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<HTML>
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<TITLE>CachedmzML 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_1CachedmzML.html">CachedmzML</a></li> </ul>
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<div class="header">
<div class="summary">
<a href="#pub-types">Public Types</a> |
<a href="#pub-methods">Public Member Functions</a> |
<a href="#pub-static-methods">Static Public Member Functions</a> |
<a href="#pro-methods">Protected Member Functions</a> |
<a href="#pro-attribs">Protected Attributes</a> |
<a href="#pri-attribs">Private Attributes</a> |
<a href="classOpenMS_1_1CachedmzML-members.html">List of all members</a> </div>
<div class="headertitle">
<div class="title">CachedmzML Class Reference</div> </div>
</div><!--header-->
<div class="contents">
<p>An class that uses on-disk caching to read and write spectra and chromatograms.
<a href="classOpenMS_1_1CachedmzML.html#details">More...</a></p>
<p><code>#include <<a class="el" href="CachedmzML_8h_source.html">OpenMS/ANALYSIS/OPENSWATH/CachedmzML.h</a>></code></p>
<div class="dynheader">
Inheritance diagram for CachedmzML:</div>
<div class="dyncontent">
<div class="center">
<img src="classOpenMS_1_1CachedmzML.png" usemap="#CachedmzML_map" alt=""/>
<map id="CachedmzML_map" name="CachedmzML_map">
<area href="classOpenMS_1_1ProgressLogger.html" title="Base class for all classes that want to report their progess. " alt="ProgressLogger" shape="rect" coords="0,0,103,24"/>
</map>
</div></div>
<table class="memberdecls">
<tr class="heading"><td colspan="2"><h2 class="groupheader"><a name="pub-types"></a>
Public Types</h2></td></tr>
<tr class="memitem:ab52083d2b64e8db5b7a61c399e288859"><td class="memItemLeft" align="right" valign="top">typedef <a class="el" href="classOpenMS_1_1MSExperiment.html">MSExperiment</a>< <a class="el" href="classOpenMS_1_1Peak1D.html">Peak1D</a> > </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1CachedmzML.html#ab52083d2b64e8db5b7a61c399e288859">MapType</a></td></tr>
<tr class="separator:ab52083d2b64e8db5b7a61c399e288859"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a8148ed639ab1958764997633934ddf38"><td class="memItemLeft" align="right" valign="top">typedef <a class="el" href="classOpenMS_1_1MSSpectrum.html">MSSpectrum</a>< <a class="el" href="classOpenMS_1_1Peak1D.html">Peak1D</a> > </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1CachedmzML.html#a8148ed639ab1958764997633934ddf38">SpectrumType</a></td></tr>
<tr class="separator:a8148ed639ab1958764997633934ddf38"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:acc92c018e6237189da684e845d9b5f9d"><td class="memItemLeft" align="right" valign="top">typedef <a class="el" href="classOpenMS_1_1MSChromatogram.html">MSChromatogram</a><br class="typebreak"/>
< <a class="el" href="classOpenMS_1_1ChromatogramPeak.html">ChromatogramPeak</a> > </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1CachedmzML.html#acc92c018e6237189da684e845d9b5f9d">ChromatogramType</a></td></tr>
<tr class="separator:acc92c018e6237189da684e845d9b5f9d"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:acbe7ec10442c29895ba7b8881430b10c"><td class="memItemLeft" align="right" valign="top">typedef <a class="el" href="classdouble.html">double</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1CachedmzML.html#acbe7ec10442c29895ba7b8881430b10c">DatumSingleton</a></td></tr>
<tr class="separator:acbe7ec10442c29895ba7b8881430b10c"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a18bb8f03c608ff0936723df34eef1e2c"><td class="memItemLeft" align="right" valign="top">typedef std::vector<br class="typebreak"/>
< <a class="el" href="classOpenMS_1_1CachedmzML.html#acbe7ec10442c29895ba7b8881430b10c">DatumSingleton</a> > </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1CachedmzML.html#a18bb8f03c608ff0936723df34eef1e2c">Datavector</a></td></tr>
<tr class="separator:a18bb8f03c608ff0936723df34eef1e2c"><td class="memSeparator" colspan="2"> </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>
</table><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:ac37f5b61a6e64df22f26f98cd9f4f6d5"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1CachedmzML.html#ac37f5b61a6e64df22f26f98cd9f4f6d5">createMemdumpIndex</a> (<a class="el" href="classOpenMS_1_1String.html">String</a> filename)</td></tr>
<tr class="memdesc:ac37f5b61a6e64df22f26f98cd9f4f6d5"><td class="mdescLeft"> </td><td class="mdescRight">Create an index on the location of all the spectra and chromatograms. <a href="#ac37f5b61a6e64df22f26f98cd9f4f6d5">More...</a><br/></td></tr>
<tr class="separator:ac37f5b61a6e64df22f26f98cd9f4f6d5"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:ad117b85f93b2c7c04b5031c4d6f70a9f"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1CachedmzML.html#ad117b85f93b2c7c04b5031c4d6f70a9f">writeMetadata</a> (<a class="el" href="classOpenMS_1_1CachedmzML.html#ab52083d2b64e8db5b7a61c399e288859">MapType</a> exp, <a class="el" href="classOpenMS_1_1String.html">String</a> out_meta)</td></tr>
<tr class="memdesc:ad117b85f93b2c7c04b5031c4d6f70a9f"><td class="mdescLeft"> </td><td class="mdescRight">Write only the meta data of an <a class="el" href="classOpenMS_1_1MSExperiment.html" title="Representation of a mass spectrometry experiment. ">MSExperiment</a>. <a href="#ad117b85f93b2c7c04b5031c4d6f70a9f">More...</a><br/></td></tr>
<tr class="separator:ad117b85f93b2c7c04b5031c4d6f70a9f"><td class="memSeparator" colspan="2"> </td></tr>
<tr><td colspan="2"><div class="groupHeader">Constructors and Destructor</div></td></tr>
<tr class="memitem:a1806a02ca770647f159046fa0960cb6d"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1CachedmzML.html#a1806a02ca770647f159046fa0960cb6d">CachedmzML</a> ()</td></tr>
<tr class="memdesc:a1806a02ca770647f159046fa0960cb6d"><td class="mdescLeft"> </td><td class="mdescRight">Default constructor. <a href="#a1806a02ca770647f159046fa0960cb6d">More...</a><br/></td></tr>
<tr class="separator:a1806a02ca770647f159046fa0960cb6d"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:afe7d98074c75e0f8a4f47299fdebf34e"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1CachedmzML.html#afe7d98074c75e0f8a4f47299fdebf34e">~CachedmzML</a> ()</td></tr>
<tr class="memdesc:afe7d98074c75e0f8a4f47299fdebf34e"><td class="mdescLeft"> </td><td class="mdescRight">Default destructor. <a href="#afe7d98074c75e0f8a4f47299fdebf34e">More...</a><br/></td></tr>
<tr class="separator:afe7d98074c75e0f8a4f47299fdebf34e"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a608b23b52372613ab1bcbd1ef741a8e9"><td class="memItemLeft" align="right" valign="top"><a class="el" href="classOpenMS_1_1CachedmzML.html">CachedmzML</a> & </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1CachedmzML.html#a608b23b52372613ab1bcbd1ef741a8e9">operator=</a> (const <a class="el" href="classOpenMS_1_1CachedmzML.html">CachedmzML</a> &rhs)</td></tr>
<tr class="memdesc:a608b23b52372613ab1bcbd1ef741a8e9"><td class="mdescLeft"> </td><td class="mdescRight">Assignment operator. <a href="#a608b23b52372613ab1bcbd1ef741a8e9">More...</a><br/></td></tr>
<tr class="separator:a608b23b52372613ab1bcbd1ef741a8e9"><td class="memSeparator" colspan="2"> </td></tr>
<tr><td colspan="2"><div class="groupHeader">Read / Write an MSExperiment</div></td></tr>
<tr class="memitem:a05e2855d054a52e09f3b29b87912830f"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1CachedmzML.html#a05e2855d054a52e09f3b29b87912830f">writeMemdump</a> (<a class="el" href="classOpenMS_1_1CachedmzML.html#ab52083d2b64e8db5b7a61c399e288859">MapType</a> &exp, <a class="el" href="classOpenMS_1_1String.html">String</a> out)</td></tr>
<tr class="memdesc:a05e2855d054a52e09f3b29b87912830f"><td class="mdescLeft"> </td><td class="mdescRight">Write complete spectra as a dump to the disk. <a href="#a05e2855d054a52e09f3b29b87912830f">More...</a><br/></td></tr>
<tr class="separator:a05e2855d054a52e09f3b29b87912830f"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a78668c2f83b7e9e4fe595c57ab4c642d"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1CachedmzML.html#a78668c2f83b7e9e4fe595c57ab4c642d">readMemdump</a> (<a class="el" href="classOpenMS_1_1CachedmzML.html#ab52083d2b64e8db5b7a61c399e288859">MapType</a> &exp_reading, <a class="el" href="classOpenMS_1_1String.html">String</a> filename) const </td></tr>
<tr class="memdesc:a78668c2f83b7e9e4fe595c57ab4c642d"><td class="mdescLeft"> </td><td class="mdescRight">Read all spectra from a dump from the disk. <a href="#a78668c2f83b7e9e4fe595c57ab4c642d">More...</a><br/></td></tr>
<tr class="separator:a78668c2f83b7e9e4fe595c57ab4c642d"><td class="memSeparator" colspan="2"> </td></tr>
<tr><td colspan="2"><div class="groupHeader">Read a single MSSpectrum</div></td></tr>
<tr class="memitem:abf65a29f3396b6baff3cecbd71bb05c8"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1CachedmzML.html#abf65a29f3396b6baff3cecbd71bb05c8">readSingleSpectrum</a> (<a class="el" href="classOpenMS_1_1MSSpectrum.html">MSSpectrum</a>< <a class="el" href="classOpenMS_1_1Peak1D.html">Peak1D</a> > &spectrum, const <a class="el" href="classOpenMS_1_1String.html">String</a> &filename, const <a class="el" href="group__Concept.html#gaf9ecec2d692138fab9167164a457cbd4">Size</a> &idx) const </td></tr>
<tr class="memdesc:abf65a29f3396b6baff3cecbd71bb05c8"><td class="mdescLeft"> </td><td class="mdescRight">Read a single spectrum from the given filename. <a href="#abf65a29f3396b6baff3cecbd71bb05c8">More...</a><br/></td></tr>
<tr class="separator:abf65a29f3396b6baff3cecbd71bb05c8"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:ae1739688d14fd48cfe0237b6033a56fc"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1CachedmzML.html#ae1739688d14fd48cfe0237b6033a56fc">readSingleSpectrum</a> (<a class="el" href="classOpenMS_1_1MSSpectrum.html">MSSpectrum</a>< <a class="el" href="classOpenMS_1_1Peak1D.html">Peak1D</a> > &spectrum, std::ifstream &ifs, const <a class="el" href="group__Concept.html#gaf9ecec2d692138fab9167164a457cbd4">Size</a> &idx) const </td></tr>
<tr class="separator:ae1739688d14fd48cfe0237b6033a56fc"><td class="memSeparator" colspan="2"> </td></tr>
<tr><td colspan="2"><div class="groupHeader">Access to the binary indices</div></td></tr>
<tr class="memitem:adde8fb22b8fbfc4d985d8a8467ad91f5"><td class="memItemLeft" align="right" valign="top">const std::vector< <a class="el" href="group__Concept.html#gaf9ecec2d692138fab9167164a457cbd4">Size</a> > & </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1CachedmzML.html#adde8fb22b8fbfc4d985d8a8467ad91f5">getSpectraIndex</a> () const </td></tr>
<tr class="separator:adde8fb22b8fbfc4d985d8a8467ad91f5"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a4a462892f19dc42bfeb2f1b67098eba9"><td class="memItemLeft" align="right" valign="top">const std::vector< <a class="el" href="group__Concept.html#gaf9ecec2d692138fab9167164a457cbd4">Size</a> > & </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1CachedmzML.html#a4a462892f19dc42bfeb2f1b67098eba9">getChromatogramIndex</a> () const </td></tr>
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<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="pub-static-methods"></a>
Static Public Member Functions</h2></td></tr>
<tr class="memitem:afc7807c8e8c717754f5355d4a85e8ea2"><td class="memItemLeft" align="right" valign="top">static void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1CachedmzML.html#afc7807c8e8c717754f5355d4a85e8ea2">readSpectrumFast</a> (<a class="el" href="namespaceOpenSwath.html#a8aaa5999a567d0b9a393ea480244162b">OpenSwath::BinaryDataArrayPtr</a> data1, <a class="el" href="namespaceOpenSwath.html#a8aaa5999a567d0b9a393ea480244162b">OpenSwath::BinaryDataArrayPtr</a> data2, std::ifstream &ifs, int ms_level, <a class="el" href="classdouble.html">double</a> rt)</td></tr>
<tr class="memdesc:afc7807c8e8c717754f5355d4a85e8ea2"><td class="mdescLeft"> </td><td class="mdescRight">fast access without copying <a href="#afc7807c8e8c717754f5355d4a85e8ea2">More...</a><br/></td></tr>
<tr class="separator:afc7807c8e8c717754f5355d4a85e8ea2"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a5fe3a9e1e476192f7f0e9818cbce3ceb"><td class="memItemLeft" align="right" valign="top">static void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1CachedmzML.html#a5fe3a9e1e476192f7f0e9818cbce3ceb">readChromatogramFast</a> (<a class="el" href="namespaceOpenSwath.html#a8aaa5999a567d0b9a393ea480244162b">OpenSwath::BinaryDataArrayPtr</a> data1, <a class="el" href="namespaceOpenSwath.html#a8aaa5999a567d0b9a393ea480244162b">OpenSwath::BinaryDataArrayPtr</a> data2, std::ifstream &ifs)</td></tr>
<tr class="memdesc:a5fe3a9e1e476192f7f0e9818cbce3ceb"><td class="mdescLeft"> </td><td class="mdescRight">fast access without copying <a href="#a5fe3a9e1e476192f7f0e9818cbce3ceb">More...</a><br/></td></tr>
<tr class="separator:a5fe3a9e1e476192f7f0e9818cbce3ceb"><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:aeef724ccc70a46b7a027d2f0db112ea0"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1CachedmzML.html#aeef724ccc70a46b7a027d2f0db112ea0">readSpectrum_</a> (<a class="el" href="classOpenMS_1_1CachedmzML.html#a18bb8f03c608ff0936723df34eef1e2c">Datavector</a> &data1, <a class="el" href="classOpenMS_1_1CachedmzML.html#a18bb8f03c608ff0936723df34eef1e2c">Datavector</a> &data2, std::ifstream &ifs, int &ms_level, <a class="el" href="classdouble.html">double</a> &rt) const </td></tr>
<tr class="separator:aeef724ccc70a46b7a027d2f0db112ea0"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:ad4ab33d391cc72c4b5e1720588a41958"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1CachedmzML.html#ad4ab33d391cc72c4b5e1720588a41958">readChromatogram_</a> (<a class="el" href="classOpenMS_1_1CachedmzML.html#a18bb8f03c608ff0936723df34eef1e2c">Datavector</a> &data1, <a class="el" href="classOpenMS_1_1CachedmzML.html#a18bb8f03c608ff0936723df34eef1e2c">Datavector</a> &data2, std::ifstream &ifs) const </td></tr>
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<tr class="memitem:a357a85b39a2e70c765e95f12cf46579c"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1CachedmzML.html#a357a85b39a2e70c765e95f12cf46579c">readSpectrum_</a> (<a class="el" href="classOpenMS_1_1CachedmzML.html#a8148ed639ab1958764997633934ddf38">SpectrumType</a> &spectrum, std::ifstream &ifs) const </td></tr>
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<tr class="memitem:a3dc2908daf773558c67dca821c1d0ae7"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1CachedmzML.html#a3dc2908daf773558c67dca821c1d0ae7">readChromatogram_</a> (<a class="el" href="classOpenMS_1_1CachedmzML.html#acc92c018e6237189da684e845d9b5f9d">ChromatogramType</a> &chromatogram, std::ifstream &ifs) const </td></tr>
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<tr class="memitem:a898c0cb00444946a2de2e4c77b0c3d17"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1CachedmzML.html#a898c0cb00444946a2de2e4c77b0c3d17">writeSpectrum_</a> (const <a class="el" href="classOpenMS_1_1CachedmzML.html#a8148ed639ab1958764997633934ddf38">SpectrumType</a> &spectrum, std::ofstream &ofs)</td></tr>
<tr class="separator:a898c0cb00444946a2de2e4c77b0c3d17"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:af84b721d86630a1d8f05c4389070831b"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1CachedmzML.html#af84b721d86630a1d8f05c4389070831b">writeChromatogram_</a> (const <a class="el" href="classOpenMS_1_1CachedmzML.html#acc92c018e6237189da684e845d9b5f9d">ChromatogramType</a> &chromatogram, std::ofstream &ofs)</td></tr>
<tr class="separator:af84b721d86630a1d8f05c4389070831b"><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:a094c1fd87db598d60d692ed3f03547ba"><td class="memItemLeft" align="right" valign="top">std::vector< <a class="el" href="group__Concept.html#gaf9ecec2d692138fab9167164a457cbd4">Size</a> > </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1CachedmzML.html#a094c1fd87db598d60d692ed3f03547ba">spectra_index_</a></td></tr>
<tr class="separator:a094c1fd87db598d60d692ed3f03547ba"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a15d13796ad38b3a74526f89cc6b07f01"><td class="memItemLeft" align="right" valign="top">std::vector< <a class="el" href="group__Concept.html#gaf9ecec2d692138fab9167164a457cbd4">Size</a> > </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1CachedmzML.html#a15d13796ad38b3a74526f89cc6b07f01">chrom_index_</a></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>
<tr class="separator:a7c691d7de2a43bc5606e96cb15da3641 inherit pro_attribs_classOpenMS_1_1ProgressLogger"><td class="memSeparator" colspan="2"> </td></tr>
<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>
<tr class="separator:a0c749bf4e621699b7a5c45ae22c2fa90 inherit pro_attribs_classOpenMS_1_1ProgressLogger"><td class="memSeparator" colspan="2"> </td></tr>
<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>
<tr class="separator:aec57b26e143202dc119a41592e075932 inherit pro_attribs_classOpenMS_1_1ProgressLogger"><td class="memSeparator" colspan="2"> </td></tr>
<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>
<tr class="separator:a6d9750520313ea7f843d7a49cb2e9e5f inherit pro_attribs_classOpenMS_1_1ProgressLogger"><td class="memSeparator" colspan="2"> </td></tr>
<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>
</table><table class="memberdecls">
<tr class="heading"><td colspan="2"><h2 class="groupheader"><a name="pri-attribs"></a>
Private Attributes</h2></td></tr>
<tr class="memitem:a310dba1a46765ac74b704cfebb30a1ef"><td class="memItemLeft" align="right" valign="top">int </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1CachedmzML.html#a310dba1a46765ac74b704cfebb30a1ef">int_field_</a></td></tr>
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Additional Inherited Members</h2></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>
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<a name="details" id="details"></a><h2 class="groupheader">Detailed Description</h2>
<div class="textblock"><p>An class that uses on-disk caching to read and write spectra and chromatograms. </p>
<p>This class implements the OpenSWATH Spectrum Access interface (ISpectrumAccess) using the <a class="el" href="classOpenMS_1_1CachedmzML.html" title="An class that uses on-disk caching to read and write spectra and chromatograms. ">CachedmzML</a> class which is able to read and write a cached mzML file. </p>
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<td class="memname">typedef <a class="el" href="classOpenMS_1_1MSChromatogram.html">MSChromatogram</a><<a class="el" href="classOpenMS_1_1ChromatogramPeak.html">ChromatogramPeak</a>> <a class="el" href="classOpenMS_1_1CachedmzML.html#acc92c018e6237189da684e845d9b5f9d">ChromatogramType</a></td>
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<td class="memname">typedef std::vector<<a class="el" href="classOpenMS_1_1CachedmzML.html#acbe7ec10442c29895ba7b8881430b10c">DatumSingleton</a>> <a class="el" href="classOpenMS_1_1CachedmzML.html#a18bb8f03c608ff0936723df34eef1e2c">Datavector</a></td>
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<td class="memname">typedef <a class="el" href="classdouble.html">double</a> <a class="el" href="classOpenMS_1_1CachedmzML.html#acbe7ec10442c29895ba7b8881430b10c">DatumSingleton</a></td>
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<td class="memname">typedef <a class="el" href="classOpenMS_1_1MSExperiment.html">MSExperiment</a><<a class="el" href="classOpenMS_1_1Peak1D.html">Peak1D</a>> <a class="el" href="classOpenMS_1_1CachedmzML.html#ab52083d2b64e8db5b7a61c399e288859">MapType</a></td>
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<td class="memname">typedef <a class="el" href="classOpenMS_1_1MSSpectrum.html">MSSpectrum</a><<a class="el" href="classOpenMS_1_1Peak1D.html">Peak1D</a>> <a class="el" href="classOpenMS_1_1CachedmzML.html#a8148ed639ab1958764997633934ddf38">SpectrumType</a></td>
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<h2 class="groupheader">Constructor & Destructor Documentation</h2>
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<td class="memname"><a class="el" href="classOpenMS_1_1CachedmzML.html">CachedmzML</a> </td>
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<p>Default constructor. </p>
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<p>Default destructor. </p>
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<td class="memname">void createMemdumpIndex </td>
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<p>Create an index on the location of all the spectra and chromatograms. </p>
<p>References <a class="el" href="CachedmzML_8h.html#a54061e5993a5517320d425f44408cc86">MAGIC_NUMBER</a>.</p>
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<td class="memname">const std::vector<<a class="el" href="group__Concept.html#gaf9ecec2d692138fab9167164a457cbd4">Size</a>>& getChromatogramIndex </td>
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<td class="memname">const std::vector<<a class="el" href="group__Concept.html#gaf9ecec2d692138fab9167164a457cbd4">Size</a>>& getSpectraIndex </td>
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<td class="memname"><a class="el" href="classOpenMS_1_1CachedmzML.html">CachedmzML</a>& operator= </td>
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<p>Assignment operator. </p>
<p>References <a class="el" href="classOpenMS_1_1CachedmzML.html#a15d13796ad38b3a74526f89cc6b07f01">CachedmzML::chrom_index_</a>, and <a class="el" href="classOpenMS_1_1CachedmzML.html#a094c1fd87db598d60d692ed3f03547ba">CachedmzML::spectra_index_</a>.</p>
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<td class="memname">void readChromatogram_ </td>
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<td class="memname">void readChromatogram_ </td>
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<p>References <a class="el" href="classOpenMS_1_1ChromatogramPeak.html#ab875c2479c6cd2a0189e4684bfa4f97d">ChromatogramPeak::setIntensity()</a>, and <a class="el" href="classOpenMS_1_1ChromatogramPeak.html#a98fe0c3fba1788864d35d8ef6159459f">ChromatogramPeak::setRT()</a>.</p>
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<td class="memname">static void readChromatogramFast </td>
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<p>fast access without copying </p>
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<p>Read all spectra from a dump from the disk. </p>
<p>References <a class="el" href="classOpenMS_1_1MSExperiment.html#ae9dafbb74a1a4c430ceef03e25ab8e10">MSExperiment< PeakT, ChromatogramPeakT >::addSpectrum()</a>, <a class="el" href="CachedmzML_8h.html#a54061e5993a5517320d425f44408cc86">MAGIC_NUMBER</a>, <a class="el" href="classOpenMS_1_1MSExperiment.html#af5e67d26823ec12e91434f4e74faa9d1">MSExperiment< PeakT, ChromatogramPeakT >::reserve()</a>, and <a class="el" href="classOpenMS_1_1MSExperiment.html#a4c105ad43f3c61a53997af8ba28720e2">MSExperiment< PeakT, ChromatogramPeakT >::setChromatograms()</a>.</p>
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<p>Read a single spectrum from the given filename. </p>
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<p>References <a class="el" href="classOpenMS_1_1Peak1D.html#ab875c2479c6cd2a0189e4684bfa4f97d">Peak1D::setIntensity()</a>, <a class="el" href="classOpenMS_1_1MSSpectrum.html#a24f081fe74bbbf773533ad19e96d8358">MSSpectrum< PeakT >::setMSLevel()</a>, <a class="el" href="classOpenMS_1_1Peak1D.html#ab9c4ce5d172a75d6de2c6f5f1847c9ab">Peak1D::setMZ()</a>, and <a class="el" href="classOpenMS_1_1MSSpectrum.html#aac8c50f318154e9e5b7b01aee806e17f">MSSpectrum< PeakT >::setRT()</a>.</p>
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<td class="memname">static void readSpectrumFast </td>
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<p>fast access without copying </p>
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<td class="memname">void writeChromatogram_ </td>
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<p>Write complete spectra as a dump to the disk. </p>
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<td class="memname">void writeMetadata </td>
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<p>Write only the meta data of an <a class="el" href="classOpenMS_1_1MSExperiment.html" title="Representation of a mass spectrometry experiment. ">MSExperiment</a>. </p>
<p>References <a class="el" href="classOpenMS_1_1MSExperiment.html#af072fc84225ae927f7527f208ea86cbd">MSExperiment< PeakT, ChromatogramPeakT >::clear()</a>, <a class="el" href="classOpenMS_1_1MSExperiment.html#a02fccfed86a20f8bd0f6b98c23fadb2e">MSExperiment< PeakT, ChromatogramPeakT >::getChromatograms()</a>, <a class="el" href="classOpenMS_1_1MSExperiment.html#a4c105ad43f3c61a53997af8ba28720e2">MSExperiment< PeakT, ChromatogramPeakT >::setChromatograms()</a>, <a class="el" href="classOpenMS_1_1MSExperiment.html#a9d78a687cf2a391198bb3cbc08bc06cb">MSExperiment< PeakT, ChromatogramPeakT >::size()</a>, and <a class="el" href="classOpenMS_1_1MzMLFile.html#adb795d215478320be7c6130ff7ddf853">MzMLFile::store()</a>.</p>
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<td class="memname">void writeSpectrum_ </td>
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<p>References <a class="el" href="classOpenMS_1_1MSSpectrum.html#a1726d12d7597baa9fca0c1da0492f3da">MSSpectrum< PeakT >::getMSLevel()</a>, and <a class="el" href="classOpenMS_1_1MSSpectrum.html#a3da529bd3240fa0d7148484bbef0b9d7">MSSpectrum< PeakT >::getRT()</a>.</p>
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<h2 class="groupheader">Member Data Documentation</h2>
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<td class="memname">std::vector<<a class="el" href="group__Concept.html#gaf9ecec2d692138fab9167164a457cbd4">Size</a>> chrom_index_</td>
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<p>Referenced by <a class="el" href="classOpenMS_1_1CachedmzML.html#a608b23b52372613ab1bcbd1ef741a8e9">CachedmzML::operator=()</a>.</p>
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<td class="memname"><a class="el" href="classdouble.html">double</a> dbl_field_</td>
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<td class="memname">int int_field_</td>
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<td class="memname">std::vector<<a class="el" href="group__Concept.html#gaf9ecec2d692138fab9167164a457cbd4">Size</a>> spectra_index_</td>
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<p>Referenced by <a class="el" href="classOpenMS_1_1CachedmzML.html#a608b23b52372613ab1bcbd1ef741a8e9">CachedmzML::operator=()</a>.</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 11:19:26 using doxygen 1.8.5</font></TD>
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