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<div class="pdoc-code codehilite"><pre><span></span><span id="L-1"><a href="#L-1"><span class="linenos"> 1</span></a><span class="kn">import</span><span class="w"> </span><span class="nn">warnings</span>
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</span><span id="L-2"><a href="#L-2"><span class="linenos"> 2</span></a><span class="kn">import</span><span class="w"> </span><span class="nn">gzip</span>
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</span><span id="L-3"><a href="#L-3"><span class="linenos"> 3</span></a><span class="kn">import</span><span class="w"> </span><span class="nn">sqlite3</span>
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</span><span id="L-4"><a href="#L-4"><span class="linenos"> 4</span></a><span class="kn">import</span><span class="w"> </span><span class="nn">pandas</span><span class="w"> </span><span class="k">as</span><span class="w"> </span><span class="nn">pd</span>
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</span><span id="L-5"><a href="#L-5"><span class="linenos"> 5</span></a><span class="kn">from</span><span class="w"> </span><span class="nn">..obs</span><span class="w"> </span><span class="kn">import</span> <span class="n">Obs</span>
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</span><span id="L-6"><a href="#L-6"><span class="linenos"> 6</span></a><span class="kn">from</span><span class="w"> </span><span class="nn">..correlators</span><span class="w"> </span><span class="kn">import</span> <span class="n">Corr</span>
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</span><span id="L-7"><a href="#L-7"><span class="linenos"> 7</span></a><span class="kn">from</span><span class="w"> </span><span class="nn">.json</span><span class="w"> </span><span class="kn">import</span> <span class="n">create_json_string</span><span class="p">,</span> <span class="n">import_json_string</span>
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</span><span id="L-8"><a href="#L-8"><span class="linenos"> 8</span></a><span class="kn">import</span><span class="w"> </span><span class="nn">numpy</span><span class="w"> </span><span class="k">as</span><span class="w"> </span><span class="nn">np</span>
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</span><span id="L-9"><a href="#L-9"><span class="linenos"> 9</span></a>
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</span><span id="L-4"><a href="#L-4"><span class="linenos"> 4</span></a><span class="kn">from</span><span class="w"> </span><span class="nn">contextlib</span><span class="w"> </span><span class="kn">import</span> <span class="n">closing</span>
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</span><span id="L-5"><a href="#L-5"><span class="linenos"> 5</span></a><span class="kn">import</span><span class="w"> </span><span class="nn">pandas</span><span class="w"> </span><span class="k">as</span><span class="w"> </span><span class="nn">pd</span>
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</span><span id="L-6"><a href="#L-6"><span class="linenos"> 6</span></a><span class="kn">from</span><span class="w"> </span><span class="nn">..obs</span><span class="w"> </span><span class="kn">import</span> <span class="n">Obs</span>
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</span><span id="L-7"><a href="#L-7"><span class="linenos"> 7</span></a><span class="kn">from</span><span class="w"> </span><span class="nn">..correlators</span><span class="w"> </span><span class="kn">import</span> <span class="n">Corr</span>
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</span><span id="L-8"><a href="#L-8"><span class="linenos"> 8</span></a><span class="kn">from</span><span class="w"> </span><span class="nn">.json</span><span class="w"> </span><span class="kn">import</span> <span class="n">create_json_string</span><span class="p">,</span> <span class="n">import_json_string</span>
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</span><span id="L-9"><a href="#L-9"><span class="linenos"> 9</span></a><span class="kn">import</span><span class="w"> </span><span class="nn">numpy</span><span class="w"> </span><span class="k">as</span><span class="w"> </span><span class="nn">np</span>
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</span><span id="L-10"><a href="#L-10"><span class="linenos"> 10</span></a>
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</span><span id="L-11"><a href="#L-11"><span class="linenos"> 11</span></a><span class="k">def</span><span class="w"> </span><span class="nf">to_sql</span><span class="p">(</span><span class="n">df</span><span class="p">,</span> <span class="n">table_name</span><span class="p">,</span> <span class="n">db</span><span class="p">,</span> <span class="n">if_exists</span><span class="o">=</span><span class="s1">'fail'</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
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</span><span id="L-12"><a href="#L-12"><span class="linenos"> 12</span></a><span class="w"> </span><span class="sd">"""Write DataFrame including Obs or Corr valued columns to sqlite database.</span>
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</span><span id="L-13"><a href="#L-13"><span class="linenos"> 13</span></a>
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</span><span id="L-14"><a href="#L-14"><span class="linenos"> 14</span></a><span class="sd"> Parameters</span>
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</span><span id="L-15"><a href="#L-15"><span class="linenos"> 15</span></a><span class="sd"> ----------</span>
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</span><span id="L-16"><a href="#L-16"><span class="linenos"> 16</span></a><span class="sd"> df : pandas.DataFrame</span>
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</span><span id="L-17"><a href="#L-17"><span class="linenos"> 17</span></a><span class="sd"> Dataframe to be written to the database.</span>
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</span><span id="L-18"><a href="#L-18"><span class="linenos"> 18</span></a><span class="sd"> table_name : str</span>
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</span><span id="L-19"><a href="#L-19"><span class="linenos"> 19</span></a><span class="sd"> Name of the table in the database.</span>
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</span><span id="L-20"><a href="#L-20"><span class="linenos"> 20</span></a><span class="sd"> db : str</span>
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</span><span id="L-21"><a href="#L-21"><span class="linenos"> 21</span></a><span class="sd"> Path to the sqlite database.</span>
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</span><span id="L-22"><a href="#L-22"><span class="linenos"> 22</span></a><span class="sd"> if exists : str</span>
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</span><span id="L-23"><a href="#L-23"><span class="linenos"> 23</span></a><span class="sd"> How to behave if table already exists. Options 'fail', 'replace', 'append'.</span>
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</span><span id="L-24"><a href="#L-24"><span class="linenos"> 24</span></a><span class="sd"> gz : bool</span>
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</span><span id="L-25"><a href="#L-25"><span class="linenos"> 25</span></a><span class="sd"> If True the json strings are gzipped.</span>
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</span><span id="L-26"><a href="#L-26"><span class="linenos"> 26</span></a>
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</span><span id="L-27"><a href="#L-27"><span class="linenos"> 27</span></a><span class="sd"> Returns</span>
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</span><span id="L-28"><a href="#L-28"><span class="linenos"> 28</span></a><span class="sd"> -------</span>
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</span><span id="L-29"><a href="#L-29"><span class="linenos"> 29</span></a><span class="sd"> None</span>
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</span><span id="L-30"><a href="#L-30"><span class="linenos"> 30</span></a><span class="sd"> """</span>
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</span><span id="L-31"><a href="#L-31"><span class="linenos"> 31</span></a> <span class="n">se_df</span> <span class="o">=</span> <span class="n">_serialize_df</span><span class="p">(</span><span class="n">df</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="n">gz</span><span class="p">)</span>
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</span><span id="L-32"><a href="#L-32"><span class="linenos"> 32</span></a> <span class="n">con</span> <span class="o">=</span> <span class="n">sqlite3</span><span class="o">.</span><span class="n">connect</span><span class="p">(</span><span class="n">db</span><span class="p">)</span>
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</span><span id="L-33"><a href="#L-33"><span class="linenos"> 33</span></a> <span class="n">se_df</span><span class="o">.</span><span class="n">to_sql</span><span class="p">(</span><span class="n">table_name</span><span class="p">,</span> <span class="n">con</span><span class="p">,</span> <span class="n">if_exists</span><span class="o">=</span><span class="n">if_exists</span><span class="p">,</span> <span class="n">index</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
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</span><span id="L-34"><a href="#L-34"><span class="linenos"> 34</span></a> <span class="n">con</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
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</span><span id="L-11"><a href="#L-11"><span class="linenos"> 11</span></a>
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</span><span id="L-12"><a href="#L-12"><span class="linenos"> 12</span></a><span class="k">def</span><span class="w"> </span><span class="nf">to_sql</span><span class="p">(</span><span class="n">df</span><span class="p">,</span> <span class="n">table_name</span><span class="p">,</span> <span class="n">db</span><span class="p">,</span> <span class="n">if_exists</span><span class="o">=</span><span class="s1">'fail'</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
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</span><span id="L-13"><a href="#L-13"><span class="linenos"> 13</span></a><span class="w"> </span><span class="sd">"""Write DataFrame including Obs or Corr valued columns to sqlite database.</span>
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</span><span id="L-14"><a href="#L-14"><span class="linenos"> 14</span></a>
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</span><span id="L-15"><a href="#L-15"><span class="linenos"> 15</span></a><span class="sd"> Parameters</span>
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</span><span id="L-16"><a href="#L-16"><span class="linenos"> 16</span></a><span class="sd"> ----------</span>
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</span><span id="L-17"><a href="#L-17"><span class="linenos"> 17</span></a><span class="sd"> df : pandas.DataFrame</span>
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</span><span id="L-18"><a href="#L-18"><span class="linenos"> 18</span></a><span class="sd"> Dataframe to be written to the database.</span>
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</span><span id="L-19"><a href="#L-19"><span class="linenos"> 19</span></a><span class="sd"> table_name : str</span>
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</span><span id="L-20"><a href="#L-20"><span class="linenos"> 20</span></a><span class="sd"> Name of the table in the database.</span>
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</span><span id="L-21"><a href="#L-21"><span class="linenos"> 21</span></a><span class="sd"> db : str</span>
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</span><span id="L-22"><a href="#L-22"><span class="linenos"> 22</span></a><span class="sd"> Path to the sqlite database.</span>
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</span><span id="L-23"><a href="#L-23"><span class="linenos"> 23</span></a><span class="sd"> if exists : str</span>
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</span><span id="L-24"><a href="#L-24"><span class="linenos"> 24</span></a><span class="sd"> How to behave if table already exists. Options 'fail', 'replace', 'append'.</span>
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</span><span id="L-25"><a href="#L-25"><span class="linenos"> 25</span></a><span class="sd"> gz : bool</span>
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</span><span id="L-26"><a href="#L-26"><span class="linenos"> 26</span></a><span class="sd"> If True the json strings are gzipped.</span>
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</span><span id="L-27"><a href="#L-27"><span class="linenos"> 27</span></a>
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</span><span id="L-28"><a href="#L-28"><span class="linenos"> 28</span></a><span class="sd"> Returns</span>
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</span><span id="L-29"><a href="#L-29"><span class="linenos"> 29</span></a><span class="sd"> -------</span>
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</span><span id="L-30"><a href="#L-30"><span class="linenos"> 30</span></a><span class="sd"> None</span>
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</span><span id="L-31"><a href="#L-31"><span class="linenos"> 31</span></a><span class="sd"> """</span>
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</span><span id="L-32"><a href="#L-32"><span class="linenos"> 32</span></a> <span class="n">se_df</span> <span class="o">=</span> <span class="n">_serialize_df</span><span class="p">(</span><span class="n">df</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="n">gz</span><span class="p">)</span>
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</span><span id="L-33"><a href="#L-33"><span class="linenos"> 33</span></a> <span class="k">with</span> <span class="n">closing</span><span class="p">(</span><span class="n">sqlite3</span><span class="o">.</span><span class="n">connect</span><span class="p">(</span><span class="n">db</span><span class="p">))</span> <span class="k">as</span> <span class="n">con</span><span class="p">:</span>
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</span><span id="L-34"><a href="#L-34"><span class="linenos"> 34</span></a> <span class="n">se_df</span><span class="o">.</span><span class="n">to_sql</span><span class="p">(</span><span class="n">table_name</span><span class="p">,</span> <span class="n">con</span><span class="o">=</span><span class="n">con</span><span class="p">,</span> <span class="n">if_exists</span><span class="o">=</span><span class="n">if_exists</span><span class="p">,</span> <span class="n">index</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
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</span><span id="L-35"><a href="#L-35"><span class="linenos"> 35</span></a>
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</span><span id="L-36"><a href="#L-36"><span class="linenos"> 36</span></a>
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</span><span id="L-37"><a href="#L-37"><span class="linenos"> 37</span></a><span class="k">def</span><span class="w"> </span><span class="nf">read_sql</span><span class="p">(</span><span class="n">sql</span><span class="p">,</span> <span class="n">db</span><span class="p">,</span> <span class="n">auto_gamma</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
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@ -139,155 +139,154 @@
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</span><span id="L-52"><a href="#L-52"><span class="linenos"> 52</span></a><span class="sd"> data : pandas.DataFrame</span>
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</span><span id="L-53"><a href="#L-53"><span class="linenos"> 53</span></a><span class="sd"> Dataframe with the content of the sqlite database.</span>
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</span><span id="L-54"><a href="#L-54"><span class="linenos"> 54</span></a><span class="sd"> """</span>
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</span><span id="L-55"><a href="#L-55"><span class="linenos"> 55</span></a> <span class="n">con</span> <span class="o">=</span> <span class="n">sqlite3</span><span class="o">.</span><span class="n">connect</span><span class="p">(</span><span class="n">db</span><span class="p">)</span>
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</span><span id="L-56"><a href="#L-56"><span class="linenos"> 56</span></a> <span class="n">extract_df</span> <span class="o">=</span> <span class="n">pd</span><span class="o">.</span><span class="n">read_sql</span><span class="p">(</span><span class="n">sql</span><span class="p">,</span> <span class="n">con</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
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</span><span id="L-57"><a href="#L-57"><span class="linenos"> 57</span></a> <span class="n">con</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
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</span><span id="L-58"><a href="#L-58"><span class="linenos"> 58</span></a> <span class="k">return</span> <span class="n">_deserialize_df</span><span class="p">(</span><span class="n">extract_df</span><span class="p">,</span> <span class="n">auto_gamma</span><span class="o">=</span><span class="n">auto_gamma</span><span class="p">)</span>
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</span><span id="L-55"><a href="#L-55"><span class="linenos"> 55</span></a> <span class="k">with</span> <span class="n">closing</span><span class="p">(</span><span class="n">sqlite3</span><span class="o">.</span><span class="n">connect</span><span class="p">(</span><span class="n">db</span><span class="p">))</span> <span class="k">as</span> <span class="n">con</span><span class="p">:</span>
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</span><span id="L-56"><a href="#L-56"><span class="linenos"> 56</span></a> <span class="n">extract_df</span> <span class="o">=</span> <span class="n">pd</span><span class="o">.</span><span class="n">read_sql</span><span class="p">(</span><span class="n">sql</span><span class="p">,</span> <span class="n">con</span><span class="o">=</span><span class="n">con</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
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</span><span id="L-57"><a href="#L-57"><span class="linenos"> 57</span></a> <span class="k">return</span> <span class="n">_deserialize_df</span><span class="p">(</span><span class="n">extract_df</span><span class="p">,</span> <span class="n">auto_gamma</span><span class="o">=</span><span class="n">auto_gamma</span><span class="p">)</span>
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</span><span id="L-58"><a href="#L-58"><span class="linenos"> 58</span></a>
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</span><span id="L-59"><a href="#L-59"><span class="linenos"> 59</span></a>
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</span><span id="L-60"><a href="#L-60"><span class="linenos"> 60</span></a>
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</span><span id="L-61"><a href="#L-61"><span class="linenos"> 61</span></a><span class="k">def</span><span class="w"> </span><span class="nf">dump_df</span><span class="p">(</span><span class="n">df</span><span class="p">,</span> <span class="n">fname</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
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</span><span id="L-62"><a href="#L-62"><span class="linenos"> 62</span></a><span class="w"> </span><span class="sd">"""Exports a pandas DataFrame containing Obs valued columns to a (gzipped) csv file.</span>
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</span><span id="L-63"><a href="#L-63"><span class="linenos"> 63</span></a>
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</span><span id="L-64"><a href="#L-64"><span class="linenos"> 64</span></a><span class="sd"> Before making use of pandas to_csv functionality Obs objects are serialized via the standardized</span>
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</span><span id="L-65"><a href="#L-65"><span class="linenos"> 65</span></a><span class="sd"> json format of pyerrors.</span>
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</span><span id="L-66"><a href="#L-66"><span class="linenos"> 66</span></a>
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</span><span id="L-67"><a href="#L-67"><span class="linenos"> 67</span></a><span class="sd"> Parameters</span>
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</span><span id="L-68"><a href="#L-68"><span class="linenos"> 68</span></a><span class="sd"> ----------</span>
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</span><span id="L-69"><a href="#L-69"><span class="linenos"> 69</span></a><span class="sd"> df : pandas.DataFrame</span>
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</span><span id="L-70"><a href="#L-70"><span class="linenos"> 70</span></a><span class="sd"> Dataframe to be dumped to a file.</span>
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</span><span id="L-71"><a href="#L-71"><span class="linenos"> 71</span></a><span class="sd"> fname : str</span>
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</span><span id="L-72"><a href="#L-72"><span class="linenos"> 72</span></a><span class="sd"> Filename of the output file.</span>
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</span><span id="L-73"><a href="#L-73"><span class="linenos"> 73</span></a><span class="sd"> gz : bool</span>
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</span><span id="L-74"><a href="#L-74"><span class="linenos"> 74</span></a><span class="sd"> If True, the output is a gzipped csv file. If False, the output is a csv file.</span>
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</span><span id="L-75"><a href="#L-75"><span class="linenos"> 75</span></a>
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</span><span id="L-76"><a href="#L-76"><span class="linenos"> 76</span></a><span class="sd"> Returns</span>
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</span><span id="L-77"><a href="#L-77"><span class="linenos"> 77</span></a><span class="sd"> -------</span>
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</span><span id="L-78"><a href="#L-78"><span class="linenos"> 78</span></a><span class="sd"> None</span>
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</span><span id="L-79"><a href="#L-79"><span class="linenos"> 79</span></a><span class="sd"> """</span>
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</span><span id="L-80"><a href="#L-80"><span class="linenos"> 80</span></a> <span class="k">for</span> <span class="n">column</span> <span class="ow">in</span> <span class="n">df</span><span class="p">:</span>
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</span><span id="L-81"><a href="#L-81"><span class="linenos"> 81</span></a> <span class="n">serialize</span> <span class="o">=</span> <span class="n">_need_to_serialize</span><span class="p">(</span><span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">])</span>
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</span><span id="L-82"><a href="#L-82"><span class="linenos"> 82</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="n">serialize</span><span class="p">:</span>
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</span><span id="L-83"><a href="#L-83"><span class="linenos"> 83</span></a> <span class="k">if</span> <span class="nb">all</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">entry</span><span class="p">,</span> <span class="p">(</span><span class="nb">int</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">integer</span><span class="p">,</span> <span class="nb">float</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">floating</span><span class="p">))</span> <span class="k">for</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">]):</span>
|
||||
</span><span id="L-84"><a href="#L-84"><span class="linenos"> 84</span></a> <span class="k">if</span> <span class="nb">any</span><span class="p">([</span><span class="n">np</span><span class="o">.</span><span class="n">isnan</span><span class="p">(</span><span class="n">entry</span><span class="p">)</span> <span class="k">for</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">]]):</span>
|
||||
</span><span id="L-85"><a href="#L-85"><span class="linenos"> 85</span></a> <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">"nan value in column "</span> <span class="o">+</span> <span class="n">column</span> <span class="o">+</span> <span class="s2">" will be replaced by None"</span><span class="p">,</span> <span class="ne">UserWarning</span><span class="p">)</span>
|
||||
</span><span id="L-86"><a href="#L-86"><span class="linenos"> 86</span></a>
|
||||
</span><span id="L-87"><a href="#L-87"><span class="linenos"> 87</span></a> <span class="n">out</span> <span class="o">=</span> <span class="n">_serialize_df</span><span class="p">(</span><span class="n">df</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">False</span><span class="p">)</span>
|
||||
</span><span id="L-88"><a href="#L-88"><span class="linenos"> 88</span></a>
|
||||
</span><span id="L-89"><a href="#L-89"><span class="linenos"> 89</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">'.csv'</span><span class="p">):</span>
|
||||
</span><span id="L-90"><a href="#L-90"><span class="linenos"> 90</span></a> <span class="n">fname</span> <span class="o">+=</span> <span class="s1">'.csv'</span>
|
||||
</span><span id="L-91"><a href="#L-91"><span class="linenos"> 91</span></a>
|
||||
</span><span id="L-92"><a href="#L-92"><span class="linenos"> 92</span></a> <span class="k">if</span> <span class="n">gz</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
|
||||
</span><span id="L-93"><a href="#L-93"><span class="linenos"> 93</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">'.gz'</span><span class="p">):</span>
|
||||
</span><span id="L-94"><a href="#L-94"><span class="linenos"> 94</span></a> <span class="n">fname</span> <span class="o">+=</span> <span class="s1">'.gz'</span>
|
||||
</span><span id="L-95"><a href="#L-95"><span class="linenos"> 95</span></a> <span class="n">out</span><span class="o">.</span><span class="n">to_csv</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="n">index</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">compression</span><span class="o">=</span><span class="s1">'gzip'</span><span class="p">)</span>
|
||||
</span><span id="L-96"><a href="#L-96"><span class="linenos"> 96</span></a> <span class="k">else</span><span class="p">:</span>
|
||||
</span><span id="L-97"><a href="#L-97"><span class="linenos"> 97</span></a> <span class="n">out</span><span class="o">.</span><span class="n">to_csv</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="n">index</span><span class="o">=</span><span class="kc">False</span><span class="p">)</span>
|
||||
</span><span id="L-60"><a href="#L-60"><span class="linenos"> 60</span></a><span class="k">def</span><span class="w"> </span><span class="nf">dump_df</span><span class="p">(</span><span class="n">df</span><span class="p">,</span> <span class="n">fname</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
|
||||
</span><span id="L-61"><a href="#L-61"><span class="linenos"> 61</span></a><span class="w"> </span><span class="sd">"""Exports a pandas DataFrame containing Obs valued columns to a (gzipped) csv file.</span>
|
||||
</span><span id="L-62"><a href="#L-62"><span class="linenos"> 62</span></a>
|
||||
</span><span id="L-63"><a href="#L-63"><span class="linenos"> 63</span></a><span class="sd"> Before making use of pandas to_csv functionality Obs objects are serialized via the standardized</span>
|
||||
</span><span id="L-64"><a href="#L-64"><span class="linenos"> 64</span></a><span class="sd"> json format of pyerrors.</span>
|
||||
</span><span id="L-65"><a href="#L-65"><span class="linenos"> 65</span></a>
|
||||
</span><span id="L-66"><a href="#L-66"><span class="linenos"> 66</span></a><span class="sd"> Parameters</span>
|
||||
</span><span id="L-67"><a href="#L-67"><span class="linenos"> 67</span></a><span class="sd"> ----------</span>
|
||||
</span><span id="L-68"><a href="#L-68"><span class="linenos"> 68</span></a><span class="sd"> df : pandas.DataFrame</span>
|
||||
</span><span id="L-69"><a href="#L-69"><span class="linenos"> 69</span></a><span class="sd"> Dataframe to be dumped to a file.</span>
|
||||
</span><span id="L-70"><a href="#L-70"><span class="linenos"> 70</span></a><span class="sd"> fname : str</span>
|
||||
</span><span id="L-71"><a href="#L-71"><span class="linenos"> 71</span></a><span class="sd"> Filename of the output file.</span>
|
||||
</span><span id="L-72"><a href="#L-72"><span class="linenos"> 72</span></a><span class="sd"> gz : bool</span>
|
||||
</span><span id="L-73"><a href="#L-73"><span class="linenos"> 73</span></a><span class="sd"> If True, the output is a gzipped csv file. If False, the output is a csv file.</span>
|
||||
</span><span id="L-74"><a href="#L-74"><span class="linenos"> 74</span></a>
|
||||
</span><span id="L-75"><a href="#L-75"><span class="linenos"> 75</span></a><span class="sd"> Returns</span>
|
||||
</span><span id="L-76"><a href="#L-76"><span class="linenos"> 76</span></a><span class="sd"> -------</span>
|
||||
</span><span id="L-77"><a href="#L-77"><span class="linenos"> 77</span></a><span class="sd"> None</span>
|
||||
</span><span id="L-78"><a href="#L-78"><span class="linenos"> 78</span></a><span class="sd"> """</span>
|
||||
</span><span id="L-79"><a href="#L-79"><span class="linenos"> 79</span></a> <span class="k">for</span> <span class="n">column</span> <span class="ow">in</span> <span class="n">df</span><span class="p">:</span>
|
||||
</span><span id="L-80"><a href="#L-80"><span class="linenos"> 80</span></a> <span class="n">serialize</span> <span class="o">=</span> <span class="n">_need_to_serialize</span><span class="p">(</span><span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">])</span>
|
||||
</span><span id="L-81"><a href="#L-81"><span class="linenos"> 81</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="n">serialize</span><span class="p">:</span>
|
||||
</span><span id="L-82"><a href="#L-82"><span class="linenos"> 82</span></a> <span class="k">if</span> <span class="nb">all</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">entry</span><span class="p">,</span> <span class="p">(</span><span class="nb">int</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">integer</span><span class="p">,</span> <span class="nb">float</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">floating</span><span class="p">))</span> <span class="k">for</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">]):</span>
|
||||
</span><span id="L-83"><a href="#L-83"><span class="linenos"> 83</span></a> <span class="k">if</span> <span class="nb">any</span><span class="p">([</span><span class="n">np</span><span class="o">.</span><span class="n">isnan</span><span class="p">(</span><span class="n">entry</span><span class="p">)</span> <span class="k">for</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">]]):</span>
|
||||
</span><span id="L-84"><a href="#L-84"><span class="linenos"> 84</span></a> <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">"nan value in column "</span> <span class="o">+</span> <span class="n">column</span> <span class="o">+</span> <span class="s2">" will be replaced by None"</span><span class="p">,</span> <span class="ne">UserWarning</span><span class="p">)</span>
|
||||
</span><span id="L-85"><a href="#L-85"><span class="linenos"> 85</span></a>
|
||||
</span><span id="L-86"><a href="#L-86"><span class="linenos"> 86</span></a> <span class="n">out</span> <span class="o">=</span> <span class="n">_serialize_df</span><span class="p">(</span><span class="n">df</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">False</span><span class="p">)</span>
|
||||
</span><span id="L-87"><a href="#L-87"><span class="linenos"> 87</span></a>
|
||||
</span><span id="L-88"><a href="#L-88"><span class="linenos"> 88</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">'.csv'</span><span class="p">):</span>
|
||||
</span><span id="L-89"><a href="#L-89"><span class="linenos"> 89</span></a> <span class="n">fname</span> <span class="o">+=</span> <span class="s1">'.csv'</span>
|
||||
</span><span id="L-90"><a href="#L-90"><span class="linenos"> 90</span></a>
|
||||
</span><span id="L-91"><a href="#L-91"><span class="linenos"> 91</span></a> <span class="k">if</span> <span class="n">gz</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
|
||||
</span><span id="L-92"><a href="#L-92"><span class="linenos"> 92</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">'.gz'</span><span class="p">):</span>
|
||||
</span><span id="L-93"><a href="#L-93"><span class="linenos"> 93</span></a> <span class="n">fname</span> <span class="o">+=</span> <span class="s1">'.gz'</span>
|
||||
</span><span id="L-94"><a href="#L-94"><span class="linenos"> 94</span></a> <span class="n">out</span><span class="o">.</span><span class="n">to_csv</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="n">index</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">compression</span><span class="o">=</span><span class="s1">'gzip'</span><span class="p">)</span>
|
||||
</span><span id="L-95"><a href="#L-95"><span class="linenos"> 95</span></a> <span class="k">else</span><span class="p">:</span>
|
||||
</span><span id="L-96"><a href="#L-96"><span class="linenos"> 96</span></a> <span class="n">out</span><span class="o">.</span><span class="n">to_csv</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="n">index</span><span class="o">=</span><span class="kc">False</span><span class="p">)</span>
|
||||
</span><span id="L-97"><a href="#L-97"><span class="linenos"> 97</span></a>
|
||||
</span><span id="L-98"><a href="#L-98"><span class="linenos"> 98</span></a>
|
||||
</span><span id="L-99"><a href="#L-99"><span class="linenos"> 99</span></a>
|
||||
</span><span id="L-100"><a href="#L-100"><span class="linenos">100</span></a><span class="k">def</span><span class="w"> </span><span class="nf">load_df</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="n">auto_gamma</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
|
||||
</span><span id="L-101"><a href="#L-101"><span class="linenos">101</span></a><span class="w"> </span><span class="sd">"""Imports a pandas DataFrame from a csv.(gz) file in which Obs objects are serialized as json strings.</span>
|
||||
</span><span id="L-102"><a href="#L-102"><span class="linenos">102</span></a>
|
||||
</span><span id="L-103"><a href="#L-103"><span class="linenos">103</span></a><span class="sd"> Parameters</span>
|
||||
</span><span id="L-104"><a href="#L-104"><span class="linenos">104</span></a><span class="sd"> ----------</span>
|
||||
</span><span id="L-105"><a href="#L-105"><span class="linenos">105</span></a><span class="sd"> fname : str</span>
|
||||
</span><span id="L-106"><a href="#L-106"><span class="linenos">106</span></a><span class="sd"> Filename of the input file.</span>
|
||||
</span><span id="L-107"><a href="#L-107"><span class="linenos">107</span></a><span class="sd"> auto_gamma : bool</span>
|
||||
</span><span id="L-108"><a href="#L-108"><span class="linenos">108</span></a><span class="sd"> If True applies the gamma_method to all imported Obs objects with the default parameters for</span>
|
||||
</span><span id="L-109"><a href="#L-109"><span class="linenos">109</span></a><span class="sd"> the error analysis. Default False.</span>
|
||||
</span><span id="L-110"><a href="#L-110"><span class="linenos">110</span></a><span class="sd"> gz : bool</span>
|
||||
</span><span id="L-111"><a href="#L-111"><span class="linenos">111</span></a><span class="sd"> If True, assumes that data is gzipped. If False, assumes JSON file.</span>
|
||||
</span><span id="L-112"><a href="#L-112"><span class="linenos">112</span></a>
|
||||
</span><span id="L-113"><a href="#L-113"><span class="linenos">113</span></a><span class="sd"> Returns</span>
|
||||
</span><span id="L-114"><a href="#L-114"><span class="linenos">114</span></a><span class="sd"> -------</span>
|
||||
</span><span id="L-115"><a href="#L-115"><span class="linenos">115</span></a><span class="sd"> data : pandas.DataFrame</span>
|
||||
</span><span id="L-116"><a href="#L-116"><span class="linenos">116</span></a><span class="sd"> Dataframe with the content of the sqlite database.</span>
|
||||
</span><span id="L-117"><a href="#L-117"><span class="linenos">117</span></a><span class="sd"> """</span>
|
||||
</span><span id="L-118"><a href="#L-118"><span class="linenos">118</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">'.csv'</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">'.gz'</span><span class="p">):</span>
|
||||
</span><span id="L-119"><a href="#L-119"><span class="linenos">119</span></a> <span class="n">fname</span> <span class="o">+=</span> <span class="s1">'.csv'</span>
|
||||
</span><span id="L-120"><a href="#L-120"><span class="linenos">120</span></a>
|
||||
</span><span id="L-121"><a href="#L-121"><span class="linenos">121</span></a> <span class="k">if</span> <span class="n">gz</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
|
||||
</span><span id="L-122"><a href="#L-122"><span class="linenos">122</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">'.gz'</span><span class="p">):</span>
|
||||
</span><span id="L-123"><a href="#L-123"><span class="linenos">123</span></a> <span class="n">fname</span> <span class="o">+=</span> <span class="s1">'.gz'</span>
|
||||
</span><span id="L-124"><a href="#L-124"><span class="linenos">124</span></a> <span class="k">with</span> <span class="n">gzip</span><span class="o">.</span><span class="n">open</span><span class="p">(</span><span class="n">fname</span><span class="p">)</span> <span class="k">as</span> <span class="n">f</span><span class="p">:</span>
|
||||
</span><span id="L-125"><a href="#L-125"><span class="linenos">125</span></a> <span class="n">re_import</span> <span class="o">=</span> <span class="n">pd</span><span class="o">.</span><span class="n">read_csv</span><span class="p">(</span><span class="n">f</span><span class="p">,</span> <span class="n">keep_default_na</span><span class="o">=</span><span class="kc">False</span><span class="p">)</span>
|
||||
</span><span id="L-126"><a href="#L-126"><span class="linenos">126</span></a> <span class="k">else</span><span class="p">:</span>
|
||||
</span><span id="L-127"><a href="#L-127"><span class="linenos">127</span></a> <span class="k">if</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">'.gz'</span><span class="p">):</span>
|
||||
</span><span id="L-128"><a href="#L-128"><span class="linenos">128</span></a> <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">"Trying to read from </span><span class="si">%s</span><span class="s2"> without unzipping!"</span> <span class="o">%</span> <span class="n">fname</span><span class="p">,</span> <span class="ne">UserWarning</span><span class="p">)</span>
|
||||
</span><span id="L-129"><a href="#L-129"><span class="linenos">129</span></a> <span class="n">re_import</span> <span class="o">=</span> <span class="n">pd</span><span class="o">.</span><span class="n">read_csv</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="n">keep_default_na</span><span class="o">=</span><span class="kc">False</span><span class="p">)</span>
|
||||
</span><span id="L-130"><a href="#L-130"><span class="linenos">130</span></a>
|
||||
</span><span id="L-131"><a href="#L-131"><span class="linenos">131</span></a> <span class="k">return</span> <span class="n">_deserialize_df</span><span class="p">(</span><span class="n">re_import</span><span class="p">,</span> <span class="n">auto_gamma</span><span class="o">=</span><span class="n">auto_gamma</span><span class="p">)</span>
|
||||
</span><span id="L-99"><a href="#L-99"><span class="linenos"> 99</span></a><span class="k">def</span><span class="w"> </span><span class="nf">load_df</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="n">auto_gamma</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
|
||||
</span><span id="L-100"><a href="#L-100"><span class="linenos">100</span></a><span class="w"> </span><span class="sd">"""Imports a pandas DataFrame from a csv.(gz) file in which Obs objects are serialized as json strings.</span>
|
||||
</span><span id="L-101"><a href="#L-101"><span class="linenos">101</span></a>
|
||||
</span><span id="L-102"><a href="#L-102"><span class="linenos">102</span></a><span class="sd"> Parameters</span>
|
||||
</span><span id="L-103"><a href="#L-103"><span class="linenos">103</span></a><span class="sd"> ----------</span>
|
||||
</span><span id="L-104"><a href="#L-104"><span class="linenos">104</span></a><span class="sd"> fname : str</span>
|
||||
</span><span id="L-105"><a href="#L-105"><span class="linenos">105</span></a><span class="sd"> Filename of the input file.</span>
|
||||
</span><span id="L-106"><a href="#L-106"><span class="linenos">106</span></a><span class="sd"> auto_gamma : bool</span>
|
||||
</span><span id="L-107"><a href="#L-107"><span class="linenos">107</span></a><span class="sd"> If True applies the gamma_method to all imported Obs objects with the default parameters for</span>
|
||||
</span><span id="L-108"><a href="#L-108"><span class="linenos">108</span></a><span class="sd"> the error analysis. Default False.</span>
|
||||
</span><span id="L-109"><a href="#L-109"><span class="linenos">109</span></a><span class="sd"> gz : bool</span>
|
||||
</span><span id="L-110"><a href="#L-110"><span class="linenos">110</span></a><span class="sd"> If True, assumes that data is gzipped. If False, assumes JSON file.</span>
|
||||
</span><span id="L-111"><a href="#L-111"><span class="linenos">111</span></a>
|
||||
</span><span id="L-112"><a href="#L-112"><span class="linenos">112</span></a><span class="sd"> Returns</span>
|
||||
</span><span id="L-113"><a href="#L-113"><span class="linenos">113</span></a><span class="sd"> -------</span>
|
||||
</span><span id="L-114"><a href="#L-114"><span class="linenos">114</span></a><span class="sd"> data : pandas.DataFrame</span>
|
||||
</span><span id="L-115"><a href="#L-115"><span class="linenos">115</span></a><span class="sd"> Dataframe with the content of the sqlite database.</span>
|
||||
</span><span id="L-116"><a href="#L-116"><span class="linenos">116</span></a><span class="sd"> """</span>
|
||||
</span><span id="L-117"><a href="#L-117"><span class="linenos">117</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">'.csv'</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">'.gz'</span><span class="p">):</span>
|
||||
</span><span id="L-118"><a href="#L-118"><span class="linenos">118</span></a> <span class="n">fname</span> <span class="o">+=</span> <span class="s1">'.csv'</span>
|
||||
</span><span id="L-119"><a href="#L-119"><span class="linenos">119</span></a>
|
||||
</span><span id="L-120"><a href="#L-120"><span class="linenos">120</span></a> <span class="k">if</span> <span class="n">gz</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
|
||||
</span><span id="L-121"><a href="#L-121"><span class="linenos">121</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">'.gz'</span><span class="p">):</span>
|
||||
</span><span id="L-122"><a href="#L-122"><span class="linenos">122</span></a> <span class="n">fname</span> <span class="o">+=</span> <span class="s1">'.gz'</span>
|
||||
</span><span id="L-123"><a href="#L-123"><span class="linenos">123</span></a> <span class="k">with</span> <span class="n">gzip</span><span class="o">.</span><span class="n">open</span><span class="p">(</span><span class="n">fname</span><span class="p">)</span> <span class="k">as</span> <span class="n">f</span><span class="p">:</span>
|
||||
</span><span id="L-124"><a href="#L-124"><span class="linenos">124</span></a> <span class="n">re_import</span> <span class="o">=</span> <span class="n">pd</span><span class="o">.</span><span class="n">read_csv</span><span class="p">(</span><span class="n">f</span><span class="p">,</span> <span class="n">keep_default_na</span><span class="o">=</span><span class="kc">False</span><span class="p">)</span>
|
||||
</span><span id="L-125"><a href="#L-125"><span class="linenos">125</span></a> <span class="k">else</span><span class="p">:</span>
|
||||
</span><span id="L-126"><a href="#L-126"><span class="linenos">126</span></a> <span class="k">if</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">'.gz'</span><span class="p">):</span>
|
||||
</span><span id="L-127"><a href="#L-127"><span class="linenos">127</span></a> <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">"Trying to read from </span><span class="si">%s</span><span class="s2"> without unzipping!"</span> <span class="o">%</span> <span class="n">fname</span><span class="p">,</span> <span class="ne">UserWarning</span><span class="p">)</span>
|
||||
</span><span id="L-128"><a href="#L-128"><span class="linenos">128</span></a> <span class="n">re_import</span> <span class="o">=</span> <span class="n">pd</span><span class="o">.</span><span class="n">read_csv</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="n">keep_default_na</span><span class="o">=</span><span class="kc">False</span><span class="p">)</span>
|
||||
</span><span id="L-129"><a href="#L-129"><span class="linenos">129</span></a>
|
||||
</span><span id="L-130"><a href="#L-130"><span class="linenos">130</span></a> <span class="k">return</span> <span class="n">_deserialize_df</span><span class="p">(</span><span class="n">re_import</span><span class="p">,</span> <span class="n">auto_gamma</span><span class="o">=</span><span class="n">auto_gamma</span><span class="p">)</span>
|
||||
</span><span id="L-131"><a href="#L-131"><span class="linenos">131</span></a>
|
||||
</span><span id="L-132"><a href="#L-132"><span class="linenos">132</span></a>
|
||||
</span><span id="L-133"><a href="#L-133"><span class="linenos">133</span></a>
|
||||
</span><span id="L-134"><a href="#L-134"><span class="linenos">134</span></a><span class="k">def</span><span class="w"> </span><span class="nf">_serialize_df</span><span class="p">(</span><span class="n">df</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">False</span><span class="p">):</span>
|
||||
</span><span id="L-135"><a href="#L-135"><span class="linenos">135</span></a><span class="w"> </span><span class="sd">"""Serializes all Obs or Corr valued columns into json strings according to the pyerrors json specification.</span>
|
||||
</span><span id="L-136"><a href="#L-136"><span class="linenos">136</span></a>
|
||||
</span><span id="L-137"><a href="#L-137"><span class="linenos">137</span></a><span class="sd"> Parameters</span>
|
||||
</span><span id="L-138"><a href="#L-138"><span class="linenos">138</span></a><span class="sd"> ----------</span>
|
||||
</span><span id="L-139"><a href="#L-139"><span class="linenos">139</span></a><span class="sd"> df : pandas.DataFrame</span>
|
||||
</span><span id="L-140"><a href="#L-140"><span class="linenos">140</span></a><span class="sd"> DataFrame to be serilized.</span>
|
||||
</span><span id="L-141"><a href="#L-141"><span class="linenos">141</span></a><span class="sd"> gz: bool</span>
|
||||
</span><span id="L-142"><a href="#L-142"><span class="linenos">142</span></a><span class="sd"> gzip the json string representation. Default False.</span>
|
||||
</span><span id="L-143"><a href="#L-143"><span class="linenos">143</span></a><span class="sd"> """</span>
|
||||
</span><span id="L-144"><a href="#L-144"><span class="linenos">144</span></a> <span class="n">out</span> <span class="o">=</span> <span class="n">df</span><span class="o">.</span><span class="n">copy</span><span class="p">()</span>
|
||||
</span><span id="L-145"><a href="#L-145"><span class="linenos">145</span></a> <span class="k">for</span> <span class="n">column</span> <span class="ow">in</span> <span class="n">out</span><span class="p">:</span>
|
||||
</span><span id="L-146"><a href="#L-146"><span class="linenos">146</span></a> <span class="n">serialize</span> <span class="o">=</span> <span class="n">_need_to_serialize</span><span class="p">(</span><span class="n">out</span><span class="p">[</span><span class="n">column</span><span class="p">])</span>
|
||||
</span><span id="L-147"><a href="#L-147"><span class="linenos">147</span></a>
|
||||
</span><span id="L-148"><a href="#L-148"><span class="linenos">148</span></a> <span class="k">if</span> <span class="n">serialize</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
|
||||
</span><span id="L-149"><a href="#L-149"><span class="linenos">149</span></a> <span class="n">out</span><span class="p">[</span><span class="n">column</span><span class="p">]</span> <span class="o">=</span> <span class="n">out</span><span class="p">[</span><span class="n">column</span><span class="p">]</span><span class="o">.</span><span class="n">transform</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">create_json_string</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">indent</span><span class="o">=</span><span class="mi">0</span><span class="p">)</span> <span class="k">if</span> <span class="n">x</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="k">else</span> <span class="kc">None</span><span class="p">)</span>
|
||||
</span><span id="L-150"><a href="#L-150"><span class="linenos">150</span></a> <span class="k">if</span> <span class="n">gz</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
|
||||
</span><span id="L-151"><a href="#L-151"><span class="linenos">151</span></a> <span class="n">out</span><span class="p">[</span><span class="n">column</span><span class="p">]</span> <span class="o">=</span> <span class="n">out</span><span class="p">[</span><span class="n">column</span><span class="p">]</span><span class="o">.</span><span class="n">transform</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">gzip</span><span class="o">.</span><span class="n">compress</span><span class="p">((</span><span class="n">x</span> <span class="k">if</span> <span class="n">x</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="k">else</span> <span class="s1">''</span><span class="p">)</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">'utf-8'</span><span class="p">)))</span>
|
||||
</span><span id="L-152"><a href="#L-152"><span class="linenos">152</span></a> <span class="k">return</span> <span class="n">out</span>
|
||||
</span><span id="L-133"><a href="#L-133"><span class="linenos">133</span></a><span class="k">def</span><span class="w"> </span><span class="nf">_serialize_df</span><span class="p">(</span><span class="n">df</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">False</span><span class="p">):</span>
|
||||
</span><span id="L-134"><a href="#L-134"><span class="linenos">134</span></a><span class="w"> </span><span class="sd">"""Serializes all Obs or Corr valued columns into json strings according to the pyerrors json specification.</span>
|
||||
</span><span id="L-135"><a href="#L-135"><span class="linenos">135</span></a>
|
||||
</span><span id="L-136"><a href="#L-136"><span class="linenos">136</span></a><span class="sd"> Parameters</span>
|
||||
</span><span id="L-137"><a href="#L-137"><span class="linenos">137</span></a><span class="sd"> ----------</span>
|
||||
</span><span id="L-138"><a href="#L-138"><span class="linenos">138</span></a><span class="sd"> df : pandas.DataFrame</span>
|
||||
</span><span id="L-139"><a href="#L-139"><span class="linenos">139</span></a><span class="sd"> DataFrame to be serilized.</span>
|
||||
</span><span id="L-140"><a href="#L-140"><span class="linenos">140</span></a><span class="sd"> gz: bool</span>
|
||||
</span><span id="L-141"><a href="#L-141"><span class="linenos">141</span></a><span class="sd"> gzip the json string representation. Default False.</span>
|
||||
</span><span id="L-142"><a href="#L-142"><span class="linenos">142</span></a><span class="sd"> """</span>
|
||||
</span><span id="L-143"><a href="#L-143"><span class="linenos">143</span></a> <span class="n">out</span> <span class="o">=</span> <span class="n">df</span><span class="o">.</span><span class="n">copy</span><span class="p">()</span>
|
||||
</span><span id="L-144"><a href="#L-144"><span class="linenos">144</span></a> <span class="k">for</span> <span class="n">column</span> <span class="ow">in</span> <span class="n">out</span><span class="p">:</span>
|
||||
</span><span id="L-145"><a href="#L-145"><span class="linenos">145</span></a> <span class="n">serialize</span> <span class="o">=</span> <span class="n">_need_to_serialize</span><span class="p">(</span><span class="n">out</span><span class="p">[</span><span class="n">column</span><span class="p">])</span>
|
||||
</span><span id="L-146"><a href="#L-146"><span class="linenos">146</span></a>
|
||||
</span><span id="L-147"><a href="#L-147"><span class="linenos">147</span></a> <span class="k">if</span> <span class="n">serialize</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
|
||||
</span><span id="L-148"><a href="#L-148"><span class="linenos">148</span></a> <span class="n">out</span><span class="p">[</span><span class="n">column</span><span class="p">]</span> <span class="o">=</span> <span class="n">out</span><span class="p">[</span><span class="n">column</span><span class="p">]</span><span class="o">.</span><span class="n">transform</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">create_json_string</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">indent</span><span class="o">=</span><span class="mi">0</span><span class="p">)</span> <span class="k">if</span> <span class="n">x</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="k">else</span> <span class="kc">None</span><span class="p">)</span>
|
||||
</span><span id="L-149"><a href="#L-149"><span class="linenos">149</span></a> <span class="k">if</span> <span class="n">gz</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
|
||||
</span><span id="L-150"><a href="#L-150"><span class="linenos">150</span></a> <span class="n">out</span><span class="p">[</span><span class="n">column</span><span class="p">]</span> <span class="o">=</span> <span class="n">out</span><span class="p">[</span><span class="n">column</span><span class="p">]</span><span class="o">.</span><span class="n">transform</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">gzip</span><span class="o">.</span><span class="n">compress</span><span class="p">((</span><span class="n">x</span> <span class="k">if</span> <span class="n">x</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="k">else</span> <span class="s1">''</span><span class="p">)</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">'utf-8'</span><span class="p">)))</span>
|
||||
</span><span id="L-151"><a href="#L-151"><span class="linenos">151</span></a> <span class="k">return</span> <span class="n">out</span>
|
||||
</span><span id="L-152"><a href="#L-152"><span class="linenos">152</span></a>
|
||||
</span><span id="L-153"><a href="#L-153"><span class="linenos">153</span></a>
|
||||
</span><span id="L-154"><a href="#L-154"><span class="linenos">154</span></a>
|
||||
</span><span id="L-155"><a href="#L-155"><span class="linenos">155</span></a><span class="k">def</span><span class="w"> </span><span class="nf">_deserialize_df</span><span class="p">(</span><span class="n">df</span><span class="p">,</span> <span class="n">auto_gamma</span><span class="o">=</span><span class="kc">False</span><span class="p">):</span>
|
||||
</span><span id="L-156"><a href="#L-156"><span class="linenos">156</span></a><span class="w"> </span><span class="sd">"""Deserializes all pyerrors json strings into Obs or Corr objects according to the pyerrors json specification.</span>
|
||||
</span><span id="L-157"><a href="#L-157"><span class="linenos">157</span></a>
|
||||
</span><span id="L-158"><a href="#L-158"><span class="linenos">158</span></a><span class="sd"> Parameters</span>
|
||||
</span><span id="L-159"><a href="#L-159"><span class="linenos">159</span></a><span class="sd"> ----------</span>
|
||||
</span><span id="L-160"><a href="#L-160"><span class="linenos">160</span></a><span class="sd"> df : pandas.DataFrame</span>
|
||||
</span><span id="L-161"><a href="#L-161"><span class="linenos">161</span></a><span class="sd"> DataFrame to be deserilized.</span>
|
||||
</span><span id="L-162"><a href="#L-162"><span class="linenos">162</span></a><span class="sd"> auto_gamma : bool</span>
|
||||
</span><span id="L-163"><a href="#L-163"><span class="linenos">163</span></a><span class="sd"> If True applies the gamma_method to all imported Obs objects with the default parameters for</span>
|
||||
</span><span id="L-164"><a href="#L-164"><span class="linenos">164</span></a><span class="sd"> the error analysis. Default False.</span>
|
||||
</span><span id="L-165"><a href="#L-165"><span class="linenos">165</span></a>
|
||||
</span><span id="L-166"><a href="#L-166"><span class="linenos">166</span></a><span class="sd"> Notes:</span>
|
||||
</span><span id="L-167"><a href="#L-167"><span class="linenos">167</span></a><span class="sd"> ------</span>
|
||||
</span><span id="L-168"><a href="#L-168"><span class="linenos">168</span></a><span class="sd"> In case any column of the DataFrame is gzipped it is gunzipped in the process.</span>
|
||||
</span><span id="L-169"><a href="#L-169"><span class="linenos">169</span></a><span class="sd"> """</span>
|
||||
</span><span id="L-170"><a href="#L-170"><span class="linenos">170</span></a> <span class="k">for</span> <span class="n">column</span> <span class="ow">in</span> <span class="n">df</span><span class="o">.</span><span class="n">select_dtypes</span><span class="p">(</span><span class="n">include</span><span class="o">=</span><span class="s2">"object"</span><span class="p">):</span>
|
||||
</span><span id="L-171"><a href="#L-171"><span class="linenos">171</span></a> <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="nb">bytes</span><span class="p">):</span>
|
||||
</span><span id="L-172"><a href="#L-172"><span class="linenos">172</span></a> <span class="k">if</span> <span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">startswith</span><span class="p">(</span><span class="sa">b</span><span class="s2">"</span><span class="se">\x1f\x8b\x08\x00</span><span class="s2">"</span><span class="p">):</span>
|
||||
</span><span id="L-173"><a href="#L-173"><span class="linenos">173</span></a> <span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">]</span> <span class="o">=</span> <span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">]</span><span class="o">.</span><span class="n">transform</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">gzip</span><span class="o">.</span><span class="n">decompress</span><span class="p">(</span><span class="n">x</span><span class="p">)</span><span class="o">.</span><span class="n">decode</span><span class="p">(</span><span class="s1">'utf-8'</span><span class="p">))</span>
|
||||
</span><span id="L-174"><a href="#L-174"><span class="linenos">174</span></a>
|
||||
</span><span id="L-175"><a href="#L-175"><span class="linenos">175</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="nb">all</span><span class="p">([</span><span class="n">e</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">e</span> <span class="ow">in</span> <span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">]]):</span>
|
||||
</span><span id="L-176"><a href="#L-176"><span class="linenos">176</span></a> <span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">]</span> <span class="o">=</span> <span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">]</span><span class="o">.</span><span class="n">replace</span><span class="p">({</span><span class="sa">r</span><span class="s1">'^$'</span><span class="p">:</span> <span class="kc">None</span><span class="p">},</span> <span class="n">regex</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
|
||||
</span><span id="L-177"><a href="#L-177"><span class="linenos">177</span></a> <span class="n">i</span> <span class="o">=</span> <span class="mi">0</span>
|
||||
</span><span id="L-178"><a href="#L-178"><span class="linenos">178</span></a> <span class="k">while</span> <span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">][</span><span class="n">i</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
|
||||
</span><span id="L-179"><a href="#L-179"><span class="linenos">179</span></a> <span class="n">i</span> <span class="o">+=</span> <span class="mi">1</span>
|
||||
</span><span id="L-180"><a href="#L-180"><span class="linenos">180</span></a> <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">][</span><span class="n">i</span><span class="p">],</span> <span class="nb">str</span><span class="p">):</span>
|
||||
</span><span id="L-181"><a href="#L-181"><span class="linenos">181</span></a> <span class="k">if</span> <span class="s1">'"program":'</span> <span class="ow">in</span> <span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">][</span><span class="n">i</span><span class="p">][:</span><span class="mi">20</span><span class="p">]:</span>
|
||||
</span><span id="L-182"><a href="#L-182"><span class="linenos">182</span></a> <span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">]</span> <span class="o">=</span> <span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">]</span><span class="o">.</span><span class="n">transform</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">import_json_string</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">verbose</span><span class="o">=</span><span class="kc">False</span><span class="p">)</span> <span class="k">if</span> <span class="n">x</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="k">else</span> <span class="kc">None</span><span class="p">)</span>
|
||||
</span><span id="L-183"><a href="#L-183"><span class="linenos">183</span></a> <span class="k">if</span> <span class="n">auto_gamma</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
|
||||
</span><span id="L-184"><a href="#L-184"><span class="linenos">184</span></a> <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">][</span><span class="n">i</span><span class="p">],</span> <span class="nb">list</span><span class="p">):</span>
|
||||
</span><span id="L-185"><a href="#L-185"><span class="linenos">185</span></a> <span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">]</span><span class="o">.</span><span class="n">apply</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">gm</span><span class="p">()</span> <span class="k">if</span> <span class="n">o</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="k">else</span> <span class="n">x</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">x</span><span class="p">])</span>
|
||||
</span><span id="L-186"><a href="#L-186"><span class="linenos">186</span></a> <span class="k">else</span><span class="p">:</span>
|
||||
</span><span id="L-187"><a href="#L-187"><span class="linenos">187</span></a> <span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">]</span><span class="o">.</span><span class="n">apply</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">x</span><span class="o">.</span><span class="n">gm</span><span class="p">()</span> <span class="k">if</span> <span class="n">x</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="k">else</span> <span class="n">x</span><span class="p">)</span>
|
||||
</span><span id="L-188"><a href="#L-188"><span class="linenos">188</span></a> <span class="k">return</span> <span class="n">df</span>
|
||||
</span><span id="L-154"><a href="#L-154"><span class="linenos">154</span></a><span class="k">def</span><span class="w"> </span><span class="nf">_deserialize_df</span><span class="p">(</span><span class="n">df</span><span class="p">,</span> <span class="n">auto_gamma</span><span class="o">=</span><span class="kc">False</span><span class="p">):</span>
|
||||
</span><span id="L-155"><a href="#L-155"><span class="linenos">155</span></a><span class="w"> </span><span class="sd">"""Deserializes all pyerrors json strings into Obs or Corr objects according to the pyerrors json specification.</span>
|
||||
</span><span id="L-156"><a href="#L-156"><span class="linenos">156</span></a>
|
||||
</span><span id="L-157"><a href="#L-157"><span class="linenos">157</span></a><span class="sd"> Parameters</span>
|
||||
</span><span id="L-158"><a href="#L-158"><span class="linenos">158</span></a><span class="sd"> ----------</span>
|
||||
</span><span id="L-159"><a href="#L-159"><span class="linenos">159</span></a><span class="sd"> df : pandas.DataFrame</span>
|
||||
</span><span id="L-160"><a href="#L-160"><span class="linenos">160</span></a><span class="sd"> DataFrame to be deserilized.</span>
|
||||
</span><span id="L-161"><a href="#L-161"><span class="linenos">161</span></a><span class="sd"> auto_gamma : bool</span>
|
||||
</span><span id="L-162"><a href="#L-162"><span class="linenos">162</span></a><span class="sd"> If True applies the gamma_method to all imported Obs objects with the default parameters for</span>
|
||||
</span><span id="L-163"><a href="#L-163"><span class="linenos">163</span></a><span class="sd"> the error analysis. Default False.</span>
|
||||
</span><span id="L-164"><a href="#L-164"><span class="linenos">164</span></a>
|
||||
</span><span id="L-165"><a href="#L-165"><span class="linenos">165</span></a><span class="sd"> Notes:</span>
|
||||
</span><span id="L-166"><a href="#L-166"><span class="linenos">166</span></a><span class="sd"> ------</span>
|
||||
</span><span id="L-167"><a href="#L-167"><span class="linenos">167</span></a><span class="sd"> In case any column of the DataFrame is gzipped it is gunzipped in the process.</span>
|
||||
</span><span id="L-168"><a href="#L-168"><span class="linenos">168</span></a><span class="sd"> """</span>
|
||||
</span><span id="L-169"><a href="#L-169"><span class="linenos">169</span></a> <span class="k">for</span> <span class="n">column</span> <span class="ow">in</span> <span class="n">df</span><span class="o">.</span><span class="n">select_dtypes</span><span class="p">(</span><span class="n">include</span><span class="o">=</span><span class="s2">"object"</span><span class="p">):</span>
|
||||
</span><span id="L-170"><a href="#L-170"><span class="linenos">170</span></a> <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="nb">bytes</span><span class="p">):</span>
|
||||
</span><span id="L-171"><a href="#L-171"><span class="linenos">171</span></a> <span class="k">if</span> <span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">startswith</span><span class="p">(</span><span class="sa">b</span><span class="s2">"</span><span class="se">\x1f\x8b\x08\x00</span><span class="s2">"</span><span class="p">):</span>
|
||||
</span><span id="L-172"><a href="#L-172"><span class="linenos">172</span></a> <span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">]</span> <span class="o">=</span> <span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">]</span><span class="o">.</span><span class="n">transform</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">gzip</span><span class="o">.</span><span class="n">decompress</span><span class="p">(</span><span class="n">x</span><span class="p">)</span><span class="o">.</span><span class="n">decode</span><span class="p">(</span><span class="s1">'utf-8'</span><span class="p">))</span>
|
||||
</span><span id="L-173"><a href="#L-173"><span class="linenos">173</span></a>
|
||||
</span><span id="L-174"><a href="#L-174"><span class="linenos">174</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="nb">all</span><span class="p">([</span><span class="n">e</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">e</span> <span class="ow">in</span> <span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">]]):</span>
|
||||
</span><span id="L-175"><a href="#L-175"><span class="linenos">175</span></a> <span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">]</span> <span class="o">=</span> <span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">]</span><span class="o">.</span><span class="n">replace</span><span class="p">({</span><span class="sa">r</span><span class="s1">'^$'</span><span class="p">:</span> <span class="kc">None</span><span class="p">},</span> <span class="n">regex</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
|
||||
</span><span id="L-176"><a href="#L-176"><span class="linenos">176</span></a> <span class="n">i</span> <span class="o">=</span> <span class="mi">0</span>
|
||||
</span><span id="L-177"><a href="#L-177"><span class="linenos">177</span></a> <span class="k">while</span> <span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">][</span><span class="n">i</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
|
||||
</span><span id="L-178"><a href="#L-178"><span class="linenos">178</span></a> <span class="n">i</span> <span class="o">+=</span> <span class="mi">1</span>
|
||||
</span><span id="L-179"><a href="#L-179"><span class="linenos">179</span></a> <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">][</span><span class="n">i</span><span class="p">],</span> <span class="nb">str</span><span class="p">):</span>
|
||||
</span><span id="L-180"><a href="#L-180"><span class="linenos">180</span></a> <span class="k">if</span> <span class="s1">'"program":'</span> <span class="ow">in</span> <span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">][</span><span class="n">i</span><span class="p">][:</span><span class="mi">20</span><span class="p">]:</span>
|
||||
</span><span id="L-181"><a href="#L-181"><span class="linenos">181</span></a> <span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">]</span> <span class="o">=</span> <span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">]</span><span class="o">.</span><span class="n">transform</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">import_json_string</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">verbose</span><span class="o">=</span><span class="kc">False</span><span class="p">)</span> <span class="k">if</span> <span class="n">x</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="k">else</span> <span class="kc">None</span><span class="p">)</span>
|
||||
</span><span id="L-182"><a href="#L-182"><span class="linenos">182</span></a> <span class="k">if</span> <span class="n">auto_gamma</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
|
||||
</span><span id="L-183"><a href="#L-183"><span class="linenos">183</span></a> <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">][</span><span class="n">i</span><span class="p">],</span> <span class="nb">list</span><span class="p">):</span>
|
||||
</span><span id="L-184"><a href="#L-184"><span class="linenos">184</span></a> <span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">]</span><span class="o">.</span><span class="n">apply</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">gm</span><span class="p">()</span> <span class="k">if</span> <span class="n">o</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="k">else</span> <span class="n">x</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">x</span><span class="p">])</span>
|
||||
</span><span id="L-185"><a href="#L-185"><span class="linenos">185</span></a> <span class="k">else</span><span class="p">:</span>
|
||||
</span><span id="L-186"><a href="#L-186"><span class="linenos">186</span></a> <span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">]</span><span class="o">.</span><span class="n">apply</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">x</span><span class="o">.</span><span class="n">gm</span><span class="p">()</span> <span class="k">if</span> <span class="n">x</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="k">else</span> <span class="n">x</span><span class="p">)</span>
|
||||
</span><span id="L-187"><a href="#L-187"><span class="linenos">187</span></a> <span class="k">return</span> <span class="n">df</span>
|
||||
</span><span id="L-188"><a href="#L-188"><span class="linenos">188</span></a>
|
||||
</span><span id="L-189"><a href="#L-189"><span class="linenos">189</span></a>
|
||||
</span><span id="L-190"><a href="#L-190"><span class="linenos">190</span></a>
|
||||
</span><span id="L-191"><a href="#L-191"><span class="linenos">191</span></a><span class="k">def</span><span class="w"> </span><span class="nf">_need_to_serialize</span><span class="p">(</span><span class="n">col</span><span class="p">):</span>
|
||||
</span><span id="L-192"><a href="#L-192"><span class="linenos">192</span></a> <span class="n">serialize</span> <span class="o">=</span> <span class="kc">False</span>
|
||||
</span><span id="L-193"><a href="#L-193"><span class="linenos">193</span></a> <span class="n">i</span> <span class="o">=</span> <span class="mi">0</span>
|
||||
</span><span id="L-194"><a href="#L-194"><span class="linenos">194</span></a> <span class="k">while</span> <span class="n">i</span> <span class="o"><</span> <span class="nb">len</span><span class="p">(</span><span class="n">col</span><span class="p">)</span> <span class="ow">and</span> <span class="n">col</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
|
||||
</span><span id="L-195"><a href="#L-195"><span class="linenos">195</span></a> <span class="n">i</span> <span class="o">+=</span> <span class="mi">1</span>
|
||||
</span><span id="L-196"><a href="#L-196"><span class="linenos">196</span></a> <span class="k">if</span> <span class="n">i</span> <span class="o">==</span> <span class="nb">len</span><span class="p">(</span><span class="n">col</span><span class="p">):</span>
|
||||
</span><span id="L-197"><a href="#L-197"><span class="linenos">197</span></a> <span class="k">return</span> <span class="n">serialize</span>
|
||||
</span><span id="L-198"><a href="#L-198"><span class="linenos">198</span></a> <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">col</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="n">Corr</span><span class="p">)):</span>
|
||||
</span><span id="L-199"><a href="#L-199"><span class="linenos">199</span></a> <span class="n">serialize</span> <span class="o">=</span> <span class="kc">True</span>
|
||||
</span><span id="L-200"><a href="#L-200"><span class="linenos">200</span></a> <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">col</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="nb">list</span><span class="p">):</span>
|
||||
</span><span id="L-201"><a href="#L-201"><span class="linenos">201</span></a> <span class="k">if</span> <span class="nb">all</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">o</span><span class="p">,</span> <span class="n">Obs</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">col</span><span class="p">[</span><span class="n">i</span><span class="p">]):</span>
|
||||
</span><span id="L-202"><a href="#L-202"><span class="linenos">202</span></a> <span class="n">serialize</span> <span class="o">=</span> <span class="kc">True</span>
|
||||
</span><span id="L-203"><a href="#L-203"><span class="linenos">203</span></a> <span class="k">return</span> <span class="n">serialize</span>
|
||||
</span><span id="L-190"><a href="#L-190"><span class="linenos">190</span></a><span class="k">def</span><span class="w"> </span><span class="nf">_need_to_serialize</span><span class="p">(</span><span class="n">col</span><span class="p">):</span>
|
||||
</span><span id="L-191"><a href="#L-191"><span class="linenos">191</span></a> <span class="n">serialize</span> <span class="o">=</span> <span class="kc">False</span>
|
||||
</span><span id="L-192"><a href="#L-192"><span class="linenos">192</span></a> <span class="n">i</span> <span class="o">=</span> <span class="mi">0</span>
|
||||
</span><span id="L-193"><a href="#L-193"><span class="linenos">193</span></a> <span class="k">while</span> <span class="n">i</span> <span class="o"><</span> <span class="nb">len</span><span class="p">(</span><span class="n">col</span><span class="p">)</span> <span class="ow">and</span> <span class="n">col</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
|
||||
</span><span id="L-194"><a href="#L-194"><span class="linenos">194</span></a> <span class="n">i</span> <span class="o">+=</span> <span class="mi">1</span>
|
||||
</span><span id="L-195"><a href="#L-195"><span class="linenos">195</span></a> <span class="k">if</span> <span class="n">i</span> <span class="o">==</span> <span class="nb">len</span><span class="p">(</span><span class="n">col</span><span class="p">):</span>
|
||||
</span><span id="L-196"><a href="#L-196"><span class="linenos">196</span></a> <span class="k">return</span> <span class="n">serialize</span>
|
||||
</span><span id="L-197"><a href="#L-197"><span class="linenos">197</span></a> <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">col</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="n">Corr</span><span class="p">)):</span>
|
||||
</span><span id="L-198"><a href="#L-198"><span class="linenos">198</span></a> <span class="n">serialize</span> <span class="o">=</span> <span class="kc">True</span>
|
||||
</span><span id="L-199"><a href="#L-199"><span class="linenos">199</span></a> <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">col</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="nb">list</span><span class="p">):</span>
|
||||
</span><span id="L-200"><a href="#L-200"><span class="linenos">200</span></a> <span class="k">if</span> <span class="nb">all</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">o</span><span class="p">,</span> <span class="n">Obs</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">col</span><span class="p">[</span><span class="n">i</span><span class="p">]):</span>
|
||||
</span><span id="L-201"><a href="#L-201"><span class="linenos">201</span></a> <span class="n">serialize</span> <span class="o">=</span> <span class="kc">True</span>
|
||||
</span><span id="L-202"><a href="#L-202"><span class="linenos">202</span></a> <span class="k">return</span> <span class="n">serialize</span>
|
||||
</span></pre></div>
|
||||
|
||||
|
||||
|
|
@ -303,30 +302,29 @@
|
|||
|
||||
</div>
|
||||
<a class="headerlink" href="#to_sql"></a>
|
||||
<div class="pdoc-code codehilite"><pre><span></span><span id="to_sql-12"><a href="#to_sql-12"><span class="linenos">12</span></a><span class="k">def</span><span class="w"> </span><span class="nf">to_sql</span><span class="p">(</span><span class="n">df</span><span class="p">,</span> <span class="n">table_name</span><span class="p">,</span> <span class="n">db</span><span class="p">,</span> <span class="n">if_exists</span><span class="o">=</span><span class="s1">'fail'</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
|
||||
</span><span id="to_sql-13"><a href="#to_sql-13"><span class="linenos">13</span></a><span class="w"> </span><span class="sd">"""Write DataFrame including Obs or Corr valued columns to sqlite database.</span>
|
||||
</span><span id="to_sql-14"><a href="#to_sql-14"><span class="linenos">14</span></a>
|
||||
</span><span id="to_sql-15"><a href="#to_sql-15"><span class="linenos">15</span></a><span class="sd"> Parameters</span>
|
||||
</span><span id="to_sql-16"><a href="#to_sql-16"><span class="linenos">16</span></a><span class="sd"> ----------</span>
|
||||
</span><span id="to_sql-17"><a href="#to_sql-17"><span class="linenos">17</span></a><span class="sd"> df : pandas.DataFrame</span>
|
||||
</span><span id="to_sql-18"><a href="#to_sql-18"><span class="linenos">18</span></a><span class="sd"> Dataframe to be written to the database.</span>
|
||||
</span><span id="to_sql-19"><a href="#to_sql-19"><span class="linenos">19</span></a><span class="sd"> table_name : str</span>
|
||||
</span><span id="to_sql-20"><a href="#to_sql-20"><span class="linenos">20</span></a><span class="sd"> Name of the table in the database.</span>
|
||||
</span><span id="to_sql-21"><a href="#to_sql-21"><span class="linenos">21</span></a><span class="sd"> db : str</span>
|
||||
</span><span id="to_sql-22"><a href="#to_sql-22"><span class="linenos">22</span></a><span class="sd"> Path to the sqlite database.</span>
|
||||
</span><span id="to_sql-23"><a href="#to_sql-23"><span class="linenos">23</span></a><span class="sd"> if exists : str</span>
|
||||
</span><span id="to_sql-24"><a href="#to_sql-24"><span class="linenos">24</span></a><span class="sd"> How to behave if table already exists. Options 'fail', 'replace', 'append'.</span>
|
||||
</span><span id="to_sql-25"><a href="#to_sql-25"><span class="linenos">25</span></a><span class="sd"> gz : bool</span>
|
||||
</span><span id="to_sql-26"><a href="#to_sql-26"><span class="linenos">26</span></a><span class="sd"> If True the json strings are gzipped.</span>
|
||||
</span><span id="to_sql-27"><a href="#to_sql-27"><span class="linenos">27</span></a>
|
||||
</span><span id="to_sql-28"><a href="#to_sql-28"><span class="linenos">28</span></a><span class="sd"> Returns</span>
|
||||
</span><span id="to_sql-29"><a href="#to_sql-29"><span class="linenos">29</span></a><span class="sd"> -------</span>
|
||||
</span><span id="to_sql-30"><a href="#to_sql-30"><span class="linenos">30</span></a><span class="sd"> None</span>
|
||||
</span><span id="to_sql-31"><a href="#to_sql-31"><span class="linenos">31</span></a><span class="sd"> """</span>
|
||||
</span><span id="to_sql-32"><a href="#to_sql-32"><span class="linenos">32</span></a> <span class="n">se_df</span> <span class="o">=</span> <span class="n">_serialize_df</span><span class="p">(</span><span class="n">df</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="n">gz</span><span class="p">)</span>
|
||||
</span><span id="to_sql-33"><a href="#to_sql-33"><span class="linenos">33</span></a> <span class="n">con</span> <span class="o">=</span> <span class="n">sqlite3</span><span class="o">.</span><span class="n">connect</span><span class="p">(</span><span class="n">db</span><span class="p">)</span>
|
||||
</span><span id="to_sql-34"><a href="#to_sql-34"><span class="linenos">34</span></a> <span class="n">se_df</span><span class="o">.</span><span class="n">to_sql</span><span class="p">(</span><span class="n">table_name</span><span class="p">,</span> <span class="n">con</span><span class="p">,</span> <span class="n">if_exists</span><span class="o">=</span><span class="n">if_exists</span><span class="p">,</span> <span class="n">index</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
|
||||
</span><span id="to_sql-35"><a href="#to_sql-35"><span class="linenos">35</span></a> <span class="n">con</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
|
||||
<div class="pdoc-code codehilite"><pre><span></span><span id="to_sql-13"><a href="#to_sql-13"><span class="linenos">13</span></a><span class="k">def</span><span class="w"> </span><span class="nf">to_sql</span><span class="p">(</span><span class="n">df</span><span class="p">,</span> <span class="n">table_name</span><span class="p">,</span> <span class="n">db</span><span class="p">,</span> <span class="n">if_exists</span><span class="o">=</span><span class="s1">'fail'</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
|
||||
</span><span id="to_sql-14"><a href="#to_sql-14"><span class="linenos">14</span></a><span class="w"> </span><span class="sd">"""Write DataFrame including Obs or Corr valued columns to sqlite database.</span>
|
||||
</span><span id="to_sql-15"><a href="#to_sql-15"><span class="linenos">15</span></a>
|
||||
</span><span id="to_sql-16"><a href="#to_sql-16"><span class="linenos">16</span></a><span class="sd"> Parameters</span>
|
||||
</span><span id="to_sql-17"><a href="#to_sql-17"><span class="linenos">17</span></a><span class="sd"> ----------</span>
|
||||
</span><span id="to_sql-18"><a href="#to_sql-18"><span class="linenos">18</span></a><span class="sd"> df : pandas.DataFrame</span>
|
||||
</span><span id="to_sql-19"><a href="#to_sql-19"><span class="linenos">19</span></a><span class="sd"> Dataframe to be written to the database.</span>
|
||||
</span><span id="to_sql-20"><a href="#to_sql-20"><span class="linenos">20</span></a><span class="sd"> table_name : str</span>
|
||||
</span><span id="to_sql-21"><a href="#to_sql-21"><span class="linenos">21</span></a><span class="sd"> Name of the table in the database.</span>
|
||||
</span><span id="to_sql-22"><a href="#to_sql-22"><span class="linenos">22</span></a><span class="sd"> db : str</span>
|
||||
</span><span id="to_sql-23"><a href="#to_sql-23"><span class="linenos">23</span></a><span class="sd"> Path to the sqlite database.</span>
|
||||
</span><span id="to_sql-24"><a href="#to_sql-24"><span class="linenos">24</span></a><span class="sd"> if exists : str</span>
|
||||
</span><span id="to_sql-25"><a href="#to_sql-25"><span class="linenos">25</span></a><span class="sd"> How to behave if table already exists. Options 'fail', 'replace', 'append'.</span>
|
||||
</span><span id="to_sql-26"><a href="#to_sql-26"><span class="linenos">26</span></a><span class="sd"> gz : bool</span>
|
||||
</span><span id="to_sql-27"><a href="#to_sql-27"><span class="linenos">27</span></a><span class="sd"> If True the json strings are gzipped.</span>
|
||||
</span><span id="to_sql-28"><a href="#to_sql-28"><span class="linenos">28</span></a>
|
||||
</span><span id="to_sql-29"><a href="#to_sql-29"><span class="linenos">29</span></a><span class="sd"> Returns</span>
|
||||
</span><span id="to_sql-30"><a href="#to_sql-30"><span class="linenos">30</span></a><span class="sd"> -------</span>
|
||||
</span><span id="to_sql-31"><a href="#to_sql-31"><span class="linenos">31</span></a><span class="sd"> None</span>
|
||||
</span><span id="to_sql-32"><a href="#to_sql-32"><span class="linenos">32</span></a><span class="sd"> """</span>
|
||||
</span><span id="to_sql-33"><a href="#to_sql-33"><span class="linenos">33</span></a> <span class="n">se_df</span> <span class="o">=</span> <span class="n">_serialize_df</span><span class="p">(</span><span class="n">df</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="n">gz</span><span class="p">)</span>
|
||||
</span><span id="to_sql-34"><a href="#to_sql-34"><span class="linenos">34</span></a> <span class="k">with</span> <span class="n">closing</span><span class="p">(</span><span class="n">sqlite3</span><span class="o">.</span><span class="n">connect</span><span class="p">(</span><span class="n">db</span><span class="p">))</span> <span class="k">as</span> <span class="n">con</span><span class="p">:</span>
|
||||
</span><span id="to_sql-35"><a href="#to_sql-35"><span class="linenos">35</span></a> <span class="n">se_df</span><span class="o">.</span><span class="n">to_sql</span><span class="p">(</span><span class="n">table_name</span><span class="p">,</span> <span class="n">con</span><span class="o">=</span><span class="n">con</span><span class="p">,</span> <span class="n">if_exists</span><span class="o">=</span><span class="n">if_exists</span><span class="p">,</span> <span class="n">index</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
|
||||
</span></pre></div>
|
||||
|
||||
|
||||
|
|
@ -385,10 +383,9 @@ If True the json strings are gzipped.</li>
|
|||
</span><span id="read_sql-53"><a href="#read_sql-53"><span class="linenos">53</span></a><span class="sd"> data : pandas.DataFrame</span>
|
||||
</span><span id="read_sql-54"><a href="#read_sql-54"><span class="linenos">54</span></a><span class="sd"> Dataframe with the content of the sqlite database.</span>
|
||||
</span><span id="read_sql-55"><a href="#read_sql-55"><span class="linenos">55</span></a><span class="sd"> """</span>
|
||||
</span><span id="read_sql-56"><a href="#read_sql-56"><span class="linenos">56</span></a> <span class="n">con</span> <span class="o">=</span> <span class="n">sqlite3</span><span class="o">.</span><span class="n">connect</span><span class="p">(</span><span class="n">db</span><span class="p">)</span>
|
||||
</span><span id="read_sql-57"><a href="#read_sql-57"><span class="linenos">57</span></a> <span class="n">extract_df</span> <span class="o">=</span> <span class="n">pd</span><span class="o">.</span><span class="n">read_sql</span><span class="p">(</span><span class="n">sql</span><span class="p">,</span> <span class="n">con</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
|
||||
</span><span id="read_sql-58"><a href="#read_sql-58"><span class="linenos">58</span></a> <span class="n">con</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
|
||||
</span><span id="read_sql-59"><a href="#read_sql-59"><span class="linenos">59</span></a> <span class="k">return</span> <span class="n">_deserialize_df</span><span class="p">(</span><span class="n">extract_df</span><span class="p">,</span> <span class="n">auto_gamma</span><span class="o">=</span><span class="n">auto_gamma</span><span class="p">)</span>
|
||||
</span><span id="read_sql-56"><a href="#read_sql-56"><span class="linenos">56</span></a> <span class="k">with</span> <span class="n">closing</span><span class="p">(</span><span class="n">sqlite3</span><span class="o">.</span><span class="n">connect</span><span class="p">(</span><span class="n">db</span><span class="p">))</span> <span class="k">as</span> <span class="n">con</span><span class="p">:</span>
|
||||
</span><span id="read_sql-57"><a href="#read_sql-57"><span class="linenos">57</span></a> <span class="n">extract_df</span> <span class="o">=</span> <span class="n">pd</span><span class="o">.</span><span class="n">read_sql</span><span class="p">(</span><span class="n">sql</span><span class="p">,</span> <span class="n">con</span><span class="o">=</span><span class="n">con</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
|
||||
</span><span id="read_sql-58"><a href="#read_sql-58"><span class="linenos">58</span></a> <span class="k">return</span> <span class="n">_deserialize_df</span><span class="p">(</span><span class="n">extract_df</span><span class="p">,</span> <span class="n">auto_gamma</span><span class="o">=</span><span class="n">auto_gamma</span><span class="p">)</span>
|
||||
</span></pre></div>
|
||||
|
||||
|
||||
|
|
@ -427,43 +424,43 @@ Dataframe with the content of the sqlite database.</li>
|
|||
|
||||
</div>
|
||||
<a class="headerlink" href="#dump_df"></a>
|
||||
<div class="pdoc-code codehilite"><pre><span></span><span id="dump_df-62"><a href="#dump_df-62"><span class="linenos">62</span></a><span class="k">def</span><span class="w"> </span><span class="nf">dump_df</span><span class="p">(</span><span class="n">df</span><span class="p">,</span> <span class="n">fname</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
|
||||
</span><span id="dump_df-63"><a href="#dump_df-63"><span class="linenos">63</span></a><span class="w"> </span><span class="sd">"""Exports a pandas DataFrame containing Obs valued columns to a (gzipped) csv file.</span>
|
||||
</span><span id="dump_df-64"><a href="#dump_df-64"><span class="linenos">64</span></a>
|
||||
</span><span id="dump_df-65"><a href="#dump_df-65"><span class="linenos">65</span></a><span class="sd"> Before making use of pandas to_csv functionality Obs objects are serialized via the standardized</span>
|
||||
</span><span id="dump_df-66"><a href="#dump_df-66"><span class="linenos">66</span></a><span class="sd"> json format of pyerrors.</span>
|
||||
</span><span id="dump_df-67"><a href="#dump_df-67"><span class="linenos">67</span></a>
|
||||
</span><span id="dump_df-68"><a href="#dump_df-68"><span class="linenos">68</span></a><span class="sd"> Parameters</span>
|
||||
</span><span id="dump_df-69"><a href="#dump_df-69"><span class="linenos">69</span></a><span class="sd"> ----------</span>
|
||||
</span><span id="dump_df-70"><a href="#dump_df-70"><span class="linenos">70</span></a><span class="sd"> df : pandas.DataFrame</span>
|
||||
</span><span id="dump_df-71"><a href="#dump_df-71"><span class="linenos">71</span></a><span class="sd"> Dataframe to be dumped to a file.</span>
|
||||
</span><span id="dump_df-72"><a href="#dump_df-72"><span class="linenos">72</span></a><span class="sd"> fname : str</span>
|
||||
</span><span id="dump_df-73"><a href="#dump_df-73"><span class="linenos">73</span></a><span class="sd"> Filename of the output file.</span>
|
||||
</span><span id="dump_df-74"><a href="#dump_df-74"><span class="linenos">74</span></a><span class="sd"> gz : bool</span>
|
||||
</span><span id="dump_df-75"><a href="#dump_df-75"><span class="linenos">75</span></a><span class="sd"> If True, the output is a gzipped csv file. If False, the output is a csv file.</span>
|
||||
</span><span id="dump_df-76"><a href="#dump_df-76"><span class="linenos">76</span></a>
|
||||
</span><span id="dump_df-77"><a href="#dump_df-77"><span class="linenos">77</span></a><span class="sd"> Returns</span>
|
||||
</span><span id="dump_df-78"><a href="#dump_df-78"><span class="linenos">78</span></a><span class="sd"> -------</span>
|
||||
</span><span id="dump_df-79"><a href="#dump_df-79"><span class="linenos">79</span></a><span class="sd"> None</span>
|
||||
</span><span id="dump_df-80"><a href="#dump_df-80"><span class="linenos">80</span></a><span class="sd"> """</span>
|
||||
</span><span id="dump_df-81"><a href="#dump_df-81"><span class="linenos">81</span></a> <span class="k">for</span> <span class="n">column</span> <span class="ow">in</span> <span class="n">df</span><span class="p">:</span>
|
||||
</span><span id="dump_df-82"><a href="#dump_df-82"><span class="linenos">82</span></a> <span class="n">serialize</span> <span class="o">=</span> <span class="n">_need_to_serialize</span><span class="p">(</span><span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">])</span>
|
||||
</span><span id="dump_df-83"><a href="#dump_df-83"><span class="linenos">83</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="n">serialize</span><span class="p">:</span>
|
||||
</span><span id="dump_df-84"><a href="#dump_df-84"><span class="linenos">84</span></a> <span class="k">if</span> <span class="nb">all</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">entry</span><span class="p">,</span> <span class="p">(</span><span class="nb">int</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">integer</span><span class="p">,</span> <span class="nb">float</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">floating</span><span class="p">))</span> <span class="k">for</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">]):</span>
|
||||
</span><span id="dump_df-85"><a href="#dump_df-85"><span class="linenos">85</span></a> <span class="k">if</span> <span class="nb">any</span><span class="p">([</span><span class="n">np</span><span class="o">.</span><span class="n">isnan</span><span class="p">(</span><span class="n">entry</span><span class="p">)</span> <span class="k">for</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">]]):</span>
|
||||
</span><span id="dump_df-86"><a href="#dump_df-86"><span class="linenos">86</span></a> <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">"nan value in column "</span> <span class="o">+</span> <span class="n">column</span> <span class="o">+</span> <span class="s2">" will be replaced by None"</span><span class="p">,</span> <span class="ne">UserWarning</span><span class="p">)</span>
|
||||
</span><span id="dump_df-87"><a href="#dump_df-87"><span class="linenos">87</span></a>
|
||||
</span><span id="dump_df-88"><a href="#dump_df-88"><span class="linenos">88</span></a> <span class="n">out</span> <span class="o">=</span> <span class="n">_serialize_df</span><span class="p">(</span><span class="n">df</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">False</span><span class="p">)</span>
|
||||
</span><span id="dump_df-89"><a href="#dump_df-89"><span class="linenos">89</span></a>
|
||||
</span><span id="dump_df-90"><a href="#dump_df-90"><span class="linenos">90</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">'.csv'</span><span class="p">):</span>
|
||||
</span><span id="dump_df-91"><a href="#dump_df-91"><span class="linenos">91</span></a> <span class="n">fname</span> <span class="o">+=</span> <span class="s1">'.csv'</span>
|
||||
</span><span id="dump_df-92"><a href="#dump_df-92"><span class="linenos">92</span></a>
|
||||
</span><span id="dump_df-93"><a href="#dump_df-93"><span class="linenos">93</span></a> <span class="k">if</span> <span class="n">gz</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
|
||||
</span><span id="dump_df-94"><a href="#dump_df-94"><span class="linenos">94</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">'.gz'</span><span class="p">):</span>
|
||||
</span><span id="dump_df-95"><a href="#dump_df-95"><span class="linenos">95</span></a> <span class="n">fname</span> <span class="o">+=</span> <span class="s1">'.gz'</span>
|
||||
</span><span id="dump_df-96"><a href="#dump_df-96"><span class="linenos">96</span></a> <span class="n">out</span><span class="o">.</span><span class="n">to_csv</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="n">index</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">compression</span><span class="o">=</span><span class="s1">'gzip'</span><span class="p">)</span>
|
||||
</span><span id="dump_df-97"><a href="#dump_df-97"><span class="linenos">97</span></a> <span class="k">else</span><span class="p">:</span>
|
||||
</span><span id="dump_df-98"><a href="#dump_df-98"><span class="linenos">98</span></a> <span class="n">out</span><span class="o">.</span><span class="n">to_csv</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="n">index</span><span class="o">=</span><span class="kc">False</span><span class="p">)</span>
|
||||
<div class="pdoc-code codehilite"><pre><span></span><span id="dump_df-61"><a href="#dump_df-61"><span class="linenos">61</span></a><span class="k">def</span><span class="w"> </span><span class="nf">dump_df</span><span class="p">(</span><span class="n">df</span><span class="p">,</span> <span class="n">fname</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
|
||||
</span><span id="dump_df-62"><a href="#dump_df-62"><span class="linenos">62</span></a><span class="w"> </span><span class="sd">"""Exports a pandas DataFrame containing Obs valued columns to a (gzipped) csv file.</span>
|
||||
</span><span id="dump_df-63"><a href="#dump_df-63"><span class="linenos">63</span></a>
|
||||
</span><span id="dump_df-64"><a href="#dump_df-64"><span class="linenos">64</span></a><span class="sd"> Before making use of pandas to_csv functionality Obs objects are serialized via the standardized</span>
|
||||
</span><span id="dump_df-65"><a href="#dump_df-65"><span class="linenos">65</span></a><span class="sd"> json format of pyerrors.</span>
|
||||
</span><span id="dump_df-66"><a href="#dump_df-66"><span class="linenos">66</span></a>
|
||||
</span><span id="dump_df-67"><a href="#dump_df-67"><span class="linenos">67</span></a><span class="sd"> Parameters</span>
|
||||
</span><span id="dump_df-68"><a href="#dump_df-68"><span class="linenos">68</span></a><span class="sd"> ----------</span>
|
||||
</span><span id="dump_df-69"><a href="#dump_df-69"><span class="linenos">69</span></a><span class="sd"> df : pandas.DataFrame</span>
|
||||
</span><span id="dump_df-70"><a href="#dump_df-70"><span class="linenos">70</span></a><span class="sd"> Dataframe to be dumped to a file.</span>
|
||||
</span><span id="dump_df-71"><a href="#dump_df-71"><span class="linenos">71</span></a><span class="sd"> fname : str</span>
|
||||
</span><span id="dump_df-72"><a href="#dump_df-72"><span class="linenos">72</span></a><span class="sd"> Filename of the output file.</span>
|
||||
</span><span id="dump_df-73"><a href="#dump_df-73"><span class="linenos">73</span></a><span class="sd"> gz : bool</span>
|
||||
</span><span id="dump_df-74"><a href="#dump_df-74"><span class="linenos">74</span></a><span class="sd"> If True, the output is a gzipped csv file. If False, the output is a csv file.</span>
|
||||
</span><span id="dump_df-75"><a href="#dump_df-75"><span class="linenos">75</span></a>
|
||||
</span><span id="dump_df-76"><a href="#dump_df-76"><span class="linenos">76</span></a><span class="sd"> Returns</span>
|
||||
</span><span id="dump_df-77"><a href="#dump_df-77"><span class="linenos">77</span></a><span class="sd"> -------</span>
|
||||
</span><span id="dump_df-78"><a href="#dump_df-78"><span class="linenos">78</span></a><span class="sd"> None</span>
|
||||
</span><span id="dump_df-79"><a href="#dump_df-79"><span class="linenos">79</span></a><span class="sd"> """</span>
|
||||
</span><span id="dump_df-80"><a href="#dump_df-80"><span class="linenos">80</span></a> <span class="k">for</span> <span class="n">column</span> <span class="ow">in</span> <span class="n">df</span><span class="p">:</span>
|
||||
</span><span id="dump_df-81"><a href="#dump_df-81"><span class="linenos">81</span></a> <span class="n">serialize</span> <span class="o">=</span> <span class="n">_need_to_serialize</span><span class="p">(</span><span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">])</span>
|
||||
</span><span id="dump_df-82"><a href="#dump_df-82"><span class="linenos">82</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="n">serialize</span><span class="p">:</span>
|
||||
</span><span id="dump_df-83"><a href="#dump_df-83"><span class="linenos">83</span></a> <span class="k">if</span> <span class="nb">all</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">entry</span><span class="p">,</span> <span class="p">(</span><span class="nb">int</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">integer</span><span class="p">,</span> <span class="nb">float</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">floating</span><span class="p">))</span> <span class="k">for</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">]):</span>
|
||||
</span><span id="dump_df-84"><a href="#dump_df-84"><span class="linenos">84</span></a> <span class="k">if</span> <span class="nb">any</span><span class="p">([</span><span class="n">np</span><span class="o">.</span><span class="n">isnan</span><span class="p">(</span><span class="n">entry</span><span class="p">)</span> <span class="k">for</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">df</span><span class="p">[</span><span class="n">column</span><span class="p">]]):</span>
|
||||
</span><span id="dump_df-85"><a href="#dump_df-85"><span class="linenos">85</span></a> <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">"nan value in column "</span> <span class="o">+</span> <span class="n">column</span> <span class="o">+</span> <span class="s2">" will be replaced by None"</span><span class="p">,</span> <span class="ne">UserWarning</span><span class="p">)</span>
|
||||
</span><span id="dump_df-86"><a href="#dump_df-86"><span class="linenos">86</span></a>
|
||||
</span><span id="dump_df-87"><a href="#dump_df-87"><span class="linenos">87</span></a> <span class="n">out</span> <span class="o">=</span> <span class="n">_serialize_df</span><span class="p">(</span><span class="n">df</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">False</span><span class="p">)</span>
|
||||
</span><span id="dump_df-88"><a href="#dump_df-88"><span class="linenos">88</span></a>
|
||||
</span><span id="dump_df-89"><a href="#dump_df-89"><span class="linenos">89</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">'.csv'</span><span class="p">):</span>
|
||||
</span><span id="dump_df-90"><a href="#dump_df-90"><span class="linenos">90</span></a> <span class="n">fname</span> <span class="o">+=</span> <span class="s1">'.csv'</span>
|
||||
</span><span id="dump_df-91"><a href="#dump_df-91"><span class="linenos">91</span></a>
|
||||
</span><span id="dump_df-92"><a href="#dump_df-92"><span class="linenos">92</span></a> <span class="k">if</span> <span class="n">gz</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
|
||||
</span><span id="dump_df-93"><a href="#dump_df-93"><span class="linenos">93</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">'.gz'</span><span class="p">):</span>
|
||||
</span><span id="dump_df-94"><a href="#dump_df-94"><span class="linenos">94</span></a> <span class="n">fname</span> <span class="o">+=</span> <span class="s1">'.gz'</span>
|
||||
</span><span id="dump_df-95"><a href="#dump_df-95"><span class="linenos">95</span></a> <span class="n">out</span><span class="o">.</span><span class="n">to_csv</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="n">index</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">compression</span><span class="o">=</span><span class="s1">'gzip'</span><span class="p">)</span>
|
||||
</span><span id="dump_df-96"><a href="#dump_df-96"><span class="linenos">96</span></a> <span class="k">else</span><span class="p">:</span>
|
||||
</span><span id="dump_df-97"><a href="#dump_df-97"><span class="linenos">97</span></a> <span class="n">out</span><span class="o">.</span><span class="n">to_csv</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="n">index</span><span class="o">=</span><span class="kc">False</span><span class="p">)</span>
|
||||
</span></pre></div>
|
||||
|
||||
|
||||
|
|
@ -503,38 +500,38 @@ If True, the output is a gzipped csv file. If False, the output is a csv file.</
|
|||
|
||||
</div>
|
||||
<a class="headerlink" href="#load_df"></a>
|
||||
<div class="pdoc-code codehilite"><pre><span></span><span id="load_df-101"><a href="#load_df-101"><span class="linenos">101</span></a><span class="k">def</span><span class="w"> </span><span class="nf">load_df</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="n">auto_gamma</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
|
||||
</span><span id="load_df-102"><a href="#load_df-102"><span class="linenos">102</span></a><span class="w"> </span><span class="sd">"""Imports a pandas DataFrame from a csv.(gz) file in which Obs objects are serialized as json strings.</span>
|
||||
</span><span id="load_df-103"><a href="#load_df-103"><span class="linenos">103</span></a>
|
||||
</span><span id="load_df-104"><a href="#load_df-104"><span class="linenos">104</span></a><span class="sd"> Parameters</span>
|
||||
</span><span id="load_df-105"><a href="#load_df-105"><span class="linenos">105</span></a><span class="sd"> ----------</span>
|
||||
</span><span id="load_df-106"><a href="#load_df-106"><span class="linenos">106</span></a><span class="sd"> fname : str</span>
|
||||
</span><span id="load_df-107"><a href="#load_df-107"><span class="linenos">107</span></a><span class="sd"> Filename of the input file.</span>
|
||||
</span><span id="load_df-108"><a href="#load_df-108"><span class="linenos">108</span></a><span class="sd"> auto_gamma : bool</span>
|
||||
</span><span id="load_df-109"><a href="#load_df-109"><span class="linenos">109</span></a><span class="sd"> If True applies the gamma_method to all imported Obs objects with the default parameters for</span>
|
||||
</span><span id="load_df-110"><a href="#load_df-110"><span class="linenos">110</span></a><span class="sd"> the error analysis. Default False.</span>
|
||||
</span><span id="load_df-111"><a href="#load_df-111"><span class="linenos">111</span></a><span class="sd"> gz : bool</span>
|
||||
</span><span id="load_df-112"><a href="#load_df-112"><span class="linenos">112</span></a><span class="sd"> If True, assumes that data is gzipped. If False, assumes JSON file.</span>
|
||||
</span><span id="load_df-113"><a href="#load_df-113"><span class="linenos">113</span></a>
|
||||
</span><span id="load_df-114"><a href="#load_df-114"><span class="linenos">114</span></a><span class="sd"> Returns</span>
|
||||
</span><span id="load_df-115"><a href="#load_df-115"><span class="linenos">115</span></a><span class="sd"> -------</span>
|
||||
</span><span id="load_df-116"><a href="#load_df-116"><span class="linenos">116</span></a><span class="sd"> data : pandas.DataFrame</span>
|
||||
</span><span id="load_df-117"><a href="#load_df-117"><span class="linenos">117</span></a><span class="sd"> Dataframe with the content of the sqlite database.</span>
|
||||
</span><span id="load_df-118"><a href="#load_df-118"><span class="linenos">118</span></a><span class="sd"> """</span>
|
||||
</span><span id="load_df-119"><a href="#load_df-119"><span class="linenos">119</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">'.csv'</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">'.gz'</span><span class="p">):</span>
|
||||
</span><span id="load_df-120"><a href="#load_df-120"><span class="linenos">120</span></a> <span class="n">fname</span> <span class="o">+=</span> <span class="s1">'.csv'</span>
|
||||
</span><span id="load_df-121"><a href="#load_df-121"><span class="linenos">121</span></a>
|
||||
</span><span id="load_df-122"><a href="#load_df-122"><span class="linenos">122</span></a> <span class="k">if</span> <span class="n">gz</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
|
||||
</span><span id="load_df-123"><a href="#load_df-123"><span class="linenos">123</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">'.gz'</span><span class="p">):</span>
|
||||
</span><span id="load_df-124"><a href="#load_df-124"><span class="linenos">124</span></a> <span class="n">fname</span> <span class="o">+=</span> <span class="s1">'.gz'</span>
|
||||
</span><span id="load_df-125"><a href="#load_df-125"><span class="linenos">125</span></a> <span class="k">with</span> <span class="n">gzip</span><span class="o">.</span><span class="n">open</span><span class="p">(</span><span class="n">fname</span><span class="p">)</span> <span class="k">as</span> <span class="n">f</span><span class="p">:</span>
|
||||
</span><span id="load_df-126"><a href="#load_df-126"><span class="linenos">126</span></a> <span class="n">re_import</span> <span class="o">=</span> <span class="n">pd</span><span class="o">.</span><span class="n">read_csv</span><span class="p">(</span><span class="n">f</span><span class="p">,</span> <span class="n">keep_default_na</span><span class="o">=</span><span class="kc">False</span><span class="p">)</span>
|
||||
</span><span id="load_df-127"><a href="#load_df-127"><span class="linenos">127</span></a> <span class="k">else</span><span class="p">:</span>
|
||||
</span><span id="load_df-128"><a href="#load_df-128"><span class="linenos">128</span></a> <span class="k">if</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">'.gz'</span><span class="p">):</span>
|
||||
</span><span id="load_df-129"><a href="#load_df-129"><span class="linenos">129</span></a> <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">"Trying to read from </span><span class="si">%s</span><span class="s2"> without unzipping!"</span> <span class="o">%</span> <span class="n">fname</span><span class="p">,</span> <span class="ne">UserWarning</span><span class="p">)</span>
|
||||
</span><span id="load_df-130"><a href="#load_df-130"><span class="linenos">130</span></a> <span class="n">re_import</span> <span class="o">=</span> <span class="n">pd</span><span class="o">.</span><span class="n">read_csv</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="n">keep_default_na</span><span class="o">=</span><span class="kc">False</span><span class="p">)</span>
|
||||
</span><span id="load_df-131"><a href="#load_df-131"><span class="linenos">131</span></a>
|
||||
</span><span id="load_df-132"><a href="#load_df-132"><span class="linenos">132</span></a> <span class="k">return</span> <span class="n">_deserialize_df</span><span class="p">(</span><span class="n">re_import</span><span class="p">,</span> <span class="n">auto_gamma</span><span class="o">=</span><span class="n">auto_gamma</span><span class="p">)</span>
|
||||
<div class="pdoc-code codehilite"><pre><span></span><span id="load_df-100"><a href="#load_df-100"><span class="linenos">100</span></a><span class="k">def</span><span class="w"> </span><span class="nf">load_df</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="n">auto_gamma</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
|
||||
</span><span id="load_df-101"><a href="#load_df-101"><span class="linenos">101</span></a><span class="w"> </span><span class="sd">"""Imports a pandas DataFrame from a csv.(gz) file in which Obs objects are serialized as json strings.</span>
|
||||
</span><span id="load_df-102"><a href="#load_df-102"><span class="linenos">102</span></a>
|
||||
</span><span id="load_df-103"><a href="#load_df-103"><span class="linenos">103</span></a><span class="sd"> Parameters</span>
|
||||
</span><span id="load_df-104"><a href="#load_df-104"><span class="linenos">104</span></a><span class="sd"> ----------</span>
|
||||
</span><span id="load_df-105"><a href="#load_df-105"><span class="linenos">105</span></a><span class="sd"> fname : str</span>
|
||||
</span><span id="load_df-106"><a href="#load_df-106"><span class="linenos">106</span></a><span class="sd"> Filename of the input file.</span>
|
||||
</span><span id="load_df-107"><a href="#load_df-107"><span class="linenos">107</span></a><span class="sd"> auto_gamma : bool</span>
|
||||
</span><span id="load_df-108"><a href="#load_df-108"><span class="linenos">108</span></a><span class="sd"> If True applies the gamma_method to all imported Obs objects with the default parameters for</span>
|
||||
</span><span id="load_df-109"><a href="#load_df-109"><span class="linenos">109</span></a><span class="sd"> the error analysis. Default False.</span>
|
||||
</span><span id="load_df-110"><a href="#load_df-110"><span class="linenos">110</span></a><span class="sd"> gz : bool</span>
|
||||
</span><span id="load_df-111"><a href="#load_df-111"><span class="linenos">111</span></a><span class="sd"> If True, assumes that data is gzipped. If False, assumes JSON file.</span>
|
||||
</span><span id="load_df-112"><a href="#load_df-112"><span class="linenos">112</span></a>
|
||||
</span><span id="load_df-113"><a href="#load_df-113"><span class="linenos">113</span></a><span class="sd"> Returns</span>
|
||||
</span><span id="load_df-114"><a href="#load_df-114"><span class="linenos">114</span></a><span class="sd"> -------</span>
|
||||
</span><span id="load_df-115"><a href="#load_df-115"><span class="linenos">115</span></a><span class="sd"> data : pandas.DataFrame</span>
|
||||
</span><span id="load_df-116"><a href="#load_df-116"><span class="linenos">116</span></a><span class="sd"> Dataframe with the content of the sqlite database.</span>
|
||||
</span><span id="load_df-117"><a href="#load_df-117"><span class="linenos">117</span></a><span class="sd"> """</span>
|
||||
</span><span id="load_df-118"><a href="#load_df-118"><span class="linenos">118</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">'.csv'</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">'.gz'</span><span class="p">):</span>
|
||||
</span><span id="load_df-119"><a href="#load_df-119"><span class="linenos">119</span></a> <span class="n">fname</span> <span class="o">+=</span> <span class="s1">'.csv'</span>
|
||||
</span><span id="load_df-120"><a href="#load_df-120"><span class="linenos">120</span></a>
|
||||
</span><span id="load_df-121"><a href="#load_df-121"><span class="linenos">121</span></a> <span class="k">if</span> <span class="n">gz</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
|
||||
</span><span id="load_df-122"><a href="#load_df-122"><span class="linenos">122</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">'.gz'</span><span class="p">):</span>
|
||||
</span><span id="load_df-123"><a href="#load_df-123"><span class="linenos">123</span></a> <span class="n">fname</span> <span class="o">+=</span> <span class="s1">'.gz'</span>
|
||||
</span><span id="load_df-124"><a href="#load_df-124"><span class="linenos">124</span></a> <span class="k">with</span> <span class="n">gzip</span><span class="o">.</span><span class="n">open</span><span class="p">(</span><span class="n">fname</span><span class="p">)</span> <span class="k">as</span> <span class="n">f</span><span class="p">:</span>
|
||||
</span><span id="load_df-125"><a href="#load_df-125"><span class="linenos">125</span></a> <span class="n">re_import</span> <span class="o">=</span> <span class="n">pd</span><span class="o">.</span><span class="n">read_csv</span><span class="p">(</span><span class="n">f</span><span class="p">,</span> <span class="n">keep_default_na</span><span class="o">=</span><span class="kc">False</span><span class="p">)</span>
|
||||
</span><span id="load_df-126"><a href="#load_df-126"><span class="linenos">126</span></a> <span class="k">else</span><span class="p">:</span>
|
||||
</span><span id="load_df-127"><a href="#load_df-127"><span class="linenos">127</span></a> <span class="k">if</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">'.gz'</span><span class="p">):</span>
|
||||
</span><span id="load_df-128"><a href="#load_df-128"><span class="linenos">128</span></a> <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">"Trying to read from </span><span class="si">%s</span><span class="s2"> without unzipping!"</span> <span class="o">%</span> <span class="n">fname</span><span class="p">,</span> <span class="ne">UserWarning</span><span class="p">)</span>
|
||||
</span><span id="load_df-129"><a href="#load_df-129"><span class="linenos">129</span></a> <span class="n">re_import</span> <span class="o">=</span> <span class="n">pd</span><span class="o">.</span><span class="n">read_csv</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="n">keep_default_na</span><span class="o">=</span><span class="kc">False</span><span class="p">)</span>
|
||||
</span><span id="load_df-130"><a href="#load_df-130"><span class="linenos">130</span></a>
|
||||
</span><span id="load_df-131"><a href="#load_df-131"><span class="linenos">131</span></a> <span class="k">return</span> <span class="n">_deserialize_df</span><span class="p">(</span><span class="n">re_import</span><span class="p">,</span> <span class="n">auto_gamma</span><span class="o">=</span><span class="n">auto_gamma</span><span class="p">)</span>
|
||||
</span></pre></div>
|
||||
|
||||
|
||||
|
|
|
|||
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