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<HTML>
<HEAD>
<TITLE>XMLFile Class Reference</TITLE>
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<li class="navelem"><a class="el" href="namespaceOpenMS.html">OpenMS</a></li><li class="navelem"><a class="el" href="namespaceOpenMS_1_1Internal.html">Internal</a></li><li class="navelem"><a class="el" href="classOpenMS_1_1Internal_1_1XMLFile.html">XMLFile</a></li> </ul>
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<div class="header">
<div class="summary">
<a href="#pub-methods">Public Member Functions</a> |
<a href="#pro-methods">Protected Member Functions</a> |
<a href="#pro-attribs">Protected Attributes</a> |
<a href="classOpenMS_1_1Internal_1_1XMLFile-members.html">List of all members</a> </div>
<div class="headertitle">
<div class="title">XMLFile Class Reference</div> </div>
</div><!--header-->
<div class="contents">
<p>Base class for loading/storing XML files that have a handler derived from <a class="el" href="classOpenMS_1_1Internal_1_1XMLHandler.html" title="Base class for XML handlers. ">XMLHandler</a>.
<a href="classOpenMS_1_1Internal_1_1XMLFile.html#details">More...</a></p>
<p><code>#include <<a class="el" href="XMLFile_8h_source.html">OpenMS/FORMAT/XMLFile.h</a>></code></p>
<div class="dynheader">
Inheritance diagram for XMLFile:</div>
<div class="dyncontent">
<div class="center">
<img src="classOpenMS_1_1Internal_1_1XMLFile.png" usemap="#XMLFile_map" alt=""/>
<map id="XMLFile_map" name="XMLFile_map">
<area href="classOpenMS_1_1ConsensusXMLFile.html" title="This class provides Input functionality for ConsensusMaps and Output functionality for alignments and..." alt="ConsensusXMLFile" shape="rect" coords="154,56,298,80"/>
<area href="classOpenMS_1_1CVMappingFile.html" title="Used to load CvMapping files. " alt="CVMappingFile" shape="rect" coords="154,112,298,136"/>
<area href="classOpenMS_1_1FeatureXMLFile.html" title="This class provides Input/Output functionality for feature maps. " alt="FeatureXMLFile" shape="rect" coords="154,168,298,192"/>
<area href="classOpenMS_1_1IdXMLFile.html" title="Used to load and store idXML files. " alt="IdXMLFile" shape="rect" coords="154,224,298,248"/>
<area href="classOpenMS_1_1Internal_1_1SemanticValidator.html" title="Semantically validates XML files using CVMappings and a ControlledVocabulary. " alt="SemanticValidator" shape="rect" coords="154,280,298,304"/>
<area href="classOpenMS_1_1MascotXMLFile.html" title="Used to load MascotXML files. " alt="MascotXMLFile" shape="rect" coords="154,336,298,360"/>
<area href="classOpenMS_1_1MzDataFile.html" title="File adapter for MzData files. " alt="MzDataFile" shape="rect" coords="154,392,298,416"/>
<area href="classOpenMS_1_1MzIdentMLFile.html" title="File adapter for MzIdentML files. " alt="MzIdentMLFile" shape="rect" coords="154,448,298,472"/>
<area href="classOpenMS_1_1MzMLFile.html" title="File adapter for MzML files. " alt="MzMLFile" shape="rect" coords="154,504,298,528"/>
<area href="classOpenMS_1_1MzQuantMLFile.html" title="File adapter for MzQuantML files. " alt="MzQuantMLFile" shape="rect" coords="154,560,298,584"/>
<area href="classOpenMS_1_1MzXMLFile.html" title="File adapter for MzXML 2.1 files. " alt="MzXMLFile" shape="rect" coords="154,616,298,640"/>
<area href="classOpenMS_1_1OMSSAXMLFile.html" title="Used to load OMSSAXML files. " alt="OMSSAXMLFile" shape="rect" coords="154,672,298,696"/>
<area href="classOpenMS_1_1ParamXMLFile.html" title="The file pendant of the Param class used to load and store the param datastructure as paramXML..." alt="ParamXMLFile" shape="rect" coords="154,728,298,752"/>
<area href="classOpenMS_1_1PepXMLFile.html" title="Used to load and store PepXML files. " alt="PepXMLFile" shape="rect" coords="154,784,298,808"/>
<area href="classOpenMS_1_1PepXMLFileMascot.html" title="Used to load Mascot PepXML files. " alt="PepXMLFileMascot" shape="rect" coords="154,840,298,864"/>
<area href="classOpenMS_1_1ProtXMLFile.html" title="Used to load (storing not supported, yet) ProtXML files. " alt="ProtXMLFile" shape="rect" coords="154,896,298,920"/>
<area href="classOpenMS_1_1PTMXMLFile.html" title="Used to load and store PTMXML files. " alt="PTMXMLFile" shape="rect" coords="154,952,298,976"/>
<area href="classOpenMS_1_1QcMLFile.html" title="File adapter for QcML files. " alt="QcMLFile" shape="rect" coords="154,1008,298,1032"/>
<area href="classOpenMS_1_1ToolDescriptionFile.html" title="File adapter for ToolDescriptor files. " alt="ToolDescriptionFile" shape="rect" coords="154,1064,298,1088"/>
<area href="classOpenMS_1_1TraMLFile.html" title="File adapter for HUPO PSI TraML files. " alt="TraMLFile" shape="rect" coords="154,1120,298,1144"/>
<area href="classOpenMS_1_1TransformationXMLFile.html" title="Used to load and store TransformationXML files. " alt="TransformationXMLFile" shape="rect" coords="154,1176,298,1200"/>
<area href="classOpenMS_1_1UnimodXMLFile.html" title="Used to load XML files from unimod.org files. " alt="UnimodXMLFile" shape="rect" coords="154,1232,298,1256"/>
<area href="classOpenMS_1_1XTandemInfile.html" title="XTandem input file. " alt="XTandemInfile" shape="rect" coords="154,1288,298,1312"/>
<area href="classOpenMS_1_1XTandemXMLFile.html" title="Used to load XTandemXML files. " alt="XTandemXMLFile" shape="rect" coords="154,1344,298,1368"/>
</map>
</div></div>
<table class="memberdecls">
<tr class="heading"><td colspan="2"><h2 class="groupheader"><a name="pub-methods"></a>
Public Member Functions</h2></td></tr>
<tr class="memitem:a5288a663fb130ba112c205bd7c556fd4"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1Internal_1_1XMLFile.html#a5288a663fb130ba112c205bd7c556fd4">XMLFile</a> ()</td></tr>
<tr class="memdesc:a5288a663fb130ba112c205bd7c556fd4"><td class="mdescLeft"> </td><td class="mdescRight">Default constructor. <a href="#a5288a663fb130ba112c205bd7c556fd4">More...</a><br/></td></tr>
<tr class="separator:a5288a663fb130ba112c205bd7c556fd4"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:ab6a2f018df297124fba778512994282a"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1Internal_1_1XMLFile.html#ab6a2f018df297124fba778512994282a">XMLFile</a> (const <a class="el" href="classOpenMS_1_1String.html">String</a> &schema_location, const <a class="el" href="classOpenMS_1_1String.html">String</a> &version)</td></tr>
<tr class="memdesc:ab6a2f018df297124fba778512994282a"><td class="mdescLeft"> </td><td class="mdescRight">Constructor that sets the schema location. <a href="#ab6a2f018df297124fba778512994282a">More...</a><br/></td></tr>
<tr class="separator:ab6a2f018df297124fba778512994282a"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:ae64064342fc97bdd2008c5a91cd6d9de"><td class="memItemLeft" align="right" valign="top">virtual </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1Internal_1_1XMLFile.html#ae64064342fc97bdd2008c5a91cd6d9de">~XMLFile</a> ()</td></tr>
<tr class="memdesc:ae64064342fc97bdd2008c5a91cd6d9de"><td class="mdescLeft"> </td><td class="mdescRight">Destructor. <a href="#ae64064342fc97bdd2008c5a91cd6d9de">More...</a><br/></td></tr>
<tr class="separator:ae64064342fc97bdd2008c5a91cd6d9de"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a2f3216da86d8ced03f1b102a5c2e886c"><td class="memItemLeft" align="right" valign="top">bool </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1Internal_1_1XMLFile.html#a2f3216da86d8ced03f1b102a5c2e886c">isValid</a> (const <a class="el" href="classOpenMS_1_1String.html">String</a> &filename, std::ostream &os=std::cerr)</td></tr>
<tr class="memdesc:a2f3216da86d8ced03f1b102a5c2e886c"><td class="mdescLeft"> </td><td class="mdescRight">Checks if a file validates against the XML schema. <a href="#a2f3216da86d8ced03f1b102a5c2e886c">More...</a><br/></td></tr>
<tr class="separator:a2f3216da86d8ced03f1b102a5c2e886c"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:ae6b3b4b6857bc1987282e2f29611dd41"><td class="memItemLeft" align="right" valign="top">const <a class="el" href="classOpenMS_1_1String.html">String</a> & </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1Internal_1_1XMLFile.html#ae6b3b4b6857bc1987282e2f29611dd41">getVersion</a> () const </td></tr>
<tr class="memdesc:ae6b3b4b6857bc1987282e2f29611dd41"><td class="mdescLeft"> </td><td class="mdescRight">return the version of the schema <a href="#ae6b3b4b6857bc1987282e2f29611dd41">More...</a><br/></td></tr>
<tr class="separator:ae6b3b4b6857bc1987282e2f29611dd41"><td class="memSeparator" colspan="2"> </td></tr>
</table><table class="memberdecls">
<tr class="heading"><td colspan="2"><h2 class="groupheader"><a name="pro-methods"></a>
Protected Member Functions</h2></td></tr>
<tr class="memitem:ab08cc6e67bde4d478045ece950deb32b"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1Internal_1_1XMLFile.html#ab08cc6e67bde4d478045ece950deb32b">parse_</a> (const <a class="el" href="classOpenMS_1_1String.html">String</a> &filename, <a class="el" href="classOpenMS_1_1Internal_1_1XMLHandler.html">XMLHandler</a> *handler)</td></tr>
<tr class="memdesc:ab08cc6e67bde4d478045ece950deb32b"><td class="mdescLeft"> </td><td class="mdescRight">Parses the XML file given by <code>filename</code> using the handler given by <code>handler</code>. <a href="#ab08cc6e67bde4d478045ece950deb32b">More...</a><br/></td></tr>
<tr class="separator:ab08cc6e67bde4d478045ece950deb32b"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:aa99a8fa1726ecc3b865167eea1c17db7"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1Internal_1_1XMLFile.html#aa99a8fa1726ecc3b865167eea1c17db7">save_</a> (const <a class="el" href="classOpenMS_1_1String.html">String</a> &filename, <a class="el" href="classOpenMS_1_1Internal_1_1XMLHandler.html">XMLHandler</a> *handler) const </td></tr>
<tr class="memdesc:aa99a8fa1726ecc3b865167eea1c17db7"><td class="mdescLeft"> </td><td class="mdescRight">Stores the contents of the XML handler given by <code>handler</code> in the file given by <code>filename</code>. <a href="#aa99a8fa1726ecc3b865167eea1c17db7">More...</a><br/></td></tr>
<tr class="separator:aa99a8fa1726ecc3b865167eea1c17db7"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a97478c2a7b5ed960dae2ac5da0c03045"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1Internal_1_1XMLFile.html#a97478c2a7b5ed960dae2ac5da0c03045">enforceEncoding_</a> (const <a class="el" href="classOpenMS_1_1String.html">String</a> &encoding)</td></tr>
<tr class="separator:a97478c2a7b5ed960dae2ac5da0c03045"><td class="memSeparator" colspan="2"> </td></tr>
</table><table class="memberdecls">
<tr class="heading"><td colspan="2"><h2 class="groupheader"><a name="pro-attribs"></a>
Protected Attributes</h2></td></tr>
<tr class="memitem:aea8dd5b28e6057c3e2b3f296966431c3"><td class="memItemLeft" align="right" valign="top"><a class="el" href="classOpenMS_1_1String.html">String</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1Internal_1_1XMLFile.html#aea8dd5b28e6057c3e2b3f296966431c3">schema_location_</a></td></tr>
<tr class="memdesc:aea8dd5b28e6057c3e2b3f296966431c3"><td class="mdescLeft"> </td><td class="mdescRight">XML schema file location. <a href="#aea8dd5b28e6057c3e2b3f296966431c3">More...</a><br/></td></tr>
<tr class="separator:aea8dd5b28e6057c3e2b3f296966431c3"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a5a33231ac1616a429e6533af15231951"><td class="memItemLeft" align="right" valign="top"><a class="el" href="classOpenMS_1_1String.html">String</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1Internal_1_1XMLFile.html#a5a33231ac1616a429e6533af15231951">schema_version_</a></td></tr>
<tr class="memdesc:a5a33231ac1616a429e6533af15231951"><td class="mdescLeft"> </td><td class="mdescRight">Version string. <a href="#a5a33231ac1616a429e6533af15231951">More...</a><br/></td></tr>
<tr class="separator:a5a33231ac1616a429e6533af15231951"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a6b0159bfc4bc3062d47825cccfeec9cd"><td class="memItemLeft" align="right" valign="top"><a class="el" href="classOpenMS_1_1String.html">String</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1Internal_1_1XMLFile.html#a6b0159bfc4bc3062d47825cccfeec9cd">enforced_encoding_</a></td></tr>
<tr class="memdesc:a6b0159bfc4bc3062d47825cccfeec9cd"><td class="mdescLeft"> </td><td class="mdescRight">Encoding string that replaces the encoding (system dependend or specified in the XML). Disabled if empty. Used as a workaround for XTandem output xml. <a href="#a6b0159bfc4bc3062d47825cccfeec9cd">More...</a><br/></td></tr>
<tr class="separator:a6b0159bfc4bc3062d47825cccfeec9cd"><td class="memSeparator" colspan="2"> </td></tr>
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<a name="details" id="details"></a><h2 class="groupheader">Detailed Description</h2>
<div class="textblock"><p>Base class for loading/storing XML files that have a handler derived from <a class="el" href="classOpenMS_1_1Internal_1_1XMLHandler.html" title="Base class for XML handlers. ">XMLHandler</a>. </p>
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<td class="memname"><a class="el" href="classOpenMS_1_1Internal_1_1XMLFile.html">XMLFile</a> </td>
<td>(</td>
<td class="paramname"></td><td>)</td>
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<p>Default constructor. </p>
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<td class="memname"><a class="el" href="classOpenMS_1_1Internal_1_1XMLFile.html">XMLFile</a> </td>
<td>(</td>
<td class="paramtype">const <a class="el" href="classOpenMS_1_1String.html">String</a> & </td>
<td class="paramname"><em>schema_location</em>, </td>
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<td class="paramkey"></td>
<td></td>
<td class="paramtype">const <a class="el" href="classOpenMS_1_1String.html">String</a> & </td>
<td class="paramname"><em>version</em> </td>
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<p>Constructor that sets the schema location. </p>
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<td class="memname">virtual ~<a class="el" href="classOpenMS_1_1Internal_1_1XMLFile.html">XMLFile</a> </td>
<td>(</td>
<td class="paramname"></td><td>)</td>
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<p>Destructor. </p>
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<h2 class="groupheader">Member Function Documentation</h2>
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<td class="memname">void enforceEncoding_ </td>
<td>(</td>
<td class="paramtype">const <a class="el" href="classOpenMS_1_1String.html">String</a> & </td>
<td class="paramname"><em>encoding</em></td><td>)</td>
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<td class="memname">const <a class="el" href="classOpenMS_1_1String.html">String</a>& getVersion </td>
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<p>return the version of the schema </p>
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<td class="memname">bool isValid </td>
<td>(</td>
<td class="paramtype">const <a class="el" href="classOpenMS_1_1String.html">String</a> & </td>
<td class="paramname"><em>filename</em>, </td>
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<td class="paramtype">std::ostream & </td>
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<p>Checks if a file validates against the XML schema. </p>
<p>Error messages are printed to the error stream, unless redirected with the attribute <code>os</code> .</p>
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<tr><td class="paramname"><a class="el" href="classOpenMS_1_1Exception_1_1NotImplemented.html" title="Not implemented exception. ">Exception::NotImplemented</a></td><td>is thrown if there is no schema available for the file type </td></tr>
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<td class="memname">void parse_ </td>
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<p>Parses the XML file given by <code>filename</code> using the handler given by <code>handler</code>. </p>
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<tr><td class="paramname"><a class="el" href="classOpenMS_1_1Exception_1_1ParseError.html" title="Parse Error exception. ">Exception::ParseError</a></td><td>is thrown if an error occurred during the parsing </td></tr>
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<p>Stores the contents of the XML handler given by <code>handler</code> in the file given by <code>filename</code>. </p>
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<tr><td class="paramname"><a class="el" href="classOpenMS_1_1Exception_1_1UnableToCreateFile.html" title="Unable to create file exception. ">Exception::UnableToCreateFile</a></td><td>is thrown if the file cannot be created </td></tr>
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<h2 class="groupheader">Member Data Documentation</h2>
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<td class="memname"><a class="el" href="classOpenMS_1_1String.html">String</a> enforced_encoding_</td>
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<p>Encoding string that replaces the encoding (system dependend or specified in the XML). Disabled if empty. Used as a workaround for XTandem output xml. </p>
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<td class="memname"><a class="el" href="classOpenMS_1_1String.html">String</a> schema_location_</td>
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<p>XML schema file location. </p>
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<td class="memname"><a class="el" href="classOpenMS_1_1String.html">String</a> schema_version_</td>
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<p>Version string. </p>
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<TD><font color="#c0c0c0">OpenMS / TOPP release 1.11.1</font></TD>
<TD align="right"><font color="#c0c0c0">Documentation generated on Thu Nov 14 2013 11:19:38 using doxygen 1.8.5</font></TD>
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