Select Git revision
TimeTravel.vue
UioFiles.html 15.47 KiB
<!DOCTYPE html>
<!--[if IE 8]><html class="no-js lt-ie9" lang="en" > <![endif]-->
<!--[if gt IE 8]><!--> <html class="no-js" lang="en" > <!--<![endif]-->
<head>
<meta charset="utf-8">
<meta name="viewport" content="width=device-width, initial-scale=1.0">
<title>UioFiles — flex_extract 7.1 alpha documentation</title>
<link rel="stylesheet" href="../_static/css/theme.css" type="text/css" />
<link rel="stylesheet" href="../_static/pygments.css" type="text/css" />
<link rel="index" title="Index" href="../genindex.html" />
<link rel="search" title="Search" href="../search.html" />
<script src="../_static/js/modernizr.min.js"></script>
</head>
<body class="wy-body-for-nav">
<div class="wy-grid-for-nav">
<nav data-toggle="wy-nav-shift" class="wy-nav-side">
<div class="wy-side-scroll">
<div class="wy-side-nav-search">
<a href="../index.html" class="icon icon-home"> flex_extract
</a>
<div class="version">
7.1
</div>
<div role="search">
<form id="rtd-search-form" class="wy-form" action="../search.html" method="get">
<input type="text" name="q" placeholder="Search docs" />
<input type="hidden" name="check_keywords" value="yes" />
<input type="hidden" name="area" value="default" />
</form></div>
</div>
<div class="wy-menu wy-menu-vertical" data-spy="affix" role="navigation" aria-label="main navigation">
<p class="caption"><span class="caption-text">Table of Contents:</span></p>
<ul>
<li class="toctree-l1"><a class="reference internal" href="../downloads.html">Downloads</a></li>
<li class="toctree-l1"><a class="reference internal" href="../installation.html">Installation</a></li>
<li class="toctree-l1"><a class="reference internal" href="../program_structure.html">Program Structure</a></li>
<li class="toctree-l1"><a class="reference internal" href="../user_guide.html">User Guide</a></li>
<li class="toctree-l1"><a class="reference internal" href="../api.html">Auto Generated Documentation</a></li>
<li class="toctree-l1"><a class="reference internal" href="../support.html">Support</a></li>
</ul>
</div>
</div>
</nav>
<section data-toggle="wy-nav-shift" class="wy-nav-content-wrap">
<nav class="wy-nav-top" aria-label="top navigation">
<i data-toggle="wy-nav-top" class="fa fa-bars"></i>
<a href="../index.html">flex_extract</a>
</nav>
<div class="wy-nav-content">
<div class="rst-content">
<div role="navigation" aria-label="breadcrumbs navigation">
<ul class="wy-breadcrumbs">
<li><a href="../index.html">Docs</a> »</li>
<li><a href="index.html">Module code</a> »</li>
<li>UioFiles</li>
<li class="wy-breadcrumbs-aside">
</li>
</ul>
<hr/>
</div>
<div role="main" class="document" itemscope="itemscope" itemtype="http://schema.org/Article">
<div itemprop="articleBody">
<h1>Source code for UioFiles</h1><div class="highlight"><pre>
<span></span><span class="ch">#!/usr/bin/env python</span>
<span class="c1"># -*- coding: utf-8 -*-</span>
<span class="c1">#*******************************************************************************</span>
<span class="c1"># @Author: Anne Fouilloux (University of Oslo)</span>
<span class="c1">#</span>
<span class="c1"># @Date: October 2014</span>
<span class="c1">#</span>
<span class="c1"># @Change History:</span>
<span class="c1">#</span>
<span class="c1"># November 2015 - Leopold Haimberger (University of Vienna):</span>
<span class="c1"># - modified method list_files to work with glob instead of listdir</span>
<span class="c1"># - added pattern search in method list_files</span>
<span class="c1">#</span>
<span class="c1"># February 2018 - Anne Philipp (University of Vienna):</span>
<span class="c1"># - applied PEP8 style guide</span>
<span class="c1"># - added documentation</span>
<span class="c1"># - optimisation of method list_files since it didn't work correctly</span>
<span class="c1"># for sub directories</span>
<span class="c1"># - additional speed up of method list_files</span>
<span class="c1"># - modified the class so that it is initiated with a pattern instead</span>
<span class="c1"># of suffixes. Gives more precision in selection of files.</span>
<span class="c1">#</span>
<span class="c1"># @License:</span>
<span class="c1"># (C) Copyright 2014-2018.</span>
<span class="c1">#</span>
<span class="c1"># This software is licensed under the terms of the Apache Licence Version 2.0</span>
<span class="c1"># which can be obtained at http://www.apache.org/licenses/LICENSE-2.0.</span>
<span class="c1">#</span>
<span class="c1"># @Class Decription:</span>
<span class="c1"># The class is for file manipulation. It is initiated with a regular</span>
<span class="c1"># expression pattern for this instance and can produce a list of Files</span>
<span class="c1"># from the given file pattern. These files can be deleted.</span>
<span class="c1">#</span>
<span class="c1"># @Class Content:</span>
<span class="c1"># - __init__</span>
<span class="c1"># - __str__</span>
<span class="c1"># - __list_files__</span>
<span class="c1"># - delete_files</span>
<span class="c1">#</span>
<span class="c1"># @Class Attributes:</span>
<span class="c1"># - pattern</span>
<span class="c1"># - files</span>
<span class="c1">#</span>
<span class="c1">#*******************************************************************************</span>
<span class="c1"># ------------------------------------------------------------------------------</span>
<span class="c1"># MODULES</span>
<span class="c1"># ------------------------------------------------------------------------------</span>
<span class="kn">import</span> <span class="nn">os</span>
<span class="kn">import</span> <span class="nn">sys</span>
<span class="kn">import</span> <span class="nn">fnmatch</span>
<span class="c1"># software specific module from flex_extract</span>
<span class="n">sys</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="s1">'../'</span><span class="p">)</span>
<span class="c1">#import profiling</span>
<span class="kn">from</span> <span class="nn">mods.tools</span> <span class="k">import</span> <span class="n">silent_remove</span><span class="p">,</span> <span class="n">get_list_as_string</span>
<span class="c1"># ------------------------------------------------------------------------------</span>
<span class="c1"># CLASS</span>
<span class="c1"># ------------------------------------------------------------------------------</span>
<div class="viewcode-block" id="UioFiles"><a class="viewcode-back" href="../api.html#UioFiles.UioFiles">[docs]</a><span class="k">class</span> <span class="nc">UioFiles</span><span class="p">(</span><span class="nb">object</span><span class="p">):</span>
<span class="sd">'''Class to manipulate files. At initialisation it has the pattern</span>
<span class="sd"> which stores a regular expression pattern for the files, the path</span>
<span class="sd"> to the files and the files already.</span>
<span class="sd"> '''</span>
<span class="c1"># --------------------------------------------------------------------------</span>
<span class="c1"># CLASS FUNCTIONS</span>
<span class="c1"># --------------------------------------------------------------------------</span>
<span class="k">def</span> <span class="nf">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">path</span><span class="p">,</span> <span class="n">pattern</span><span class="p">):</span>
<span class="sd">'''Assignes a specific pattern for these files.</span>
<span class="sd"> Parameters</span>
<span class="sd"> ----------</span>
<span class="sd"> path : :obj:`string`</span>
<span class="sd"> Directory where to list the files.</span>
<span class="sd"> pattern : :obj:`string`</span>
<span class="sd"> Regular expression pattern. For example: '\*.grb'</span>
<span class="sd"> Return</span>
<span class="sd"> ------</span>
<span class="sd"> '''</span>
<span class="bp">self</span><span class="o">.</span><span class="n">path</span> <span class="o">=</span> <span class="n">path</span>
<span class="bp">self</span><span class="o">.</span><span class="n">pattern</span> <span class="o">=</span> <span class="n">pattern</span>
<span class="bp">self</span><span class="o">.</span><span class="n">files</span> <span class="o">=</span> <span class="p">[]</span>
<span class="bp">self</span><span class="o">.</span><span class="n">__list_files__</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">path</span><span class="p">)</span>
<span class="k">return</span>
<span class="c1">#@profiling.timefn</span>
<span class="k">def</span> <span class="nf">__list_files__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">path</span><span class="p">):</span>
<span class="sd">'''Lists all files in the directory with the matching</span>
<span class="sd"> regular expression pattern.</span>
<span class="sd"> Parameters</span>
<span class="sd"> ----------</span>
<span class="sd"> path : :obj:`string`</span>
<span class="sd"> Path to the files.</span>
<span class="sd"> Return</span>
<span class="sd"> ------</span>
<span class="sd"> '''</span>
<span class="c1"># Get the absolute path</span>
<span class="n">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">path</span><span class="p">)</span>
<span class="c1"># get all files in the dir and subdir as absolut path</span>
<span class="k">for</span> <span class="n">root</span><span class="p">,</span> <span class="n">dirnames</span><span class="p">,</span> <span class="n">filenames</span> <span class="ow">in</span> <span class="n">os</span><span class="o">.</span><span class="n">walk</span><span class="p">(</span><span class="n">path</span><span class="p">):</span>
<span class="k">for</span> <span class="n">filename</span> <span class="ow">in</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">filter</span><span class="p">(</span><span class="n">filenames</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">pattern</span><span class="p">):</span>
<span class="bp">self</span><span class="o">.</span><span class="n">files</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">root</span><span class="p">,</span> <span class="n">filename</span><span class="p">))</span>
<span class="k">return</span>
<span class="k">def</span> <span class="nf">__str__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
<span class="sd">'''Converts the list of files into a single string.</span>
<span class="sd"> The entries are sepereated by "," sign.</span>
<span class="sd"> Parameters</span>
<span class="sd"> ----------</span>
<span class="sd"> Return</span>
<span class="sd"> ------</span>
<span class="sd"> files_string : :obj:`string`</span><span class="sd"> The content of the list as a single string.</span>
<span class="sd"> '''</span>
<span class="n">filenames</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">basename</span><span class="p">(</span><span class="n">f</span><span class="p">)</span> <span class="k">for</span> <span class="n">f</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">files</span><span class="p">]</span>
<span class="n">files_string</span> <span class="o">=</span> <span class="n">get_list_as_string</span><span class="p">(</span><span class="n">filenames</span><span class="p">,</span> <span class="n">concatenate_sign</span><span class="o">=</span><span class="s1">', '</span><span class="p">)</span>
<span class="k">return</span> <span class="n">files_string</span>
<div class="viewcode-block" id="UioFiles.delete_files"><a class="viewcode-back" href="../api.html#UioFiles.UioFiles.delete_files">[docs]</a> <span class="k">def</span> <span class="nf">delete_files</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
<span class="sd">'''Deletes the files.</span>
<span class="sd"> Parameters</span>
<span class="sd"> ----------</span>
<span class="sd"> Return</span>
<span class="sd"> ------</span>
<span class="sd"> '''</span>
<span class="k">for</span> <span class="n">old_file</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">files</span><span class="p">:</span>
<span class="n">silent_remove</span><span class="p">(</span><span class="n">old_file</span><span class="p">)</span>
<span class="k">return</span></div></div>
</pre></div>
</div>
</div>
<footer>
<hr/>
<div role="contentinfo">
<p>
© Copyright 2018, Anne Philipp and Leopold Haimberger.
</p>
</div>
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>.
</footer>
</div>
</div>
</section>
</div>
<script type="text/javascript">
var DOCUMENTATION_OPTIONS = {
URL_ROOT:'../',
VERSION:'7.1 alpha',
LANGUAGE:'None',
COLLAPSE_INDEX:false,
FILE_SUFFIX:'.html',
HAS_SOURCE: true,
SOURCELINK_SUFFIX: '.txt'
};
</script>
<script type="text/javascript" src="../_static/jquery.js"></script>
<script type="text/javascript" src="../_static/underscore.js"></script>
<script type="text/javascript" src="../_static/doctools.js"></script>
<script type="text/javascript" src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.1/MathJax.js?config=TeX-AMS-MML_HTMLorMML"></script>
<script type="text/javascript" src="../_static/js/theme.js"></script>
<script type="text/javascript">
jQuery(function () {
SphinxRtdTheme.Navigation.enable(true);
});
</script>
</body>
</html>