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341 lines
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<div class="headertitle"><div class="title">gridfire::io::SimpleReactionListFileParser Class Reference<span class="mlabels"><span class="mlabel">final</span></span></div></div>
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<p>A parser for simple text files containing a list of reactions.
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<a href="classgridfire_1_1io_1_1SimpleReactionListFileParser.html#details">More...</a></p>
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<p><code>#include <network_file.h></code></p>
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Inheritance diagram for gridfire::io::SimpleReactionListFileParser:</div>
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Collaboration diagram for gridfire::io::SimpleReactionListFileParser:</div>
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Public Member Functions</h2></td></tr>
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<tr class="memitem:afc8ed91e8c98205c505e3d9f0cff1993" id="r_afc8ed91e8c98205c505e3d9f0cff1993"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="classgridfire_1_1io_1_1SimpleReactionListFileParser.html#afc8ed91e8c98205c505e3d9f0cff1993">SimpleReactionListFileParser</a> ()</td></tr>
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<tr class="memdesc:afc8ed91e8c98205c505e3d9f0cff1993"><td class="mdescLeft"> </td><td class="mdescRight">Constructs a <a class="el" href="classgridfire_1_1io_1_1SimpleReactionListFileParser.html" title="A parser for simple text files containing a list of reactions.">SimpleReactionListFileParser</a>. <br /></td></tr>
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<tr class="separator:afc8ed91e8c98205c505e3d9f0cff1993"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:a4df01e3a93e1291d2cde0458545325f8" id="r_a4df01e3a93e1291d2cde0458545325f8"><td class="memItemLeft" align="right" valign="top"><a class="el" href="namespacegridfire_1_1io.html#abcbdcbd13cfa8c9fbe1b48e8ee2cc352">ParsedNetworkData</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="classgridfire_1_1io_1_1SimpleReactionListFileParser.html#a4df01e3a93e1291d2cde0458545325f8">parse</a> (const std::string &filename) const override</td></tr>
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<tr class="memdesc:a4df01e3a93e1291d2cde0458545325f8"><td class="mdescLeft"> </td><td class="mdescRight">Parses a simple reaction list file. <br /></td></tr>
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<tr class="separator:a4df01e3a93e1291d2cde0458545325f8"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="inherit_header pub_methods_classgridfire_1_1io_1_1NetworkFileParser"><td colspan="2" onclick="javascript:toggleInherit('pub_methods_classgridfire_1_1io_1_1NetworkFileParser')"><img src="closed.png" alt="-"/> Public Member Functions inherited from <a class="el" href="classgridfire_1_1io_1_1NetworkFileParser.html">gridfire::io::NetworkFileParser</a></td></tr>
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<tr class="memitem:a9b4095d06fad5df3805c92ae97b3eab3 inherit pub_methods_classgridfire_1_1io_1_1NetworkFileParser" id="r_a9b4095d06fad5df3805c92ae97b3eab3"><td class="memItemLeft" align="right" valign="top">virtual </td><td class="memItemRight" valign="bottom"><a class="el" href="classgridfire_1_1io_1_1NetworkFileParser.html#a9b4095d06fad5df3805c92ae97b3eab3">~NetworkFileParser</a> ()=default</td></tr>
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<tr class="memdesc:a9b4095d06fad5df3805c92ae97b3eab3 inherit pub_methods_classgridfire_1_1io_1_1NetworkFileParser"><td class="mdescLeft"> </td><td class="mdescRight">Virtual destructor for the base class. <br /></td></tr>
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<tr class="separator:a9b4095d06fad5df3805c92ae97b3eab3 inherit pub_methods_classgridfire_1_1io_1_1NetworkFileParser"><td class="memSeparator" colspan="2"> </td></tr>
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</table><table class="memberdecls">
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<tr class="heading"><td colspan="2"><h2 class="groupheader"><a id="pri-types" name="pri-types"></a>
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Private Types</h2></td></tr>
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<tr class="memitem:ad913155a5a2a36b29e4ce4ca8d71c036" id="r_ad913155a5a2a36b29e4ce4ca8d71c036"><td class="memItemLeft" align="right" valign="top">using </td><td class="memItemRight" valign="bottom"><a class="el" href="classgridfire_1_1io_1_1SimpleReactionListFileParser.html#ad913155a5a2a36b29e4ce4ca8d71c036">Config</a> = fourdst::config::Config</td></tr>
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<tr class="memitem:a6f8f9a1f54cd2be5ec66c3181be892de" id="r_a6f8f9a1f54cd2be5ec66c3181be892de"><td class="memItemLeft" align="right" valign="top">using </td><td class="memItemRight" valign="bottom"><a class="el" href="classgridfire_1_1io_1_1SimpleReactionListFileParser.html#a6f8f9a1f54cd2be5ec66c3181be892de">LogManager</a> = fourdst::logging::LogManager</td></tr>
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<tr class="heading"><td colspan="2"><h2 class="groupheader"><a id="pri-attribs" name="pri-attribs"></a>
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Private Attributes</h2></td></tr>
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<tr class="memitem:a4061e99bd77a3de0d6d9e317bfc74874" id="r_a4061e99bd77a3de0d6d9e317bfc74874"><td class="memItemLeft" align="right" valign="top"><a class="el" href="classgridfire_1_1io_1_1SimpleReactionListFileParser.html#ad913155a5a2a36b29e4ce4ca8d71c036">Config</a> & </td><td class="memItemRight" valign="bottom"><a class="el" href="classgridfire_1_1io_1_1SimpleReactionListFileParser.html#a4061e99bd77a3de0d6d9e317bfc74874">m_config</a> = Config::getInstance()</td></tr>
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<tr class="separator:a4061e99bd77a3de0d6d9e317bfc74874"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:acef7eafe3cbea159259f69c88d309b66" id="r_acef7eafe3cbea159259f69c88d309b66"><td class="memItemLeft" align="right" valign="top">quill::Logger * </td><td class="memItemRight" valign="bottom"><a class="el" href="classgridfire_1_1io_1_1SimpleReactionListFileParser.html#acef7eafe3cbea159259f69c88d309b66">m_logger</a> = LogManager::getInstance().getLogger("log")</td></tr>
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<a name="details" id="details"></a><h2 class="groupheader">Detailed Description</h2>
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<div class="textblock"><p>A parser for simple text files containing a list of reactions. </p>
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<p>This parser reads a file where each line contains a single reaction name. It supports comments (lines starting with '#') and ignores empty lines. </p>
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</div><h2 class="groupheader">Member Typedef Documentation</h2>
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<a id="ad913155a5a2a36b29e4ce4ca8d71c036" name="ad913155a5a2a36b29e4ce4ca8d71c036"></a>
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<h2 class="memtitle"><span class="permalink"><a href="#ad913155a5a2a36b29e4ce4ca8d71c036">◆ </a></span>Config</h2>
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<td class="memname">using <a class="el" href="classgridfire_1_1io_1_1SimpleReactionListFileParser.html#ad913155a5a2a36b29e4ce4ca8d71c036">gridfire::io::SimpleReactionListFileParser::Config</a> = fourdst::config::Config</td>
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<a id="a6f8f9a1f54cd2be5ec66c3181be892de" name="a6f8f9a1f54cd2be5ec66c3181be892de"></a>
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<h2 class="memtitle"><span class="permalink"><a href="#a6f8f9a1f54cd2be5ec66c3181be892de">◆ </a></span>LogManager</h2>
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<td class="memname">using <a class="el" href="classgridfire_1_1io_1_1SimpleReactionListFileParser.html#a6f8f9a1f54cd2be5ec66c3181be892de">gridfire::io::SimpleReactionListFileParser::LogManager</a> = fourdst::logging::LogManager</td>
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<h2 class="groupheader">Constructor & Destructor Documentation</h2>
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<h2 class="memtitle"><span class="permalink"><a href="#afc8ed91e8c98205c505e3d9f0cff1993">◆ </a></span>SimpleReactionListFileParser()</h2>
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<td class="memname">gridfire::io::SimpleReactionListFileParser::SimpleReactionListFileParser </td>
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<td>(</td>
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<td class="paramname"></td><td>)</td>
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<td></td>
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<span class="mlabels"><span class="mlabel">explicit</span><span class="mlabel">default</span></span> </td>
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<p>Constructs a <a class="el" href="classgridfire_1_1io_1_1SimpleReactionListFileParser.html" title="A parser for simple text files containing a list of reactions.">SimpleReactionListFileParser</a>. </p>
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<dl class="section post"><dt>Postcondition</dt><dd>The parser is initialized and ready to parse files. </dd></dl>
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<h2 class="groupheader">Member Function Documentation</h2>
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<a id="a4df01e3a93e1291d2cde0458545325f8" name="a4df01e3a93e1291d2cde0458545325f8"></a>
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<h2 class="memtitle"><span class="permalink"><a href="#a4df01e3a93e1291d2cde0458545325f8">◆ </a></span>parse()</h2>
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<td class="memname"><a class="el" href="namespacegridfire_1_1io.html#abcbdcbd13cfa8c9fbe1b48e8ee2cc352">ParsedNetworkData</a> gridfire::io::SimpleReactionListFileParser::parse </td>
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<td>(</td>
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<td class="paramtype">const std::string & </td>
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<td class="paramname"><em>filename</em></td><td>)</td>
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<td> const</td>
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<p>Parses a simple reaction list file. </p>
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<p>This method reads the specified file line by line. It trims whitespace from each line, ignores lines that are empty or start with a '#' comment character, and stores the remaining lines as reaction names.</p>
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<dl class="params"><dt>Parameters</dt><dd>
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<tr><td class="paramname">filename</td><td>The path to the simple reaction list file. </td></tr>
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<dl class="section return"><dt>Returns</dt><dd>A <code>ParsedNetworkData</code> struct containing the list of reaction names.</dd></dl>
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<dl class="exception"><dt>Exceptions</dt><dd>
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<tr><td class="paramname">std::runtime_error</td><td>If the file cannot be opened for reading.</td></tr>
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<p><b>Algorithm</b> </p><ol type="1">
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<li>Opens the specified file.</li>
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<li>Reads the file line by line.</li>
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<li>For each line, it removes any trailing comments (starting with '#').</li>
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<li>Trims leading and trailing whitespace.</li>
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<li>If the line is not empty, it is added to the list of reaction names.</li>
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<li>Returns the populated <code>ParsedNetworkData</code> struct.</li>
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<p><b>Usage</b> </p><div class="fragment"><div class="line"><a class="code hl_class" href="classgridfire_1_1io_1_1SimpleReactionListFileParser.html">SimpleReactionListFileParser</a> parser;</div>
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<div class="line"><a class="code hl_typedef" href="namespacegridfire_1_1io.html#abcbdcbd13cfa8c9fbe1b48e8ee2cc352">ParsedNetworkData</a> data = parser.<a class="code hl_function" href="classgridfire_1_1io_1_1SimpleReactionListFileParser.html#a4df01e3a93e1291d2cde0458545325f8">parse</a>(<span class="stringliteral">"reactions.txt"</span>);</div>
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<div class="ttc" id="aclassgridfire_1_1io_1_1SimpleReactionListFileParser_html"><div class="ttname"><a href="classgridfire_1_1io_1_1SimpleReactionListFileParser.html">gridfire::io::SimpleReactionListFileParser</a></div><div class="ttdoc">A parser for simple text files containing a list of reactions.</div><div class="ttdef"><b>Definition</b> network_file.h:68</div></div>
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<div class="ttc" id="aclassgridfire_1_1io_1_1SimpleReactionListFileParser_html_a4df01e3a93e1291d2cde0458545325f8"><div class="ttname"><a href="classgridfire_1_1io_1_1SimpleReactionListFileParser.html#a4df01e3a93e1291d2cde0458545325f8">gridfire::io::SimpleReactionListFileParser::parse</a></div><div class="ttdeci">ParsedNetworkData parse(const std::string &filename) const override</div><div class="ttdoc">Parses a simple reaction list file.</div><div class="ttdef"><b>Definition</b> network_file.cpp:44</div></div>
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<div class="ttc" id="anamespacegridfire_1_1io_html_abcbdcbd13cfa8c9fbe1b48e8ee2cc352"><div class="ttname"><a href="namespacegridfire_1_1io.html#abcbdcbd13cfa8c9fbe1b48e8ee2cc352">gridfire::io::ParsedNetworkData</a></div><div class="ttdeci">std::vector< std::string > ParsedNetworkData</div><div class="ttdef"><b>Definition</b> network_file.h:12</div></div>
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<p>Implements <a class="el" href="classgridfire_1_1io_1_1NetworkFileParser.html#a66e8e724c903d6ef4dd1c8103276bdbf">gridfire::io::NetworkFileParser</a>.</p>
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<h2 class="groupheader">Member Data Documentation</h2>
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<a id="a4061e99bd77a3de0d6d9e317bfc74874" name="a4061e99bd77a3de0d6d9e317bfc74874"></a>
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<h2 class="memtitle"><span class="permalink"><a href="#a4061e99bd77a3de0d6d9e317bfc74874">◆ </a></span>m_config</h2>
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<td class="memname"><a class="el" href="classgridfire_1_1io_1_1SimpleReactionListFileParser.html#ad913155a5a2a36b29e4ce4ca8d71c036">Config</a>& gridfire::io::SimpleReactionListFileParser::m_config = Config::getInstance()</td>
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<a id="acef7eafe3cbea159259f69c88d309b66" name="acef7eafe3cbea159259f69c88d309b66"></a>
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<h2 class="memtitle"><span class="permalink"><a href="#acef7eafe3cbea159259f69c88d309b66">◆ </a></span>m_logger</h2>
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<td class="memname">quill::Logger* gridfire::io::SimpleReactionListFileParser::m_logger = LogManager::getInstance().getLogger("log")</td>
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<hr/>The documentation for this class was generated from the following files:<ul>
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<li>src/include/gridfire/io/<a class="el" href="network__file_8h.html">network_file.h</a></li>
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<li>src/lib/io/<a class="el" href="network__file_8cpp.html">network_file.cpp</a></li>
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