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<section><section>
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<div class="text_cell_render border-box-sizing rendered_html">
<h1 id="-Python-Path-and-Subprocess-(useful-for-scripting)-"><center> Python Path and Subprocess (useful for scripting) </center><a class="anchor-link" href="#-Python-Path-and-Subprocess-(useful-for-scripting)-">&#182;</a></h1>
</div>
</div><div class="fragment" style="width: 100%;float: left"><div class="full" style="width: 100%; float: left">
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<h2 id="We-want-to-be-able-to:">We want to be able to:<a class="anchor-link" href="#We-want-to-be-able-to:">&#182;</a></h2><ul>
<li>read/write files</li>
<li>launch executables</li>
<li>generate input</li>
<li>parse ouput</li>
<li>make graphs of publication quality</li>
<li>post-treatment: curve fit, vector manipulation...</li>
</ul>
</div>
</div></div></div>
</section><section>
<div class="slide" style="float: left"><div class="full" style="width: 100%; float: left">
<div class="text_cell_render border-box-sizing rendered_html">
<h1 id="-Selected-python-scripting-tools-"><center> Selected python scripting tools </center><a class="anchor-link" href="#-Selected-python-scripting-tools-">&#182;</a></h1>
</div>
</div></div>
</section><section>
<div class="slide" style="float: left"><div class="full" style="width: 100%; float: left">
<div class="text_cell_render border-box-sizing rendered_html">
<h2 id="Manipulating-filenames">Manipulating filenames<a class="anchor-link" href="#Manipulating-filenames">&#182;</a></h2><div class="highlight"><pre><span></span><span class="kn">import</span> <span class="nn">os</span>
<span class="n">path</span><span class="p">,</span> <span class="n">name</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">split</span><span class="p">(</span><span class="s1">&#39;/tmp/test.plot&#39;</span><span class="p">)</span>
<span class="n">basename</span><span class="p">,</span> <span class="n">ext</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">splitext</span><span class="p">(</span><span class="n">name</span><span class="p">)</span>
<span class="k">print</span><span class="p">(</span><span class="s1">&#39;path &#39;</span> <span class="o">+</span> <span class="n">path</span><span class="p">)</span>
<span class="k">print</span><span class="p">(</span><span class="s1">&#39;name &#39;</span> <span class="o">+</span> <span class="n">name</span><span class="p">)</span>
<span class="k">print</span><span class="p">(</span><span class="s1">&#39;basename &#39;</span> <span class="o">+</span> <span class="n">basename</span><span class="p">)</span>
<span class="k">print</span><span class="p">(</span><span class="s1">&#39;ext &#39;</span> <span class="o">+</span> <span class="n">ext</span><span class="p">)</span>
</pre></div>
</div>
</div></div>
</section><section>
<div class="slide" style="float: left"><div class="full" style="width: 100%; float: left">
<div class="text_cell_render border-box-sizing rendered_html">
<h2 id="How-to-list-all-files-in-a-directory">How to list all files in a directory<a class="anchor-link" href="#How-to-list-all-files-in-a-directory">&#182;</a></h2><div class="highlight"><pre><span></span><span class="kn">import</span> <span class="nn">os</span>
<span class="k">for</span> <span class="n">fname</span> <span class="ow">in</span> <span class="n">os</span><span class="o">.</span><span class="n">listdir</span><span class="p">(</span><span class="s1">&#39;/tmp&#39;</span><span class="p">):</span>
<span class="k">print</span><span class="p">(</span><span class="n">fname</span><span class="p">)</span>
</pre></div>
</div>
</div><div class="fragment" style="width: 100%;float: left"><div class="full" style="width: 100%; float: left">
<div class="text_cell_render border-box-sizing rendered_html">
<h2 id="list-only-files-of-a-given-extension">list only files of a given extension<a class="anchor-link" href="#list-only-files-of-a-given-extension">&#182;</a></h2><div class="highlight"><pre><span></span><span class="kn">import</span> <span class="nn">os</span>
<span class="k">for</span> <span class="n">fname</span> <span class="ow">in</span> <span class="n">os</span><span class="o">.</span><span class="n">listdir</span><span class="p">(</span><span class="s1">&#39;/tmp&#39;</span><span class="p">):</span>
<span class="n">name</span><span class="p">,</span><span class="n">ext</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">splitext</span><span class="p">(</span><span class="n">fname</span><span class="p">)</span>
<span class="k">if</span> <span class="ow">not</span> <span class="n">ext</span> <span class="o">==</span> <span class="s1">&#39;.txt&#39;</span><span class="p">:</span>
<span class="k">continue</span>
<span class="k">print</span><span class="p">(</span><span class="s1">&#39;name &#39;</span> <span class="o">+</span> <span class="n">name</span><span class="p">)</span>
<span class="k">print</span><span class="p">(</span><span class="s1">&#39;ext &#39;</span> <span class="o">+</span> <span class="n">ext</span><span class="p">)</span>
</pre></div>
</div>
</div></div></div>
</section><section>
<div class="slide" style="float: left"><div class="full" style="width: 100%; float: left">
<div class="text_cell_render border-box-sizing rendered_html">
<h2 id="construct-filenames-with-other-files-and-a-different-path">construct filenames with other files and a different path<a class="anchor-link" href="#construct-filenames-with-other-files-and-a-different-path">&#182;</a></h2><div class="highlight"><pre><span></span><span class="kn">import</span> <span class="nn">os</span>
<span class="n">new_path</span> <span class="o">=</span> <span class="s1">&#39;/newpath&#39;</span>
<span class="k">for</span> <span class="n">fname</span> <span class="ow">in</span> <span class="n">os</span><span class="o">.</span><span class="n">listdir</span><span class="p">(</span><span class="s1">&#39;/tmp&#39;</span><span class="p">):</span>
<span class="n">basename</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">basename</span><span class="p">(</span><span class="n">fname</span><span class="p">)</span>
<span class="n">new_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">new_path</span><span class="p">,</span> <span class="n">basename</span><span class="p">)</span>
<span class="k">print</span><span class="p">(</span><span class="n">new_file</span><span class="p">)</span>
</pre></div>
</div>
</div></div>
</section><section>
<div class="slide" style="float: left"><div class="full" style="width: 100%; float: left">
<div class="text_cell_render border-box-sizing rendered_html">
<h2 id="execute-other-programs:-Subprocess-module">execute other programs: Subprocess module<a class="anchor-link" href="#execute-other-programs:-Subprocess-module">&#182;</a></h2><div class="highlight"><pre><span></span><span class="kn">import</span> <span class="nn">subprocess</span>
</pre></div>
</div>
</div><div class="fragment" style="width: 100%;float: left"><div class="full" style="width: 100%; float: left">
<div class="text_cell_render border-box-sizing rendered_html">
<p>Launching another program is simply done by the <em>call</em> function</p>
<div class="highlight"><pre><span></span><span class="n">res</span> <span class="o">=</span> <span class="n">subprocess</span><span class="o">.</span><span class="n">call</span><span class="p">([</span><span class="s1">&#39;ls&#39;</span><span class="p">,</span> <span class="s1">&#39;-trlh&#39;</span><span class="p">])</span>
</pre></div>
<p>The output is sent to screen.</p>
</div>
</div></div></div>
</section><section>
<div class="slide" style="float: left"><div class="full" style="width: 100%; float: left">
<div class="text_cell_render border-box-sizing rendered_html">
<h2 id="Saving-output-into-a-file">Saving output into a file<a class="anchor-link" href="#Saving-output-into-a-file">&#182;</a></h2><div class="highlight"><pre><span></span><span class="kn">import</span> <span class="nn">subprocess</span>
<span class="n">outfile</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="s1">&#39;out.txt&#39;</span><span class="p">,</span> <span class="s1">&#39;w&#39;</span><span class="p">)</span>
<span class="n">res</span> <span class="o">=</span> <span class="n">subprocess</span><span class="o">.</span><span class="n">call</span><span class="p">([</span><span class="s1">&#39;ls&#39;</span><span class="p">,</span> <span class="s1">&#39;-trlh&#39;</span><span class="p">],</span> <span class="n">stdout</span><span class="o">=</span><span class="n">outfile</span><span class="p">)</span>
</pre></div>
</div>
</div></div>
</section><section>
<div class="slide" style="float: left"><div class="full" style="width: 100%; float: left">
<div class="text_cell_render border-box-sizing rendered_html">
<h2 id="Saving-output-into-a-string">Saving output into a string<a class="anchor-link" href="#Saving-output-into-a-string">&#182;</a></h2><div class="highlight"><pre><span></span><span class="kn">import</span> <span class="nn">subprocess</span>
<span class="n">process</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="s2">&quot;ls&quot;</span><span class="p">,</span> <span class="s2">&quot;-trlh&quot;</span><span class="p">],</span> <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>
<span class="n">out</span><span class="p">,</span> <span class="n">err</span> <span class="o">=</span> <span class="n">process</span><span class="o">.</span><span class="n">communicate</span><span class="p">()</span>
<span class="k">print</span> <span class="p">(</span><span class="n">out</span><span class="o">.</span><span class="n">decode</span><span class="p">)</span>
</pre></div>
</div>
</div></div>
</section><section>
<div class="slide" style="float: left"><div class="full" style="width: 100%; float: left">
<div class="text_cell_render border-box-sizing rendered_html">
<h2 id="Exploiting-return-code">Exploiting return code<a class="anchor-link" href="#Exploiting-return-code">&#182;</a></h2><div class="highlight"><pre><span></span><span class="kn">import</span> <span class="nn">subprocess</span>
<span class="n">process</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="s2">&quot;ls&quot;</span><span class="p">,</span> <span class="s2">&quot;-trlh&quot;</span><span class="p">],</span> <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>
<span class="n">out</span><span class="p">,</span> <span class="n">err</span> <span class="o">=</span> <span class="n">process</span><span class="o">.</span><span class="n">communicate</span><span class="p">()</span>
<span class="n">ret</span> <span class="o">=</span> <span class="n">process</span><span class="o">.</span><span class="n">ret</span>
<span class="k">if</span> <span class="n">ret</span> <span class="o">!=</span> <span class="mi">0</span><span class="p">:</span>
<span class="k">print</span><span class="p">(</span><span class="s1">&#39;Failed&#39;</span><span class="p">)</span>
<span class="k">else</span><span class="p">:</span>
<span class="k">print</span><span class="p">(</span><span class="s1">&#39;return code: {0}&#39;</span><span class="o">.</span><span class="n">format</span><span class="p">(</span><span class="n">ret</span><span class="p">))</span>
</pre></div>
</div>
</div></div>
</section></section>
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