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<HTML>
<HEAD>
<TITLE>MzIdentMLFile 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="classOpenMS_1_1MzIdentMLFile.html">MzIdentMLFile</a></li> </ul>
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<div class="header">
<div class="summary">
<a href="#pub-methods">Public Member Functions</a> |
<a href="classOpenMS_1_1MzIdentMLFile-members.html">List of all members</a> </div>
<div class="headertitle">
<div class="title">MzIdentMLFile Class Reference<div class="ingroups"><a class="el" href="group__FileIO.html">File IO</a></div></div> </div>
</div><!--header-->
<div class="contents">
<p><a class="el" href="classOpenMS_1_1File.html" title="Basic file handling operations. ">File</a> adapter for MzIdentML files.
<a href="classOpenMS_1_1MzIdentMLFile.html#details">More...</a></p>
<p><code>#include <<a class="el" href="MzIdentMLFile_8h_source.html">OpenMS/FORMAT/MzIdentMLFile.h</a>></code></p>
<div class="dynheader">
Inheritance diagram for MzIdentMLFile:</div>
<div class="dyncontent">
<div class="center">
<img src="classOpenMS_1_1MzIdentMLFile.png" usemap="#MzIdentMLFile_map" alt=""/>
<map id="MzIdentMLFile_map" name="MzIdentMLFile_map">
<area href="classOpenMS_1_1Internal_1_1XMLFile.html" title="Base class for loading/storing XML files that have a handler derived from XMLHandler. " alt="XMLFile" shape="rect" coords="0,0,103,24"/>
<area href="classOpenMS_1_1ProgressLogger.html" title="Base class for all classes that want to report their progess. " alt="ProgressLogger" shape="rect" coords="113,0,216,24"/>
</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:a81de445e9277c4035362b2777d7e4711"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1MzIdentMLFile.html#a81de445e9277c4035362b2777d7e4711">MzIdentMLFile</a> ()</td></tr>
<tr class="memdesc:a81de445e9277c4035362b2777d7e4711"><td class="mdescLeft"> </td><td class="mdescRight">Default constructor. <a href="#a81de445e9277c4035362b2777d7e4711">More...</a><br/></td></tr>
<tr class="separator:a81de445e9277c4035362b2777d7e4711"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a17890fb856591634e4cd4e7b097613fa"><td class="memItemLeft" align="right" valign="top">virtual </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1MzIdentMLFile.html#a17890fb856591634e4cd4e7b097613fa">~MzIdentMLFile</a> ()</td></tr>
<tr class="memdesc:a17890fb856591634e4cd4e7b097613fa"><td class="mdescLeft"> </td><td class="mdescRight">Destructor. <a href="#a17890fb856591634e4cd4e7b097613fa">More...</a><br/></td></tr>
<tr class="separator:a17890fb856591634e4cd4e7b097613fa"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:af965030c2244e7749de1241c66afdf8a"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1MzIdentMLFile.html#af965030c2244e7749de1241c66afdf8a">load</a> (const <a class="el" href="classOpenMS_1_1String.html">String</a> &filename, <a class="el" href="classOpenMS_1_1Identification.html">Identification</a> &id)</td></tr>
<tr class="memdesc:af965030c2244e7749de1241c66afdf8a"><td class="mdescLeft"> </td><td class="mdescRight">Loads a map from a MzIdentML file. <a href="#af965030c2244e7749de1241c66afdf8a">More...</a><br/></td></tr>
<tr class="separator:af965030c2244e7749de1241c66afdf8a"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a7ec5ff1e615b76a33b83bbb69f9a7bdf"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1MzIdentMLFile.html#a7ec5ff1e615b76a33b83bbb69f9a7bdf">store</a> (const <a class="el" href="classOpenMS_1_1String.html">String</a> &filename, const std::vector< <a class="el" href="classOpenMS_1_1ProteinIdentification.html">ProteinIdentification</a> > &poid, const std::vector< <a class="el" href="classOpenMS_1_1PeptideIdentification.html">PeptideIdentification</a> > &peid) const </td></tr>
<tr class="memdesc:a7ec5ff1e615b76a33b83bbb69f9a7bdf"><td class="mdescLeft"> </td><td class="mdescRight">Stores a map in a MzIdentML file. <a href="#a7ec5ff1e615b76a33b83bbb69f9a7bdf">More...</a><br/></td></tr>
<tr class="separator:a7ec5ff1e615b76a33b83bbb69f9a7bdf"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a700364332a36ede5464eac312d44548e"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1MzIdentMLFile.html#a700364332a36ede5464eac312d44548e">store</a> (const <a class="el" href="classOpenMS_1_1String.html">String</a> &filename, const <a class="el" href="classOpenMS_1_1Identification.html">Identification</a> &id) const </td></tr>
<tr class="memdesc:a700364332a36ede5464eac312d44548e"><td class="mdescLeft"> </td><td class="mdescRight">Stores a map in a MzIdentML file. <a href="#a700364332a36ede5464eac312d44548e">More...</a><br/></td></tr>
<tr class="separator:a700364332a36ede5464eac312d44548e"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:af5e450b7447446df2440b53445d04273"><td class="memItemLeft" align="right" valign="top">bool </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1MzIdentMLFile.html#af5e450b7447446df2440b53445d04273">isSemanticallyValid</a> (const <a class="el" href="classOpenMS_1_1String.html">String</a> &filename, <a class="el" href="classOpenMS_1_1StringList.html">StringList</a> &errors, <a class="el" href="classOpenMS_1_1StringList.html">StringList</a> &warnings)</td></tr>
<tr class="memdesc:af5e450b7447446df2440b53445d04273"><td class="mdescLeft"> </td><td class="mdescRight">Checks if a file is valid with respect to the mapping file and the controlled vocabulary. <a href="#af5e450b7447446df2440b53445d04273">More...</a><br/></td></tr>
<tr class="separator:af5e450b7447446df2440b53445d04273"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="inherit_header pub_methods_classOpenMS_1_1Internal_1_1XMLFile"><td colspan="2" onclick="javascript:toggleInherit('pub_methods_classOpenMS_1_1Internal_1_1XMLFile')"><img src="closed.png" alt="-"/> Public Member Functions inherited from <a class="el" href="classOpenMS_1_1Internal_1_1XMLFile.html">XMLFile</a></td></tr>
<tr class="memitem:a5288a663fb130ba112c205bd7c556fd4 inherit pub_methods_classOpenMS_1_1Internal_1_1XMLFile"><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 inherit pub_methods_classOpenMS_1_1Internal_1_1XMLFile"><td class="mdescLeft"> </td><td class="mdescRight">Default constructor. <a href="#a5288a663fb130ba112c205bd7c556fd4">More...</a><br/></td></tr>
<tr class="separator:a5288a663fb130ba112c205bd7c556fd4 inherit pub_methods_classOpenMS_1_1Internal_1_1XMLFile"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:ab6a2f018df297124fba778512994282a inherit pub_methods_classOpenMS_1_1Internal_1_1XMLFile"><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 inherit pub_methods_classOpenMS_1_1Internal_1_1XMLFile"><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 inherit pub_methods_classOpenMS_1_1Internal_1_1XMLFile"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:ae64064342fc97bdd2008c5a91cd6d9de inherit pub_methods_classOpenMS_1_1Internal_1_1XMLFile"><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 inherit pub_methods_classOpenMS_1_1Internal_1_1XMLFile"><td class="mdescLeft"> </td><td class="mdescRight">Destructor. <a href="#ae64064342fc97bdd2008c5a91cd6d9de">More...</a><br/></td></tr>
<tr class="separator:ae64064342fc97bdd2008c5a91cd6d9de inherit pub_methods_classOpenMS_1_1Internal_1_1XMLFile"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a2f3216da86d8ced03f1b102a5c2e886c inherit pub_methods_classOpenMS_1_1Internal_1_1XMLFile"><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 inherit pub_methods_classOpenMS_1_1Internal_1_1XMLFile"><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 inherit pub_methods_classOpenMS_1_1Internal_1_1XMLFile"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:ae6b3b4b6857bc1987282e2f29611dd41 inherit pub_methods_classOpenMS_1_1Internal_1_1XMLFile"><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 inherit pub_methods_classOpenMS_1_1Internal_1_1XMLFile"><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 inherit pub_methods_classOpenMS_1_1Internal_1_1XMLFile"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="inherit_header pub_methods_classOpenMS_1_1ProgressLogger"><td colspan="2" onclick="javascript:toggleInherit('pub_methods_classOpenMS_1_1ProgressLogger')"><img src="closed.png" alt="-"/> Public Member Functions inherited from <a class="el" href="classOpenMS_1_1ProgressLogger.html">ProgressLogger</a></td></tr>
<tr class="memitem:a2a106011aec95b2013d7a545f2063d01 inherit pub_methods_classOpenMS_1_1ProgressLogger"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1ProgressLogger.html#a2a106011aec95b2013d7a545f2063d01">ProgressLogger</a> ()</td></tr>
<tr class="memdesc:a2a106011aec95b2013d7a545f2063d01 inherit pub_methods_classOpenMS_1_1ProgressLogger"><td class="mdescLeft"> </td><td class="mdescRight">Constructor. <a href="#a2a106011aec95b2013d7a545f2063d01">More...</a><br/></td></tr>
<tr class="separator:a2a106011aec95b2013d7a545f2063d01 inherit pub_methods_classOpenMS_1_1ProgressLogger"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a19c882d907f90f7f88c7436d82cd2a13 inherit pub_methods_classOpenMS_1_1ProgressLogger"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1ProgressLogger.html#a19c882d907f90f7f88c7436d82cd2a13">~ProgressLogger</a> ()</td></tr>
<tr class="memdesc:a19c882d907f90f7f88c7436d82cd2a13 inherit pub_methods_classOpenMS_1_1ProgressLogger"><td class="mdescLeft"> </td><td class="mdescRight">Destructor. <a href="#a19c882d907f90f7f88c7436d82cd2a13">More...</a><br/></td></tr>
<tr class="separator:a19c882d907f90f7f88c7436d82cd2a13 inherit pub_methods_classOpenMS_1_1ProgressLogger"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:acc3538c5284777d8702ccaefeb61e74c inherit pub_methods_classOpenMS_1_1ProgressLogger"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1ProgressLogger.html#acc3538c5284777d8702ccaefeb61e74c">setLogType</a> (<a class="el" href="classOpenMS_1_1ProgressLogger.html#af67907baa897e9fb84df0cb89795b87c">LogType</a> type) const </td></tr>
<tr class="memdesc:acc3538c5284777d8702ccaefeb61e74c inherit pub_methods_classOpenMS_1_1ProgressLogger"><td class="mdescLeft"> </td><td class="mdescRight">Sets the progress log that should be used. The default type is NONE! <a href="#acc3538c5284777d8702ccaefeb61e74c">More...</a><br/></td></tr>
<tr class="separator:acc3538c5284777d8702ccaefeb61e74c inherit pub_methods_classOpenMS_1_1ProgressLogger"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a67024cdd5c34ec571baecabd8f783310 inherit pub_methods_classOpenMS_1_1ProgressLogger"><td class="memItemLeft" align="right" valign="top"><a class="el" href="classOpenMS_1_1ProgressLogger.html#af67907baa897e9fb84df0cb89795b87c">LogType</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1ProgressLogger.html#a67024cdd5c34ec571baecabd8f783310">getLogType</a> () const </td></tr>
<tr class="memdesc:a67024cdd5c34ec571baecabd8f783310 inherit pub_methods_classOpenMS_1_1ProgressLogger"><td class="mdescLeft"> </td><td class="mdescRight">Returns the type of progress log being used. <a href="#a67024cdd5c34ec571baecabd8f783310">More...</a><br/></td></tr>
<tr class="separator:a67024cdd5c34ec571baecabd8f783310 inherit pub_methods_classOpenMS_1_1ProgressLogger"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:af1c45ecd71b5041b70319249e8e73591 inherit pub_methods_classOpenMS_1_1ProgressLogger"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1ProgressLogger.html#af1c45ecd71b5041b70319249e8e73591">startProgress</a> (<a class="el" href="group__Concept.html#gae113cb41304c6692c7bf5d0624dc6f0f">SignedSize</a> begin, <a class="el" href="group__Concept.html#gae113cb41304c6692c7bf5d0624dc6f0f">SignedSize</a> end, const <a class="el" href="classOpenMS_1_1String.html">String</a> &label) const </td></tr>
<tr class="memdesc:af1c45ecd71b5041b70319249e8e73591 inherit pub_methods_classOpenMS_1_1ProgressLogger"><td class="mdescLeft"> </td><td class="mdescRight">Initializes the progress display. <a href="#af1c45ecd71b5041b70319249e8e73591">More...</a><br/></td></tr>
<tr class="separator:af1c45ecd71b5041b70319249e8e73591 inherit pub_methods_classOpenMS_1_1ProgressLogger"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a8852277abd03220cc7b80d6c1bed6fed inherit pub_methods_classOpenMS_1_1ProgressLogger"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1ProgressLogger.html#a8852277abd03220cc7b80d6c1bed6fed">setProgress</a> (<a class="el" href="group__Concept.html#gae113cb41304c6692c7bf5d0624dc6f0f">SignedSize</a> value) const </td></tr>
<tr class="memdesc:a8852277abd03220cc7b80d6c1bed6fed inherit pub_methods_classOpenMS_1_1ProgressLogger"><td class="mdescLeft"> </td><td class="mdescRight">Sets the current progress. <a href="#a8852277abd03220cc7b80d6c1bed6fed">More...</a><br/></td></tr>
<tr class="separator:a8852277abd03220cc7b80d6c1bed6fed inherit pub_methods_classOpenMS_1_1ProgressLogger"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a1cc1012b0cdaea97f58d571af1ff45de inherit pub_methods_classOpenMS_1_1ProgressLogger"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1ProgressLogger.html#a1cc1012b0cdaea97f58d571af1ff45de">endProgress</a> () const </td></tr>
<tr class="memdesc:a1cc1012b0cdaea97f58d571af1ff45de inherit pub_methods_classOpenMS_1_1ProgressLogger"><td class="mdescLeft"> </td><td class="mdescRight">Ends the progress display. <a href="#a1cc1012b0cdaea97f58d571af1ff45de">More...</a><br/></td></tr>
<tr class="separator:a1cc1012b0cdaea97f58d571af1ff45de inherit pub_methods_classOpenMS_1_1ProgressLogger"><td class="memSeparator" colspan="2"> </td></tr>
</table><table class="memberdecls">
<tr class="heading"><td colspan="2"><h2 class="groupheader"><a name="inherited"></a>
Additional Inherited Members</h2></td></tr>
<tr class="inherit_header pub_types_classOpenMS_1_1ProgressLogger"><td colspan="2" onclick="javascript:toggleInherit('pub_types_classOpenMS_1_1ProgressLogger')"><img src="closed.png" alt="-"/> Public Types inherited from <a class="el" href="classOpenMS_1_1ProgressLogger.html">ProgressLogger</a></td></tr>
<tr class="memitem:af67907baa897e9fb84df0cb89795b87c inherit pub_types_classOpenMS_1_1ProgressLogger"><td class="memItemLeft" align="right" valign="top">enum  </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1ProgressLogger.html#af67907baa897e9fb84df0cb89795b87c">LogType</a> { <a class="el" href="classOpenMS_1_1ProgressLogger.html#af67907baa897e9fb84df0cb89795b87ca3ab34dd50405af2d5a62627d572f7860">CMD</a>,
<a class="el" href="classOpenMS_1_1ProgressLogger.html#af67907baa897e9fb84df0cb89795b87ca73c6901c7c648a6a735770bc038bb26a">GUI</a>,
<a class="el" href="classOpenMS_1_1ProgressLogger.html#af67907baa897e9fb84df0cb89795b87cac157bdf0b85a40d2619cbc8bc1ae5fe2">NONE</a>
}</td></tr>
<tr class="memdesc:af67907baa897e9fb84df0cb89795b87c"><td class="mdescLeft"> </td><td class="mdescRight">Possible log types. <a href="classOpenMS_1_1ProgressLogger.html#af67907baa897e9fb84df0cb89795b87c">More...</a><br/></td></tr>
<tr class="separator:af67907baa897e9fb84df0cb89795b87c inherit pub_types_classOpenMS_1_1ProgressLogger"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="inherit_header pro_methods_classOpenMS_1_1Internal_1_1XMLFile"><td colspan="2" onclick="javascript:toggleInherit('pro_methods_classOpenMS_1_1Internal_1_1XMLFile')"><img src="closed.png" alt="-"/> Protected Member Functions inherited from <a class="el" href="classOpenMS_1_1Internal_1_1XMLFile.html">XMLFile</a></td></tr>
<tr class="memitem:ab08cc6e67bde4d478045ece950deb32b inherit pro_methods_classOpenMS_1_1Internal_1_1XMLFile"><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 inherit pro_methods_classOpenMS_1_1Internal_1_1XMLFile"><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 inherit pro_methods_classOpenMS_1_1Internal_1_1XMLFile"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:aa99a8fa1726ecc3b865167eea1c17db7 inherit pro_methods_classOpenMS_1_1Internal_1_1XMLFile"><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 inherit pro_methods_classOpenMS_1_1Internal_1_1XMLFile"><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 inherit pro_methods_classOpenMS_1_1Internal_1_1XMLFile"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a97478c2a7b5ed960dae2ac5da0c03045 inherit pro_methods_classOpenMS_1_1Internal_1_1XMLFile"><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 inherit pro_methods_classOpenMS_1_1Internal_1_1XMLFile"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="inherit_header pro_attribs_classOpenMS_1_1Internal_1_1XMLFile"><td colspan="2" onclick="javascript:toggleInherit('pro_attribs_classOpenMS_1_1Internal_1_1XMLFile')"><img src="closed.png" alt="-"/> Protected Attributes inherited from <a class="el" href="classOpenMS_1_1Internal_1_1XMLFile.html">XMLFile</a></td></tr>
<tr class="memitem:aea8dd5b28e6057c3e2b3f296966431c3 inherit pro_attribs_classOpenMS_1_1Internal_1_1XMLFile"><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 inherit pro_attribs_classOpenMS_1_1Internal_1_1XMLFile"><td class="mdescLeft"> </td><td class="mdescRight">XML schema file location. <a href="#aea8dd5b28e6057c3e2b3f296966431c3">More...</a><br/></td></tr>
<tr class="separator:aea8dd5b28e6057c3e2b3f296966431c3 inherit pro_attribs_classOpenMS_1_1Internal_1_1XMLFile"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a5a33231ac1616a429e6533af15231951 inherit pro_attribs_classOpenMS_1_1Internal_1_1XMLFile"><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 inherit pro_attribs_classOpenMS_1_1Internal_1_1XMLFile"><td class="mdescLeft"> </td><td class="mdescRight">Version string. <a href="#a5a33231ac1616a429e6533af15231951">More...</a><br/></td></tr>
<tr class="separator:a5a33231ac1616a429e6533af15231951 inherit pro_attribs_classOpenMS_1_1Internal_1_1XMLFile"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a6b0159bfc4bc3062d47825cccfeec9cd inherit pro_attribs_classOpenMS_1_1Internal_1_1XMLFile"><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 inherit pro_attribs_classOpenMS_1_1Internal_1_1XMLFile"><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>
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<tr class="inherit_header pro_attribs_classOpenMS_1_1ProgressLogger"><td colspan="2" onclick="javascript:toggleInherit('pro_attribs_classOpenMS_1_1ProgressLogger')"><img src="closed.png" alt="-"/> Protected Attributes inherited from <a class="el" href="classOpenMS_1_1ProgressLogger.html">ProgressLogger</a></td></tr>
<tr class="memitem:a7c691d7de2a43bc5606e96cb15da3641 inherit pro_attribs_classOpenMS_1_1ProgressLogger"><td class="memItemLeft" align="right" valign="top"><a class="el" href="classOpenMS_1_1ProgressLogger.html#af67907baa897e9fb84df0cb89795b87c">LogType</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1ProgressLogger.html#a7c691d7de2a43bc5606e96cb15da3641">type_</a></td></tr>
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<tr class="memitem:a56589612e0e4164bf80c3918a087d05a inherit pro_attribs_classOpenMS_1_1ProgressLogger"><td class="memItemLeft" align="right" valign="top"><a class="el" href="group__Concept.html#gae113cb41304c6692c7bf5d0624dc6f0f">SignedSize</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1ProgressLogger.html#a56589612e0e4164bf80c3918a087d05a">begin_</a></td></tr>
<tr class="separator:a56589612e0e4164bf80c3918a087d05a inherit pro_attribs_classOpenMS_1_1ProgressLogger"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a0c749bf4e621699b7a5c45ae22c2fa90 inherit pro_attribs_classOpenMS_1_1ProgressLogger"><td class="memItemLeft" align="right" valign="top"><a class="el" href="group__Concept.html#gae113cb41304c6692c7bf5d0624dc6f0f">SignedSize</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1ProgressLogger.html#a0c749bf4e621699b7a5c45ae22c2fa90">end_</a></td></tr>
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<tr class="memitem:aec57b26e143202dc119a41592e075932 inherit pro_attribs_classOpenMS_1_1ProgressLogger"><td class="memItemLeft" align="right" valign="top"><a class="el" href="group__Concept.html#gae113cb41304c6692c7bf5d0624dc6f0f">SignedSize</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1ProgressLogger.html#aec57b26e143202dc119a41592e075932">value_</a></td></tr>
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<tr class="memitem:a76072b3919abcf01141ba68da8a001fd inherit pro_attribs_classOpenMS_1_1ProgressLogger"><td class="memItemLeft" align="right" valign="top">QProgressDialog * </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1ProgressLogger.html#a76072b3919abcf01141ba68da8a001fd">dlg_</a></td></tr>
<tr class="separator:a76072b3919abcf01141ba68da8a001fd inherit pro_attribs_classOpenMS_1_1ProgressLogger"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a6d9750520313ea7f843d7a49cb2e9e5f inherit pro_attribs_classOpenMS_1_1ProgressLogger"><td class="memItemLeft" align="right" valign="top"><a class="el" href="classOpenMS_1_1StopWatch.html">StopWatch</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1ProgressLogger.html#a6d9750520313ea7f843d7a49cb2e9e5f">stop_watch_</a></td></tr>
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<tr class="memitem:a79bacf60c4109d7517590441c7f85f9c inherit pro_attribs_classOpenMS_1_1ProgressLogger"><td class="memItemLeft" align="right" valign="top">time_t </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1ProgressLogger.html#a79bacf60c4109d7517590441c7f85f9c">last_invoke_</a></td></tr>
<tr class="separator:a79bacf60c4109d7517590441c7f85f9c inherit pro_attribs_classOpenMS_1_1ProgressLogger"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="inherit_header pro_static_attribs_classOpenMS_1_1ProgressLogger"><td colspan="2" onclick="javascript:toggleInherit('pro_static_attribs_classOpenMS_1_1ProgressLogger')"><img src="closed.png" alt="-"/> Static Protected Attributes inherited from <a class="el" href="classOpenMS_1_1ProgressLogger.html">ProgressLogger</a></td></tr>
<tr class="memitem:a94eb3ef5ef94b83eb348dd00a2b53119 inherit pro_static_attribs_classOpenMS_1_1ProgressLogger"><td class="memItemLeft" align="right" valign="top">static int </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1ProgressLogger.html#a94eb3ef5ef94b83eb348dd00a2b53119">recursion_depth_</a></td></tr>
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<a name="details" id="details"></a><h2 class="groupheader">Detailed Description</h2>
<div class="textblock"><p><a class="el" href="classOpenMS_1_1File.html" title="Basic file handling operations. ">File</a> adapter for MzIdentML files. </p>
<p>If a critical error occurs due to the missing functionality, <a class="el" href="classOpenMS_1_1Exception_1_1NotImplemented.html" title="Not implemented exception. ">Exception::NotImplemented</a> is thrown. </p>
</div><h2 class="groupheader">Constructor & Destructor Documentation</h2>
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<td class="memname"><a class="el" href="classOpenMS_1_1MzIdentMLFile.html">MzIdentMLFile</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">virtual ~<a class="el" href="classOpenMS_1_1MzIdentMLFile.html">MzIdentMLFile</a> </td>
<td>(</td>
<td class="paramname"></td><td>)</td>
<td></td>
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<td class="mlabels-right">
<span class="mlabels"><span class="mlabel">virtual</span></span> </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">bool isSemanticallyValid </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="paramkey"></td>
<td></td>
<td class="paramtype"><a class="el" href="classOpenMS_1_1StringList.html">StringList</a> & </td>
<td class="paramname"><em>errors</em>, </td>
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<td class="paramkey"></td>
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<td class="paramtype"><a class="el" href="classOpenMS_1_1StringList.html">StringList</a> & </td>
<td class="paramname"><em>warnings</em> </td>
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<td>)</td>
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<p>Checks if a file is valid with respect to the mapping file and the controlled vocabulary. </p>
<dl class="params"><dt>Parameters</dt><dd>
<table class="params">
<tr><td class="paramname">filename</td><td><a class="el" href="classOpenMS_1_1File.html" title="Basic file handling operations. ">File</a> name of the file to be checked. </td></tr>
<tr><td class="paramname">errors</td><td>Errors during the validation are returned in this output parameter. </td></tr>
<tr><td class="paramname">warnings</td><td>Warnings during the validation are returned in this output parameter.</td></tr>
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<dl class="exception"><dt>Exceptions</dt><dd>
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<tr><td class="paramname"><a class="el" href="classOpenMS_1_1Exception_1_1FileNotFound.html" title="File not found exception. ">Exception::FileNotFound</a></td><td>is thrown if the file could not be opened </td></tr>
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<td class="memname">void load </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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<tr>
<td class="paramkey"></td>
<td></td>
<td class="paramtype"><a class="el" href="classOpenMS_1_1Identification.html">Identification</a> & </td>
<td class="paramname"><em>id</em> </td>
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<td></td>
<td>)</td>
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<p>Loads a map from a MzIdentML file. </p>
<dl class="exception"><dt>Exceptions</dt><dd>
<table class="exception">
<tr><td class="paramname"><a class="el" href="classOpenMS_1_1Exception_1_1FileNotFound.html" title="File not found exception. ">Exception::FileNotFound</a></td><td>is thrown if the file could not be opened </td></tr>
<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 occurs during parsing </td></tr>
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<td class="memname">void store </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="paramkey"></td>
<td></td>
<td class="paramtype">const std::vector< <a class="el" href="classOpenMS_1_1ProteinIdentification.html">ProteinIdentification</a> > & </td>
<td class="paramname"><em>poid</em>, </td>
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<td class="paramkey"></td>
<td></td>
<td class="paramtype">const std::vector< <a class="el" href="classOpenMS_1_1PeptideIdentification.html">PeptideIdentification</a> > & </td>
<td class="paramname"><em>peid</em> </td>
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<td>)</td>
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<p>Stores a map in a MzIdentML file. </p>
<dl class="exception"><dt>Exceptions</dt><dd>
<table class="exception">
<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 could not be created </td></tr>
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<td class="memname">void store </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="paramkey"></td>
<td></td>
<td class="paramtype">const <a class="el" href="classOpenMS_1_1Identification.html">Identification</a> & </td>
<td class="paramname"><em>id</em> </td>
</tr>
<tr>
<td></td>
<td>)</td>
<td></td><td> const</td>
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<p>Stores a map in a MzIdentML file. </p>
<dl class="exception"><dt>Exceptions</dt><dd>
<table class="exception">
<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 could not be created </td></tr>
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<HR style="height:1px; border:none; border-top:1px solid #c0c0c0;">
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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 11:19:31 using doxygen 1.8.5</font></TD>
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