UioFiles</span><span class="p">(</span><span class="n">_config</span><span class="o">.</span><span class="n">PATH_REL_TEST</span><span class="o">+</span><span class="s2">"/Installation"</span><span class="p">,</span> <span class="s1">'*'</span><span class="p">)</span><span class="o">.</span><span class="n">files</span><span class="p">]</span> |
---|
[0b00607] | 643 | <span class="n">tempfiles</span> <span class="o">=</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">relpath</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">ecd</span><span class="p">)</span> |
---|
[08c9091] | 644 | <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">UioFiles</span><span class="p">(</span><span class="n">_config</span><span class="o">.</span><span class="n">PATH_REL_TEMPLATES</span><span class="p">,</span> <span class="s1">'*.template'</span><span class="p">)</span><span class="o">.</span><span class="n">files</span><span class="p">]</span> |
---|
[0b00607] | 645 | <span class="n">gribtable</span> <span class="o">=</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">relpath</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">ecd</span><span class="p">)</span> |
---|
[eca358d] | 646 | <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">UioFiles</span><span class="p">(</span><span class="n">_config</span><span class="o">.</span><span class="n">PATH_REL_TEMPLATES</span><span class="p">,</span> <span class="s1">'*grib*'</span><span class="p">)</span><span class="o">.</span><span class="n">files</span><span class="p">]</span> |
---|
[0b00607] | 647 | <span class="n">ffiles</span> <span class="o">=</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">relpath</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">ecd</span><span class="p">)</span> |
---|
[eca358d] | 648 | <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">UioFiles</span><span class="p">(</span><span class="n">_config</span><span class="o">.</span><span class="n">PATH_REL_FORTRAN_SRC</span><span class="p">,</span> <span class="s1">'*.f90'</span><span class="p">)</span><span class="o">.</span><span class="n">files</span><span class="p">]</span> |
---|
[0b00607] | 649 | <span class="n">hfiles</span> <span class="o">=</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">relpath</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">ecd</span><span class="p">)</span> |
---|
| 650 | <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">UioFiles</span><span class="p">(</span><span class="n">_config</span><span class="o">.</span><span class="n">PATH_REL_FORTRAN_SRC</span><span class="p">,</span> <span class="s1">'*.h'</span><span class="p">)</span><span class="o">.</span><span class="n">files</span><span class="p">]</span> |
---|
| 651 | <span class="n">makefiles</span> <span class="o">=</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">relpath</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">ecd</span><span class="p">)</span> |
---|
[d720895] | 652 | <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">UioFiles</span><span class="p">(</span><span class="n">_config</span><span class="o">.</span><span class="n">PATH_REL_FORTRAN_SRC</span><span class="p">,</span> <span class="s1">'makefile*'</span><span class="p">)</span><span class="o">.</span><span class="n">files</span><span class="p">]</span> |
---|
[08c9091] | 653 | <span class="n">jobdir</span> <span class="o">=</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">relpath</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">ecd</span><span class="p">)</span> |
---|
| 654 | <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">UioFiles</span><span class="p">(</span><span class="n">_config</span><span class="o">.</span><span class="n">PATH_REL_JOBSCRIPTS</span><span class="p">,</span> <span class="s1">'*.md'</span><span class="p">)</span><span class="o">.</span><span class="n">files</span><span class="p">]</span> |
---|
[0b00607] | 655 | |
---|
| 656 | <span class="c1"># concatenate single lists to one for a better looping</span> |
---|
[08c9091] | 657 | <span class="n">filelist</span> <span class="o">=</span> <span class="n">pyfiles</span> <span class="o">+</span> <span class="n">pytestfiles</span> <span class="o">+</span> <span class="n">controlfiles</span> <span class="o">+</span> <span class="n">tempfiles</span> <span class="o">+</span> \ |
---|
[eca358d] | 658 | <span class="n">ffiles</span> <span class="o">+</span> <span class="n">gribtable</span> <span class="o">+</span> <span class="n">hfiles</span> <span class="o">+</span> <span class="n">makefiles</span> <span class="o">+</span> <span class="n">ecmwf_env_file</span> <span class="o">+</span> \ |
---|
[0b00607] | 659 | <span class="n">runfile</span> <span class="o">+</span> <span class="n">jobdir</span> <span class="o">+</span> <span class="n">testfiles</span> <span class="o">+</span>\ |
---|
| 660 | <span class="p">[</span><span class="s1">'CODE_OF_CONDUCT.md'</span><span class="p">,</span> <span class="s1">'LICENSE.md'</span><span class="p">,</span> <span class="s1">'README.md'</span><span class="p">]</span> |
---|
| 661 | |
---|
| 662 | <span class="c1"># create installation tar-file</span> |
---|
[eca358d] | 663 | <span class="n">exclude_files</span> <span class="o">=</span> <span class="p">[</span><span class="s2">".ksh"</span><span class="p">,</span> <span class="s2">".tar"</span><span class="p">]</span> |
---|
[0b00607] | 664 | <span class="k">try</span><span class="p">:</span> |
---|
| 665 | <span class="k">with</span> <span class="n">tarfile</span><span class="o">.</span><span class="n">open</span><span class="p">(</span><span class="n">tarball_path</span><span class="p">,</span> <span class="s2">"w:gz"</span><span class="p">)</span> <span class="k">as</span> <span class="n">tar_handle</span><span class="p">:</span> |
---|
[eca358d] | 666 | <span class="k">for</span> <span class="n">filename</span> <span class="ow">in</span> <span class="n">filelist</span><span class="p">:</span> |
---|
| 667 | <span class="n">tar_handle</span><span class="o">.</span><span class="n">add</span><span class="p">(</span><span class="n">filename</span><span class="p">,</span> <span class="n">recursive</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> |
---|
[0b00607] | 668 | <span class="nb">filter</span><span class="o">=</span><span class="k">lambda</span> <span class="n">tarinfo</span><span class="p">:</span> <span class="kc">None</span> |
---|
[eca358d] | 669 | <span class="k">if</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">splitext</span><span class="p">(</span><span class="n">tarinfo</span><span class="o">.</span><span class="n">name</span><span class="p">)[</span><span class="mi">1</span><span class="p">]</span> |
---|
| 670 | <span class="ow">in</span> <span class="n">exclude_files</span> |
---|
| 671 | <span class="k">else</span> <span class="n">tarinfo</span><span class="p">)</span> |
---|
[0b00607] | 672 | <span class="k">except</span> <span class="n">tarfile</span><span class="o">.</span><span class="n">TarError</span> <span class="k">as</span> <span class="n">e</span><span class="p">:</span> |
---|
[eca358d] | 673 | <span class="nb">print</span><span class="p">(</span><span class="s1">'... ERROR: '</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">))</span> |
---|
| 674 | |
---|
[0b00607] | 675 | <span class="n">sys</span><span class="o">.</span><span class="n">exit</span><span class="p">(</span><span class="s1">'</span><span class="se">\n</span><span class="s1">... error occured while trying to create the tar-file '</span> <span class="o">+</span> |
---|
[eca358d] | 676 | <span class="nb">str</span><span class="p">(</span><span class="n">tarball_path</span><span class="p">))</span> |
---|
[0b00607] | 677 | |
---|
| 678 | <span class="k">return</span></div> |
---|
| 679 | |
---|
| 680 | |
---|
| 681 | <div class="viewcode-block" id="un_tarball"><a class="viewcode-back" href="../Documentation/Api/api_python.html#install.un_tarball">[docs]</a><span class="k">def</span> <span class="nf">un_tarball</span><span class="p">(</span><span class="n">tarball_path</span><span class="p">):</span> |
---|
| 682 | <span class="sd">'''Extracts the given tarball into current directory.</span> |
---|
| 683 | |
---|
| 684 | <span class="sd"> Parameters</span> |
---|
| 685 | <span class="sd"> ----------</span> |
---|
| 686 | <span class="sd"> tarball_path : str</span> |
---|
| 687 | <span class="sd"> The complete path to the tar file which will contain all</span> |
---|
| 688 | <span class="sd"> relevant data for flex_extract.</span> |
---|
| 689 | |
---|
| 690 | <span class="sd"> Return</span> |
---|
| 691 | <span class="sd"> ------</span> |
---|
| 692 | |
---|
| 693 | <span class="sd"> '''</span> |
---|
| 694 | |
---|
| 695 | <span class="nb">print</span><span class="p">(</span><span class="s1">'Untar ...'</span><span class="p">)</span> |
---|
| 696 | |
---|
| 697 | <span class="k">try</span><span class="p">:</span> |
---|
| 698 | <span class="k">with</span> <span class="n">tarfile</span><span class="o">.</span><span class="n">open</span><span class="p">(</span><span class="n">tarball_path</span><span class="p">)</span> <span class="k">as</span> <span class="n">tar_handle</span><span class="p">:</span> |
---|
| 699 | <span class="n">tar_handle</span><span class="o">.</span><span class="n">extractall</span><span class="p">()</span> |
---|
| 700 | <span class="k">except</span> <span class="n">tarfile</span><span class="o">.</span><span class="n">TarError</span> <span class="k">as</span> <span class="n">e</span><span class="p">:</span> |
---|
| 701 | <span class="n">sys</span><span class="o">.</span><span class="n">exit</span><span class="p">(</span><span class="s1">'</span><span class="se">\n</span><span class="s1">... error occured while trying to read tar-file '</span> <span class="o">+</span> |
---|
[eca358d] | 702 | <span class="nb">str</span><span class="p">(</span><span class="n">tarball_path</span><span class="p">))</span> |
---|
[0b00607] | 703 | <span class="k">except</span> <span class="ne">OSError</span> <span class="k">as</span> <span class="n">e</span><span class="p">:</span> |
---|
| 704 | <span class="nb">print</span><span class="p">(</span><span class="s1">'... ERROR CODE: '</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="o">.</span><span class="n">errno</span><span class="p">))</span> |
---|
| 705 | <span class="nb">print</span><span class="p">(</span><span class="s1">'... ERROR MESSAGE:</span><span class="se">\n</span><span class="s1"> </span><span class="se">\t</span><span class="s1"> '</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="o">.</span><span class="n">strerror</span><span class="p">))</span> |
---|
| 706 | |
---|
| 707 | <span class="n">sys</span><span class="o">.</span><span class="n">exit</span><span class="p">(</span><span class="s1">'</span><span class="se">\n</span><span class="s1">... error occured while trying to read tar-file '</span> <span class="o">+</span> |
---|
| 708 | <span class="nb">str</span><span class="p">(</span><span class="n">tarball_path</span><span class="p">))</span> |
---|
| 709 | |
---|
| 710 | <span class="k">return</span></div> |
---|
| 711 | |
---|
| 712 | <div class="viewcode-block" id="mk_env_vars"><a class="viewcode-back" href="../Documentation/Api/api_python.html#install.mk_env_vars">[docs]</a><span class="k">def</span> <span class="nf">mk_env_vars</span><span class="p">(</span><span class="n">ecuid</span><span class="p">,</span> <span class="n">ecgid</span><span class="p">,</span> <span class="n">gateway</span><span class="p">,</span> <span class="n">destination</span><span class="p">):</span> |
---|
| 713 | <span class="sd">'''Creates a file named ECMWF_ENV which contains the</span> |
---|
| 714 | <span class="sd"> necessary environmental variables at ECMWF servers.</span> |
---|
| 715 | <span class="sd"> It is based on the template ECMWF_ENV.template.</span> |
---|
| 716 | |
---|
| 717 | <span class="sd"> Parameters</span> |
---|
| 718 | <span class="sd"> ----------</span> |
---|
| 719 | <span class="sd"> ecuid : str</span> |
---|
| 720 | <span class="sd"> The user id on ECMWF server.</span> |
---|
| 721 | |
---|
| 722 | <span class="sd"> ecgid : str</span> |
---|
| 723 | <span class="sd"> The group id on ECMWF server.</span> |
---|
| 724 | |
---|
| 725 | <span class="sd"> gateway : str</span> |
---|
| 726 | <span class="sd"> The gateway server the user is using.</span> |
---|
| 727 | |
---|
| 728 | <span class="sd"> destination : str</span> |
---|
| 729 | <span class="sd"> The remote destination which is used to transfer files</span> |
---|
| 730 | <span class="sd"> from ECMWF server to local gateway server.</span> |
---|
| 731 | |
---|
| 732 | <span class="sd"> Return</span> |
---|
| 733 | <span class="sd"> ------</span> |
---|
| 734 | |
---|
| 735 | <span class="sd"> '''</span> |
---|
[b1674ed] | 736 | <span class="kn">from</span> <span class="nn">genshi.template.text</span> <span class="kn">import</span> <span class="n">NewTextTemplate</span> |
---|
| 737 | <span class="kn">from</span> <span class="nn">genshi.template</span> <span class="kn">import</span> <span class="n">TemplateLoader</span> |
---|
| 738 | <span class="kn">from</span> <span class="nn">genshi.template.eval</span> <span class="kn">import</span> <span class="n">UndefinedError</span> |
---|
[0b00607] | 739 | |
---|
| 740 | <span class="k">try</span><span class="p">:</span> |
---|
| 741 | <span class="n">loader</span> <span class="o">=</span> <span class="n">TemplateLoader</span><span class="p">(</span><span class="n">_config</span><span class="o">.</span><span class="n">PATH_TEMPLATES</span><span class="p">,</span> <span class="n">auto_reload</span><span class="o">=</span><span class="kc">False</span><span class="p">)</span> |
---|
| 742 | <span class="n">ecmwfvars_template</span> <span class="o">=</span> <span class="n">loader</span><span class="o">.</span><span class="n">load</span><span class="p">(</span><span class="n">_config</span><span class="o">.</span><span class="n">TEMPFILE_USER_ENVVARS</span><span class="p">,</span> |
---|
| 743 | <span class="bp">cls</span><span class="o">=</span><span class="n">NewTextTemplate</span><span class="p">)</span> |
---|
| 744 | |
---|
[eca358d] | 745 | <span class="n">stream</span> <span class="o">=</span> <span class="n">ecmwfvars_template</span><span class="o">.</span><span class="n">generate</span><span class="p">(</span><span class="n">user_name</span><span class="o">=</span><span class="n">ecuid</span><span class="p">,</span> |
---|
| 746 | <span class="n">user_group</span><span class="o">=</span><span class="n">ecgid</span><span class="p">,</span> |
---|
| 747 | <span class="n">gateway_name</span><span class="o">=</span><span class="n">gateway</span><span class="p">,</span> |
---|
| 748 | <span class="n">destination_name</span><span class="o">=</span><span class="n">destination</span> |
---|
| 749 | <span class="p">)</span> |
---|
[0b00607] | 750 | <span class="k">except</span> <span class="n">UndefinedError</span> <span class="k">as</span> <span class="n">e</span><span class="p">:</span> |
---|
| 751 | <span class="nb">print</span><span class="p">(</span><span class="s1">'... ERROR '</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">))</span> |
---|
| 752 | |
---|
| 753 | <span class="n">sys</span><span class="o">.</span><span class="n">exit</span><span class="p">(</span><span class="s1">'</span><span class="se">\n</span><span class="s1">... error occured while trying to generate template '</span> <span class="o">+</span> |
---|
| 754 | <span class="n">_config</span><span class="o">.</span><span class="n">PATH_ECMWF_ENV</span><span class="p">)</span> |
---|
| 755 | <span class="k">except</span> <span class="ne">OSError</span> <span class="k">as</span> <span class="n">e</span><span class="p">:</span> |
---|
| 756 | <span class="nb">print</span><span class="p">(</span><span class="s1">'... ERROR CODE: '</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="o">.</span><span class="n">errno</span><span class="p">))</span> |
---|
| 757 | <span class="nb">print</span><span class="p">(</span><span class="s1">'... ERROR MESSAGE:</span><span class="se">\n</span><span class="s1"> </span><span class="se">\t</span><span class="s1"> '</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="o">.</span><span class="n">strerror</span><span class="p">))</span> |
---|
| 758 | |
---|
| 759 | <span class="n">sys</span><span class="o">.</span><span class="n">exit</span><span class="p">(</span><span class="s1">'</span><span class="se">\n</span><span class="s1">... error occured while trying to generate template '</span> <span class="o">+</span> |
---|
| 760 | <span class="n">_config</span><span class="o">.</span><span class="n">PATH_ECMWF_ENV</span><span class="p">)</span> |
---|
| 761 | |
---|
| 762 | <span class="k">try</span><span class="p">:</span> |
---|
| 763 | <span class="k">with</span> <span class="nb">open</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> <span class="s1">'w'</span><span class="p">)</span> <span class="k">as</span> <span class="n">f</span><span class="p">:</span> |
---|
| 764 | <span class="n">f</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="n">stream</span><span class="o">.</span><span class="n">render</span><span class="p">(</span><span class="s1">'text'</span><span class="p">))</span> |
---|
| 765 | <span class="k">except</span> <span class="ne">OSError</span> <span class="k">as</span> <span class="n">e</span><span class="p">:</span> |
---|
| 766 | <span class="nb">print</span><span class="p">(</span><span class="s1">'... ERROR CODE: '</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="o">.</span><span class="n">errno</span><span class="p">))</span> |
---|
| 767 | <span class="nb">print</span><span class="p">(</span><span class="s1">'... ERROR MESSAGE:</span><span class="se">\n</span><span class="s1"> </span><span class="se">\t</span><span class="s1"> '</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="o">.</span><span class="n">strerror</span><span class="p">))</span> |
---|
| 768 | |
---|
| 769 | <span class="n">sys</span><span class="o">.</span><span class="n">exit</span><span class="p">(</span><span class="s1">'</span><span class="se">\n</span><span class="s1">... error occured while trying to write '</span> <span class="o">+</span> |
---|
| 770 | <span class="n">_config</span><span class="o">.</span><span class="n">PATH_ECMWF_ENV</span><span class="p">)</span> |
---|
| 771 | |
---|
| 772 | <span class="k">return</span></div> |
---|
| 773 | |
---|
[eca358d] | 774 | <div class="viewcode-block" id="mk_compilejob"><a class="viewcode-back" href="../Documentation/Api/api_python.html#install.mk_compilejob">[docs]</a><span class="k">def</span> <span class="nf">mk_compilejob</span><span class="p">(</span><span class="n">makefile</span><span class="p">,</span> <span class="n">ecuid</span><span class="p">,</span> <span class="n">ecgid</span><span class="p">,</span> <span class="n">fp_root</span><span class="p">):</span> |
---|
[0b00607] | 775 | <span class="sd">'''Modifies the original job template file so that it is specified</span> |
---|
| 776 | <span class="sd"> for the user and the environment were it will be applied. Result</span> |
---|
| 777 | <span class="sd"> is stored in a new file "job.temp" in the python directory.</span> |
---|
| 778 | |
---|
| 779 | <span class="sd"> Parameters</span> |
---|
| 780 | <span class="sd"> ----------</span> |
---|
| 781 | <span class="sd"> makefile : str</span> |
---|
[5920b7f] | 782 | <span class="sd"> Name of the makefile which should be used to compile the Fortran</span> |
---|
| 783 | <span class="sd"> program.</span> |
---|
[0b00607] | 784 | |
---|
| 785 | <span class="sd"> ecuid : str</span> |
---|
| 786 | <span class="sd"> The user id on ECMWF server.</span> |
---|
| 787 | |
---|
| 788 | <span class="sd"> ecgid : str</span> |
---|
| 789 | <span class="sd"> The group id on ECMWF server.</span> |
---|
| 790 | |
---|
| 791 | <span class="sd"> fp_root : str</span> |
---|
| 792 | <span class="sd"> Path to the root directory of FLEXPART environment or flex_extract</span> |
---|
| 793 | <span class="sd"> environment.</span> |
---|
| 794 | |
---|
| 795 | <span class="sd"> Return</span> |
---|
| 796 | <span class="sd"> ------</span> |
---|
| 797 | |
---|
| 798 | <span class="sd"> '''</span> |
---|
[b1674ed] | 799 | <span class="kn">from</span> <span class="nn">genshi.template.text</span> <span class="kn">import</span> <span class="n">NewTextTemplate</span> |
---|
| 800 | <span class="kn">from</span> <span class="nn">genshi.template</span> <span class="kn">import</span> <span class="n">TemplateLoader</span> |
---|
| 801 | <span class="kn">from</span> <span class="nn">genshi.template.eval</span> <span class="kn">import</span> <span class="n">UndefinedError</span> |
---|
[0b00607] | 802 | |
---|
| 803 | <span class="k">if</span> <span class="n">fp_root</span> <span class="o">==</span> <span class="s1">'../'</span><span class="p">:</span> |
---|
| 804 | <span class="n">fp_root</span> <span class="o">=</span> <span class="s1">'$HOME'</span> |
---|
| 805 | |
---|
| 806 | <span class="k">try</span><span class="p">:</span> |
---|
| 807 | <span class="n">loader</span> <span class="o">=</span> <span class="n">TemplateLoader</span><span class="p">(</span><span class="n">_config</span><span class="o">.</span><span class="n">PATH_TEMPLATES</span><span class="p">,</span> <span class="n">auto_reload</span><span class="o">=</span><span class="kc">False</span><span class="p">)</span> |
---|
| 808 | <span class="n">compile_template</span> <span class="o">=</span> <span class="n">loader</span><span class="o">.</span><span class="n">load</span><span class="p">(</span><span class="n">_config</span><span class="o">.</span><span class="n">TEMPFILE_INSTALL_COMPILEJOB</span><span class="p">,</span> |
---|
| 809 | <span class="bp">cls</span><span class="o">=</span><span class="n">NewTextTemplate</span><span class="p">)</span> |
---|
| 810 | |
---|
| 811 | <span class="n">stream</span> <span class="o">=</span> <span class="n">compile_template</span><span class="o">.</span><span class="n">generate</span><span class="p">(</span> |
---|
[eca358d] | 812 | <span class="n">usergroup</span><span class="o">=</span><span class="n">ecgid</span><span class="p">,</span> |
---|
| 813 | <span class="n">username</span><span class="o">=</span><span class="n">ecuid</span><span class="p">,</span> |
---|
| 814 | <span class="n">version_number</span><span class="o">=</span><span class="n">_config</span><span class="o">.</span><span class="n">_VERSION_STR</span><span class="p">,</span> |
---|
| 815 | <span class="n">fp_root_scripts</span><span class="o">=</span><span class="n">fp_root</span><span class="p">,</span> |
---|
| 816 | <span class="n">makefile</span><span class="o">=</span><span class="n">makefile</span><span class="p">,</span> |
---|
| 817 | <span class="n">fortran_program</span><span class="o">=</span><span class="n">_config</span><span class="o">.</span><span class="n">FORTRAN_EXECUTABLE</span> |
---|
[0b00607] | 818 | <span class="p">)</span> |
---|
| 819 | <span class="k">except</span> <span class="n">UndefinedError</span> <span class="k">as</span> <span class="n">e</span><span class="p">:</span> |
---|
| 820 | <span class="nb">print</span><span class="p">(</span><span class="s1">'... ERROR '</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">))</span> |
---|
| 821 | |
---|
| 822 | <span class="n">sys</span><span class="o">.</span><span class="n">exit</span><span class="p">(</span><span class="s1">'</span><span class="se">\n</span><span class="s1">... error occured while trying to generate template '</span> <span class="o">+</span> |
---|
| 823 | <span class="n">_config</span><span class="o">.</span><span class="n">TEMPFILE_INSTALL_COMPILEJOB</span><span class="p">)</span> |
---|
| 824 | <span class="k">except</span> <span class="ne">OSError</span> <span class="k">as</span> <span class="n">e</span><span class="p">:</span> |
---|
| 825 | <span class="nb">print</span><span class="p">(</span><span class="s1">'... ERROR CODE: '</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="o">.</span><span class="n">errno</span><span class="p">))</span> |
---|
| 826 | <span class="nb">print</span><span class="p">(</span><span class="s1">'... ERROR MESSAGE:</span><span class="se">\n</span><span class="s1"> </span><span class="se">\t</span><span class="s1"> '</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="o">.</span><span class="n">strerror</span><span class="p">))</span> |
---|
| 827 | |
---|
| 828 | <span class="n">sys</span><span class="o">.</span><span class="n">exit</span><span class="p">(</span><span class="s1">'</span><span class="se">\n</span><span class="s1">... error occured while trying to generate template '</span> <span class="o">+</span> |
---|
| 829 | <span class="n">_config</span><span class="o">.</span><span class="n">TEMPFILE_INSTALL_COMPILEJOB</span><span class="p">)</span> |
---|
| 830 | |
---|
| 831 | <span class="k">try</span><span class="p">:</span> |
---|
| 832 | <span class="n">compilejob</span> <span class="o">=</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">_config</span><span class="o">.</span><span class="n">PATH_JOBSCRIPTS</span><span class="p">,</span> |
---|
| 833 | <span class="n">_config</span><span class="o">.</span><span class="n">FILE_INSTALL_COMPILEJOB</span><span class="p">)</span> |
---|
| 834 | |
---|
| 835 | <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">compilejob</span><span class="p">,</span> <span class="s1">'w'</span><span class="p">)</span> <span class="k">as</span> <span class="n">f</span><span class="p">:</span> |
---|
| 836 | <span class="n">f</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="n">stream</span><span class="o">.</span><span class="n">render</span><span class="p">(</span><span class="s1">'text'</span><span class="p">))</span> |
---|
| 837 | <span class="k">except</span> <span class="ne">OSError</span> <span class="k">as</span> <span class="n">e</span><span class="p">:</span> |
---|
| 838 | <span class="nb">print</span><span class="p">(</span><span class="s1">'... ERROR CODE: '</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="o">.</span><span class="n">errno</span><span class="p">))</span> |
---|
| 839 | <span class="nb">print</span><span class="p">(</span><span class="s1">'... ERROR MESSAGE:</span><span class="se">\n</span><span class="s1"> </span><span class="se">\t</span><span class="s1"> '</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="o">.</span><span class="n">strerror</span><span class="p">))</span> |
---|
| 840 | |
---|
| 841 | <span class="n">sys</span><span class="o">.</span><span class="n">exit</span><span class="p">(</span><span class="s1">'</span><span class="se">\n</span><span class="s1">... error occured while trying to write '</span> <span class="o">+</span> |
---|
| 842 | <span class="n">compilejob</span><span class="p">)</span> |
---|
| 843 | |
---|
| 844 | <span class="k">return</span></div> |
---|
| 845 | |
---|
[eca358d] | 846 | <div class="viewcode-block" id="mk_job_template"><a class="viewcode-back" href="../Documentation/Api/api_python.html#install.mk_job_template">[docs]</a><span class="k">def</span> <span class="nf">mk_job_template</span><span class="p">(</span><span class="n">ecuid</span><span class="p">,</span> <span class="n">ecgid</span><span class="p">,</span> <span class="n">fp_root</span><span class="p">):</span> |
---|
[0b00607] | 847 | <span class="sd">'''Modifies the original job template file so that it is specified</span> |
---|
| 848 | <span class="sd"> for the user and the environment were it will be applied. Result</span> |
---|
| 849 | <span class="sd"> is stored in a new file.</span> |
---|
| 850 | |
---|
| 851 | <span class="sd"> Parameters</span> |
---|
| 852 | <span class="sd"> ----------</span> |
---|
| 853 | <span class="sd"> ecuid : str</span> |
---|
| 854 | <span class="sd"> The user id on ECMWF server.</span> |
---|
| 855 | |
---|
| 856 | <span class="sd"> ecgid : str</span> |
---|
| 857 | <span class="sd"> The group id on ECMWF server.</span> |
---|
| 858 | |
---|
| 859 | <span class="sd"> fp_root : str</span> |
---|
| 860 | <span class="sd"> Path to the root directory of FLEXPART environment or flex_extract</span> |
---|
| 861 | <span class="sd"> environment.</span> |
---|
| 862 | |
---|
| 863 | <span class="sd"> Return</span> |
---|
| 864 | <span class="sd"> ------</span> |
---|
| 865 | |
---|
| 866 | <span class="sd"> '''</span> |
---|
[b1674ed] | 867 | <span class="kn">from</span> <span class="nn">genshi.template.text</span> <span class="kn">import</span> <span class="n">NewTextTemplate</span> |
---|
| 868 | <span class="kn">from</span> <span class="nn">genshi.template</span> <span class="kn">import</span> <span class="n">TemplateLoader</span> |
---|
| 869 | <span class="kn">from</span> <span class="nn">genshi.template.eval</span> <span class="kn">import</span> <span class="n">UndefinedError</span> |
---|
[0b00607] | 870 | |
---|
| 871 | <span class="n">fp_root_path_to_python</span> <span class="o">=</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">fp_root</span><span class="p">,</span> |
---|
| 872 | <span class="n">_config</span><span class="o">.</span><span class="n">FLEXEXTRACT_DIRNAME</span><span class="p">,</span> |
---|
| 873 | <span class="n">_config</span><span class="o">.</span><span class="n">PATH_REL_PYTHON_SRC</span><span class="p">)</span> |
---|
| 874 | <span class="k">if</span> <span class="s1">'$'</span> <span class="ow">in</span> <span class="n">fp_root_path_to_python</span><span class="p">:</span> |
---|
| 875 | <span class="n">ind</span> <span class="o">=</span> <span class="n">fp_root_path_to_python</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="s1">'$'</span><span class="p">)</span> |
---|
| 876 | <span class="n">fp_root_path_to_python</span> <span class="o">=</span> <span class="n">fp_root_path_to_python</span><span class="p">[</span><span class="mi">0</span><span class="p">:</span><span class="n">ind</span><span class="p">]</span> <span class="o">+</span> <span class="s1">'$'</span> <span class="o">+</span> \ |
---|
| 877 | <span class="n">fp_root_path_to_python</span><span class="p">[</span><span class="n">ind</span><span class="p">:]</span> |
---|
| 878 | |
---|
| 879 | <span class="k">try</span><span class="p">:</span> |
---|
| 880 | <span class="n">loader</span> <span class="o">=</span> <span class="n">TemplateLoader</span><span class="p">(</span><span class="n">_config</span><span class="o">.</span><span class="n">PATH_TEMPLATES</span><span class="p">,</span> <span class="n">auto_reload</span><span class="o">=</span><span class="kc">False</span><span class="p">)</span> |
---|
| 881 | <span class="n">compile_template</span> <span class="o">=</span> <span class="n">loader</span><span class="o">.</span><span class="n">load</span><span class="p">(</span><span class="n">_config</span><span class="o">.</span><span class="n">TEMPFILE_INSTALL_JOB</span><span class="p">,</span> |
---|
| 882 | <span class="bp">cls</span><span class="o">=</span><span class="n">NewTextTemplate</span><span class="p">)</span> |
---|
| 883 | |
---|
| 884 | <span class="n">stream</span> <span class="o">=</span> <span class="n">compile_template</span><span class="o">.</span><span class="n">generate</span><span class="p">(</span> |
---|
[eca358d] | 885 | <span class="n">usergroup</span><span class="o">=</span><span class="n">ecgid</span><span class="p">,</span> |
---|
| 886 | <span class="n">username</span><span class="o">=</span><span class="n">ecuid</span><span class="p">,</span> |
---|
| 887 | <span class="n">version_number</span><span class="o">=</span><span class="n">_config</span><span class="o">.</span><span class="n">_VERSION_STR</span><span class="p">,</span> |
---|
| 888 | <span class="n">fp_root_path</span><span class="o">=</span><span class="n">fp_root_path_to_python</span><span class="p">,</span> |
---|
[0b00607] | 889 | <span class="p">)</span> |
---|
| 890 | <span class="k">except</span> <span class="n">UndefinedError</span> <span class="k">as</span> <span class="n">e</span><span class="p">:</span> |
---|
| 891 | <span class="nb">print</span><span class="p">(</span><span class="s1">'... ERROR '</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">))</span> |
---|
| 892 | |
---|
| 893 | <span class="n">sys</span><span class="o">.</span><span class="n">exit</span><span class="p">(</span><span class="s1">'</span><span class="se">\n</span><span class="s1">... error occured while trying to generate template '</span> <span class="o">+</span> |
---|
| 894 | <span class="n">_config</span><span class="o">.</span><span class="n">TEMPFILE_INSTALL_JOB</span><span class="p">)</span> |
---|
| 895 | <span class="k">except</span> <span class="ne">OSError</span> <span class="k">as</span> <span class="n">e</span><span class="p">:</span> |
---|
| 896 | <span class="nb">print</span><span class="p">(</span><span class="s1">'... ERROR CODE: '</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="o">.</span><span class="n">errno</span><span class="p">))</span> |
---|
| 897 | <span class="nb">print</span><span class="p">(</span><span class="s1">'... ERROR MESSAGE:</span><span class="se">\n</span><span class="s1"> </span><span class="se">\t</span><span class="s1"> '</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="o">.</span><span class="n">strerror</span><span class="p">))</span> |
---|
| 898 | |
---|
| 899 | <span class="n">sys</span><span class="o">.</span><span class="n">exit</span><span class="p">(</span><span class="s1">'</span><span class="se">\n</span><span class="s1">... error occured while trying to generate template '</span> <span class="o">+</span> |
---|
| 900 | <span class="n">_config</span><span class="o">.</span><span class="n">TEMPFILE_INSTALL_JOB</span><span class="p">)</span> |
---|
| 901 | |
---|
| 902 | |
---|
| 903 | <span class="k">try</span><span class="p">:</span> |
---|
| 904 | <span class="n">tempjobfile</span> <span class="o">=</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">_config</span><span class="o">.</span><span class="n">PATH_TEMPLATES</span><span class="p">,</span> |
---|
| 905 | <span class="n">_config</span><span class="o">.</span><span class="n">TEMPFILE_JOB</span><span class="p">)</span> |
---|
| 906 | |
---|
| 907 | <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">tempjobfile</span><span class="p">,</span> <span class="s1">'w'</span><span class="p">)</span> <span class="k">as</span> <span class="n">f</span><span class="p">:</span> |
---|
| 908 | <span class="n">f</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="n">stream</span><span class="o">.</span><span class="n">render</span><span class="p">(</span><span class="s1">'text'</span><span class="p">))</span> |
---|
| 909 | <span class="k">except</span> <span class="ne">OSError</span> <span class="k">as</span> <span class="n">e</span><span class="p">:</span> |
---|
| 910 | <span class="nb">print</span><span class="p">(</span><span class="s1">'... ERROR CODE: '</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="o">.</span><span class="n">errno</span><span class="p">))</span> |
---|
| 911 | <span class="nb">print</span><span class="p">(</span><span class="s1">'... ERROR MESSAGE:</span><span class="se">\n</span><span class="s1"> </span><span class="se">\t</span><span class="s1"> '</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="o">.</span><span class="n">strerror</span><span class="p">))</span> |
---|
| 912 | |
---|
| 913 | <span class="n">sys</span><span class="o">.</span><span class="n">exit</span><span class="p">(</span><span class="s1">'</span><span class="se">\n</span><span class="s1">... error occured while trying to write '</span> <span class="o">+</span> |
---|
| 914 | <span class="n">tempjobfile</span><span class="p">)</span> |
---|
| 915 | |
---|
| 916 | <span class="k">return</span></div> |
---|
| 917 | |
---|
[08c9091] | 918 | <div class="viewcode-block" id="del_fortran_build"><a class="viewcode-back" href="../Documentation/Api/api_python.html#install.del_fortran_build">[docs]</a><span class="k">def</span> <span class="nf">del_fortran_build</span><span class="p">(</span><span class="n">src_path</span><span class="p">):</span> |
---|
[0b00607] | 919 | <span class="sd">'''Clean up the Fortran source directory and remove all</span> |
---|
[08c9091] | 920 | <span class="sd"> build files (e.g. \*.o, \*.mod and FORTRAN EXECUTABLE)</span> |
---|
[0b00607] | 921 | |
---|
| 922 | <span class="sd"> Parameters</span> |
---|
| 923 | <span class="sd"> ----------</span> |
---|
| 924 | <span class="sd"> src_path : str</span> |
---|
| 925 | <span class="sd"> Path to the fortran source directory.</span> |
---|
| 926 | |
---|
| 927 | <span class="sd"> Return</span> |
---|
| 928 | <span class="sd"> ------</span> |
---|
| 929 | |
---|
| 930 | <span class="sd"> '''</span> |
---|
| 931 | |
---|
| 932 | <span class="n">modfiles</span> <span class="o">=</span> <span class="n">UioFiles</span><span class="p">(</span><span class="n">src_path</span><span class="p">,</span> <span class="s1">'*.mod'</span><span class="p">)</span> |
---|
| 933 | <span class="n">objfiles</span> <span class="o">=</span> <span class="n">UioFiles</span><span class="p">(</span><span class="n">src_path</span><span class="p">,</span> <span class="s1">'*.o'</span><span class="p">)</span> |
---|
| 934 | <span class="n">exefile</span> <span class="o">=</span> <span class="n">UioFiles</span><span class="p">(</span><span class="n">src_path</span><span class="p">,</span> <span class="n">_config</span><span class="o">.</span><span class="n">FORTRAN_EXECUTABLE</span><span class="p">)</span> |
---|
| 935 | |
---|
| 936 | <span class="n">modfiles</span><span class="o">.</span><span class="n">delete_files</span><span class="p">()</span> |
---|
| 937 | <span class="n">objfiles</span><span class="o">.</span><span class="n">delete_files</span><span class="p">()</span> |
---|
| 938 | <span class="n">exefile</span><span class="o">.</span><span class="n">delete_files</span><span class="p">()</span> |
---|
| 939 | |
---|
| 940 | <span class="k">return</span></div> |
---|
| 941 | |
---|
[08c9091] | 942 | <div class="viewcode-block" id="mk_fortran_build"><a class="viewcode-back" href="../Documentation/Api/api_python.html#install.mk_fortran_build">[docs]</a><span class="k">def</span> <span class="nf">mk_fortran_build</span><span class="p">(</span><span class="n">src_path</span><span class="p">,</span> <span class="n">makefile</span><span class="p">):</span> |
---|
[0b00607] | 943 | <span class="sd">'''Compiles the Fortran code and generates the executable.</span> |
---|
| 944 | |
---|
| 945 | <span class="sd"> Parameters</span> |
---|
| 946 | <span class="sd"> ----------</span> |
---|
| 947 | <span class="sd"> src_path : str</span> |
---|
| 948 | <span class="sd"> Path to the fortran source directory.</span> |
---|
| 949 | |
---|
| 950 | <span class="sd"> makefile : str</span> |
---|
| 951 | <span class="sd"> The name of the makefile which should be used.</span> |
---|
| 952 | |
---|
| 953 | <span class="sd"> Return</span> |
---|
| 954 | <span class="sd"> ------</span> |
---|
| 955 | |
---|
| 956 | <span class="sd"> '''</span> |
---|
| 957 | |
---|
| 958 | <span class="k">try</span><span class="p">:</span> |
---|
| 959 | <span class="nb">print</span><span class="p">(</span><span class="s1">'Using makefile: '</span> <span class="o">+</span> <span class="n">makefile</span><span class="p">)</span> |
---|
| 960 | <span class="n">p</span> <span class="o">=</span> <span class="n">subprocess</span><span class="o">.</span><span class="n">Popen</span><span class="p">([</span><span class="s1">'make'</span><span class="p">,</span> <span class="s1">'-f'</span><span class="p">,</span> |
---|
| 961 | <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">src_path</span><span class="p">,</span> <span class="n">makefile</span><span class="p">)],</span> |
---|
| 962 | <span class="n">stdin</span><span class="o">=</span><span class="n">subprocess</span><span class="o">.</span><span class="n">PIPE</span><span class="p">,</span> |
---|
| 963 | <span class="n">stdout</span><span class="o">=</span><span class="n">subprocess</span><span class="o">.</span><span class="n">PIPE</span><span class="p">,</span> |
---|
| 964 | <span class="n">stderr</span><span class="o">=</span><span class="n">subprocess</span><span class="o">.</span><span class="n">PIPE</span><span class="p">,</span> |
---|
| 965 | <span class="n">bufsize</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span> |
---|
| 966 | <span class="n">pout</span><span class="p">,</span> <span class="n">perr</span> <span class="o">=</span> <span class="n">p</span><span class="o">.</span><span class="n">communicate</span><span class="p">()</span> |
---|
| 967 | <span class="nb">print</span><span class="p">(</span><span class="n">pout</span><span class="o">.</span><span class="n">decode</span><span class="p">())</span> |
---|
| 968 | <span class="k">if</span> <span class="n">p</span><span class="o">.</span><span class="n">returncode</span> <span class="o">!=</span> <span class="mi">0</span><span class="p">:</span> |
---|
| 969 | <span class="nb">print</span><span class="p">(</span><span class="n">perr</span><span class="o">.</span><span class="n">decode</span><span class="p">())</span> |
---|
| 970 | <span class="nb">print</span><span class="p">(</span><span class="s1">'Please edit '</span> <span class="o">+</span> <span class="n">makefile</span> <span class="o">+</span> |
---|
[5920b7f] | 971 | <span class="s1">' or try another makefile in the src directory.'</span><span class="p">)</span> |
---|
[08c9091] | 972 | <span class="nb">print</span><span class="p">(</span><span class="s1">'Most likely ECCODES_INCLUDE_DIR, ECCODES_LIB '</span> |
---|
[0b00607] | 973 | <span class="s1">'and EMOSLIB must be adapted.'</span><span class="p">)</span> |
---|
[5920b7f] | 974 | <span class="nb">print</span><span class="p">(</span><span class="s1">'Available makefiles:'</span><span class="p">)</span> |
---|
| 975 | <span class="nb">print</span><span class="p">(</span><span class="n">UioFiles</span><span class="p">(</span><span class="n">src_path</span><span class="p">,</span> <span class="s1">'makefile*'</span><span class="p">))</span> |
---|
[0b00607] | 976 | <span class="n">sys</span><span class="o">.</span><span class="n">exit</span><span class="p">(</span><span class="s1">'Compilation failed!'</span><span class="p">)</span> |
---|
| 977 | <span class="k">except</span> <span class="ne">ValueError</span> <span class="k">as</span> <span class="n">e</span><span class="p">:</span> |
---|
[08c9091] | 978 | <span class="nb">print</span><span class="p">(</span><span class="s1">'ERROR: makefile call failed:'</span><span class="p">)</span> |
---|
[0b00607] | 979 | <span class="nb">print</span><span class="p">(</span><span class="n">e</span><span class="p">)</span> |
---|
| 980 | <span class="k">else</span><span class="p">:</span> |
---|
[47be2684] | 981 | <span class="n">execute_subprocess</span><span class="p">([</span><span class="s1">'ls'</span><span class="p">,</span> <span class="s1">'-l'</span><span class="p">,</span> |
---|
[eca358d] | 982 | <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">src_path</span><span class="p">,</span> <span class="n">_config</span><span class="o">.</span><span class="n">FORTRAN_EXECUTABLE</span><span class="p">)],</span> |
---|
| 983 | <span class="n">error_msg</span><span class="o">=</span><span class="s1">'FORTRAN EXECUTABLE COULD NOT BE FOUND!'</span><span class="p">)</span> |
---|
[0b00607] | 984 | |
---|
| 985 | <span class="k">return</span></div> |
---|
| 986 | |
---|
| 987 | |
---|
| 988 | <span class="k">if</span> <span class="vm">__name__</span> <span class="o">==</span> <span class="s2">"__main__"</span><span class="p">:</span> |
---|
| 989 | <span class="n">main</span><span class="p">()</span> |
---|
| 990 | </pre></div> |
---|
| 991 | |
---|
| 992 | </div> |
---|
| 993 | |
---|
| 994 | </div> |
---|
| 995 | <footer> |
---|
| 996 | |
---|
| 997 | |
---|
| 998 | <hr/> |
---|
| 999 | |
---|
| 1000 | <div role="contentinfo"> |
---|
| 1001 | <p> |
---|
[5bee29a] | 1002 | © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert |
---|
[0b00607] | 1003 | |
---|
| 1004 | </p> |
---|
| 1005 | </div> |
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| 1006 | 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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| 1007 | |
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| 1008 | </footer> |
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| 1009 | |
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| 1010 | </div> |
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| 1011 | </div> |
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| 1012 | |
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| 1013 | </section> |
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| 1014 | |
---|
| 1015 | </div> |
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| 1016 | |
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| 1017 | |
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| 1018 | |
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| 1019 | <script type="text/javascript"> |
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| 1020 | jQuery(function () { |
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| 1021 | SphinxRtdTheme.Navigation.enable(true); |
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| 1024 | |
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| 1028 | |
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| 1029 | |
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| 1030 | </body> |
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| 1031 | </html> |
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