Changeset 47be2684 in flex_extract.git for Documentation/html/_modules/install.html


Ignore:
Timestamp:
Oct 28, 2020, 10:28:24 AM (4 years ago)
Author:
Leopold Haimberger <leopold.haimberger@…>
Branches:
ctbto, dev
Children:
75db9b0
Parents:
697b8d0
Message:

Adaptations to allow for a system installation with separate user and system path. Updated documentation

File:
1 edited

Legend:

Unmodified
Added
Removed

  • Documentation/html/_modules/install.html

    r08c9091 r47be2684  
    181181<span class="c1">#    June 2020 - Anne Philipp</span>
    182182<span class="c1">#        - renamed &quot;convert&quot; functions to &quot;fortran&quot; functions</span>
    183 <span class="c1">#        - reconfigured mk_tarball to select *.template files instead </span>
     183<span class="c1">#        - reconfigured mk_tarball to select *.template files instead</span>
    184184<span class="c1">#          of *.nl and *.temp</span>
    185185<span class="c1">#        - added check for makefile settings</span>
    … …  
    237237<span class="kn">import</span> <span class="nn">subprocess</span>
    238238<span class="kn">import</span> <span class="nn">tarfile</span>
     239<span class="kn">import</span> <span class="nn">shutil</span>
    239240<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>
    240241
    … …  
    244245<span class="kn">from</span> <span class="nn">Classes.UioFiles</span> <span class="kn">import</span> <span class="n">UioFiles</span>
    245246<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>
    246                         <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>
     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>
     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>
    247249
    248250<span class="c1"># ------------------------------------------------------------------------------</span>
    … …  
    265267    <span class="n">check_install_conditions</span><span class="p">(</span><span class="n">c</span><span class="p">)</span>
    266268
    267     <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="o">!=</span> <span class="s1">&#39;local&#39;</span><span class="p">:</span> <span class="c1"># ecgate or cca</span>
     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">&#39;local&#39;</span><span class="p">,</span> <span class="s1">&#39;syslocal&#39;</span><span class="p">]:</span> <span class="c1"># ecgate or cca</span>
    268270        <span class="n">install_via_gateway</span><span class="p">(</span><span class="n">c</span><span class="p">)</span>
    269271    <span class="k">else</span><span class="p">:</span> <span class="c1"># local</span>
    270272        <span class="n">install_local</span><span class="p">(</span><span class="n">c</span><span class="p">)</span>
    271273
     274    <span class="nb">print</span><span class="p">(</span><span class="s2">&quot;SUCCESS: INSTALLATION FINISHED!&quot;</span><span class="p">)</span>
     275
    272276    <span class="k">return</span></div>
    273277
    … …  
    290294    <span class="n">parser</span><span class="o">.</span><span class="n">add_argument</span><span class="p">(</span><span class="s1">&#39;--target&#39;</span><span class="p">,</span> <span class="n">dest</span><span class="o">=</span><span class="s1">&#39;install_target&#39;</span><span class="p">,</span>
    291295                        <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>
    292                         <span class="n">help</span><span class="o">=</span><span class="s2">&quot;Valid targets: local | ecgate | cca , </span><span class="se">\</span>
     296                        <span class="n">help</span><span class="o">=</span><span class="s2">&quot;Valid targets: syslocal | local | ecgate | cca , </span><span class="se">\</span>
    293297<span class="s2">                        the latter two are at ECMWF&quot;</span><span class="p">)</span>
    294298    <span class="n">parser</span><span class="o">.</span><span class="n">add_argument</span><span class="p">(</span><span class="s2">&quot;--makefile&quot;</span><span class="p">,</span> <span class="n">dest</span><span class="o">=</span><span class="s2">&quot;makefile&quot;</span><span class="p">,</span>
    … …  
    312316    <span class="n">parser</span><span class="o">.</span><span class="n">add_argument</span><span class="p">(</span><span class="s2">&quot;--installdir&quot;</span><span class="p">,</span> <span class="n">dest</span><span class="o">=</span><span class="s2">&quot;installdir&quot;</span><span class="p">,</span>
    313317                        <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>
    314                         <span class="n">help</span><span class="o">=</span><span class="s1">&#39;Root directory of the &#39;</span>
     318                        <span class="n">help</span><span class="o">=</span><span class="s1">&#39;Root (user) directory of the &#39;</span>
    315319                        <span class="s1">&#39;flex_extract installation&#39;</span><span class="p">)</span>
     320    <span class="n">parser</span><span class="o">.</span><span class="n">add_argument</span><span class="p">(</span><span class="s2">&quot;--sysinstalldir&quot;</span><span class="p">,</span> <span class="n">dest</span><span class="o">=</span><span class="s2">&quot;sysinstalldir&quot;</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">&#39;System installation path; where &#39;</span>
     323                        <span class="s1">&#39;executables are stored.&#39;</span><span class="p">)</span>
    316324
    317325    <span class="c1"># arguments for job submission to ECMWF, only needed by submit.py</span>
    … …  
    390398                            <span class="n">_config</span><span class="o">.</span><span class="n">FLEXEXTRACT_DIRNAME</span> <span class="o">+</span> <span class="s1">&#39;.tar&#39;</span><span class="p">)</span>
    391399
    392     <span class="k">if</span> <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><span class="p">:</span>
    393         <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;WARNING: installdir has not been specified&#39;</span><span class="p">)</span>
    394         <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;flex_extract will be installed in here by compiling the &#39;</span> <span class="o">+</span>
    395               <span class="s1">&#39;Fortran source in &#39;</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>
    396         <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>
    397     <span class="k">else</span><span class="p">:</span> <span class="c1"># creates the target working directory for flex_extract</span>
    398         <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">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>
    399             <span class="n">c</span><span class="o">.</span><span class="n">installdir</span><span class="p">))</span>
    400         <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> \
    401            <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>
     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">&#39;local&#39;</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">&#39;WARNING: installdir has not been specified&#39;</span><span class="p">)</span>
     411            <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;flex_extract will be installed in current dir by compiling the &#39;</span> <span class="o">+</span>
     412                  <span class="s1">&#39;Fortran source in &#39;</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>
    402418            <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>
    403419            <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>
    … …  
    410426                                  <span class="n">_config</span><span class="o">.</span><span class="n">PATH_REL_FORTRAN_SRC</span><span class="p">))</span>
    411427
    412     <span class="c1"># Create Fortran executable</span>
    413     <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Install &#39;</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">&#39; software at &#39;</span> <span class="o">+</span>
    414           <span class="n">c</span><span class="o">.</span><span class="n">install_target</span> <span class="o">+</span> <span class="s1">&#39; in directory &#39;</span> <span class="o">+</span>
    415           <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">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span><span class="p">)</span>
    416 
    417     <span class="n">del_fortran_build</span><span class="p">(</span><span class="s1">&#39;.&#39;</span><span class="p">)</span>
    418     <span class="n">mk_fortran_build</span><span class="p">(</span><span class="s1">&#39;.&#39;</span><span class="p">,</span> <span class="n">c</span><span class="o">.</span><span class="n">makefile</span><span class="p">)</span>
     428        <span class="c1"># Create Fortran executable</span>
     429        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Install &#39;</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">&#39; software at &#39;</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">&#39; in directory &#39;</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">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span><span class="p">)</span>
     431
     432        <span class="n">del_fortran_build</span><span class="p">(</span><span class="s1">&#39;.&#39;</span><span class="p">)</span>
     433        <span class="n">mk_fortran_build</span><span class="p">(</span><span class="s1">&#39;.&#39;</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">&#39;../../&#39;</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">&#39;Run/run_local.sh&#39;</span><span class="p">,</span>
     437                                <span class="s1">&#39;pyscript=&#39;</span><span class="p">,</span> <span class="s1">&#39;pyscript=../Source/Python/submit.py</span><span class="se">\n</span><span class="s1">&#39;</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">&#39;syslocal&#39;</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">&#39;ERROR: System installation path is equal to user &#39;</span>
     443                     <span class="s1">&#39;installation path.</span><span class="se">\n</span><span class="s1"> Please change either the system &#39;</span>
     444                     <span class="s1">&#39;installation path or use installation target &quot;local&quot;.&#39;</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">&#39;Flex_extract will be installed in current directory!&#39;</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">&#39;Flex_extract will be installed in &#39;</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">&#39;Source&#39;</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">&#39;.git&#39;</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">&#39;*~&#39;</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">&#39;setup.sh&#39;</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">&#39;setup_local.sh&#39;</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">&#39;Run/run_local.sh&#39;</span><span class="p">),</span>
     469                                 <span class="s1">&#39;source .setup.rc&#39;</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">&#39;Run/run_local.sh&#39;</span><span class="p">),</span>
     471                                    <span class="s1">&#39;# PATH TO SUBMISSION SCRIPT&#39;</span><span class="p">,</span>
     472                                    <span class="s1">&#39;# PATH TO SUBMISSION SCRIPT</span><span class="se">\n</span><span class="s1">source &#39;</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">&#39;</span><span class="se">\n</span><span class="s1">&#39;</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">&#39;Run/run_local.sh&#39;</span><span class="p">),</span>
     475                                <span class="s1">&#39;pyscript=&#39;</span><span class="p">,</span> <span class="s1">&#39;pyscript=submit.py</span><span class="se">\n</span><span class="s1">&#39;</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">&#39;chmod&#39;</span><span class="p">,</span> <span class="s1">&#39;0775&#39;</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">&#39;Run/run_local.sh&#39;</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">&#39;Run/.setup.rc&#39;</span><span class="p">),</span><span class="s1">&#39;w&#39;</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">&#39;#!/bin/bash </span><span class="se">\n</span><span class="s1">&#39;</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">&#39;export FLEXEXTRACT_USER_DIR=&#39;</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">&#39;</span><span class="se">\n</span><span class="s1">&#39;</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">&#39;export PATH=&#39;</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">&#39;/Python:$</span><span class="si">{PATH}</span><span class="se">\n</span><span class="s1">&#39;</span><span class="p">)</span>
     492            <span class="n">fio</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="s1">&#39;export PATH=&#39;</span><span class="o">+</span><span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">abspath</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">sysinstalldir</span><span class="p">)</span><span class="o">+</span><span class="s1">&#39;:$</span><span class="si">{PATH}</span><span class="se">\n</span><span class="s1">&#39;</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">&#39;Fortran&#39;</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">&#39;Install &#39;</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">&#39; software as &#39;</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">&#39; in directory &#39;</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">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span><span class="p">)</span>
     502
     503        <span class="n">del_fortran_build</span><span class="p">(</span><span class="s1">&#39;.&#39;</span><span class="p">)</span>
     504        <span class="n">mk_fortran_build</span><span class="p">(</span><span class="s1">&#39;.&#39;</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">&#39;.&#39;</span><span class="p">,</span><span class="s1">&#39;*.out&#39;</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">&#39;calc_etadot&#39;</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">&#39;WARNING: Multiple executables for Fortran code are available!&#39;</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">&#39;..&#39;</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">&#39;calc_etadot&#39;</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">&#39;Fortran&#39;</span><span class="p">))</span>
    419514
    420515    <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>
    … …  
    451546        <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>
    452547
    453     <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="o">!=</span> <span class="s1">&#39;local&#39;</span><span class="p">:</span>
     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">&#39;local&#39;</span><span class="p">,</span> <span class="s1">&#39;syslocal&#39;</span><span class="p">]:</span>
    454549        <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>
    455550            <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Please enter your ECMWF user id and group id &#39;</span>
    … …  
    467562        <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>
    468563            <span class="n">c</span><span class="o">.</span><span class="n">installdir</span> <span class="o">=</span> <span class="s1">&#39;$</span><span class="si">{HOME}</span><span class="s1">&#39;</span>
    469     <span class="k">else</span><span class="p">:</span> <span class="c1"># local</span>
     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">&#39;local&#39;</span><span class="p">:</span>
    470565        <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>
    471566            <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">&#39;syslocal&#39;</span><span class="p">:</span>
     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>
     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">&#39;ERROR: System installation was selected but &#39;</span>
     572                  <span class="s1">&#39;no system installation path was defined.&#39;</span><span class="p">)</span>
     573            <span class="n">sys</span><span class="o">.</span><span class="n">exit</span><span class="p">()</span>
    472574
    473575    <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>
    … …  
    485587        <span class="k">else</span><span class="p">:</span>
    486588            <span class="k">pass</span>
    487        
     589
    488590    <span class="k">return</span></div>
    489591
    … …  
    877979        <span class="nb">print</span><span class="p">(</span><span class="n">e</span><span class="p">)</span>
    878980    <span class="k">else</span><span class="p">:</span>
    879         <span class="n">execute_subprocess</span><span class="p">([</span><span class="s1">&#39;ls&#39;</span><span class="p">,</span> <span class="s1">&#39;-l&#39;</span><span class="p">,</span> 
     981        <span class="n">execute_subprocess</span><span class="p">([</span><span class="s1">&#39;ls&#39;</span><span class="p">,</span> <span class="s1">&#39;-l&#39;</span><span class="p">,</span>
    880982                            <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>
    881983                           <span class="n">error_msg</span><span class="o">=</span><span class="s1">&#39;FORTRAN EXECUTABLE COULD NOT BE FOUND!&#39;</span><span class="p">)</span>
Note: See TracChangeset for help on using the changeset viewer.
hosted by ZAMG