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<HTML>
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<TITLE>PepIterator 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_1PepIterator.html">PepIterator</a></li> </ul>
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<a href="#pub-types">Public Types</a> |
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<div class="title">PepIterator Class Reference<span class="mlabels"><span class="mlabel">abstract</span></span></div> </div>
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<div class="contents">
<p>Abstract base class for different peptide iterators.
<a href="classOpenMS_1_1PepIterator.html#details">More...</a></p>
<p><code>#include <<a class="el" href="PepIterator_8h_source.html">OpenMS/CHEMISTRY/PepIterator.h</a>></code></p>
<div class="dynheader">
Inheritance diagram for PepIterator:</div>
<div class="dyncontent">
<div class="center">
<img src="classOpenMS_1_1PepIterator.png" usemap="#PepIterator_map" alt=""/>
<map id="PepIterator_map" name="PepIterator_map">
<area href="classOpenMS_1_1EdwardsLippertIterator.html" title="finds all Peptide Candidates with given masses and given fasta file " alt="EdwardsLippertIterator" shape="rect" coords="0,56,179,80"/>
<area href="classOpenMS_1_1FastaIterator.html" title="Iterator over FASTA file. " alt="FastaIterator" shape="rect" coords="189,56,368,80"/>
<area href="classOpenMS_1_1FastaIteratorIntern.html" title="Iterator for a FASTA file. " alt="FastaIteratorIntern" shape="rect" coords="378,56,557,80"/>
<area href="classOpenMS_1_1TrypticIterator.html" title="finds all tryptic Peptides with every missed cleavage " alt="TrypticIterator" shape="rect" coords="567,56,746,80"/>
<area href="classOpenMS_1_1EdwardsLippertIteratorTryptic.html" title="EdwardsLippertIterator that only retrieves tryptic seqences. " alt="EdwardsLippertIteratorTryptic" shape="rect" coords="0,112,179,136"/>
</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:a21b87598c52cebe4ab2ebc0bb1655e89"><td class="memItemLeft" align="right" valign="top">typedef std::pair< <a class="el" href="classOpenMS_1_1String.html">String</a>, <a class="el" href="classOpenMS_1_1String.html">String</a> > </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1PepIterator.html#a21b87598c52cebe4ab2ebc0bb1655e89">FASTAEntry</a></td></tr>
<tr class="separator:a21b87598c52cebe4ab2ebc0bb1655e89"><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:aebe4326baeb556ac80ae9429d5037956"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1PepIterator.html#aebe4326baeb556ac80ae9429d5037956">PepIterator</a> ()</td></tr>
<tr class="memdesc:aebe4326baeb556ac80ae9429d5037956"><td class="mdescLeft"> </td><td class="mdescRight">constructor <a href="#aebe4326baeb556ac80ae9429d5037956">More...</a><br/></td></tr>
<tr class="separator:aebe4326baeb556ac80ae9429d5037956"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a89afd5646a25e6d814456741c4687e31"><td class="memItemLeft" align="right" valign="top">virtual </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1PepIterator.html#a89afd5646a25e6d814456741c4687e31">~PepIterator</a> ()</td></tr>
<tr class="memdesc:a89afd5646a25e6d814456741c4687e31"><td class="mdescLeft"> </td><td class="mdescRight">destructor <a href="#a89afd5646a25e6d814456741c4687e31">More...</a><br/></td></tr>
<tr class="separator:a89afd5646a25e6d814456741c4687e31"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:aa5ee57c068ee8f610d0bf9f231421760"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1PepIterator.html#aa5ee57c068ee8f610d0bf9f231421760">PepIterator</a> (const <a class="el" href="classOpenMS_1_1PepIterator.html">PepIterator</a> &source)</td></tr>
<tr class="memdesc:aa5ee57c068ee8f610d0bf9f231421760"><td class="mdescLeft"> </td><td class="mdescRight">copy constructor <a href="#aa5ee57c068ee8f610d0bf9f231421760">More...</a><br/></td></tr>
<tr class="separator:aa5ee57c068ee8f610d0bf9f231421760"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a1e97ffb93531c2360ae0bb63ab0a62c6"><td class="memItemLeft" align="right" valign="top">virtual <a class="el" href="classOpenMS_1_1PepIterator.html#a21b87598c52cebe4ab2ebc0bb1655e89">FASTAEntry</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1PepIterator.html#a1e97ffb93531c2360ae0bb63ab0a62c6">operator*</a> ()=0</td></tr>
<tr class="memdesc:a1e97ffb93531c2360ae0bb63ab0a62c6"><td class="mdescLeft"> </td><td class="mdescRight">* operator for accessing the value of the iterator <a href="#a1e97ffb93531c2360ae0bb63ab0a62c6">More...</a><br/></td></tr>
<tr class="separator:a1e97ffb93531c2360ae0bb63ab0a62c6"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a6db496644ee00c57075340072ad1d3b8"><td class="memItemLeft" align="right" valign="top">virtual <a class="el" href="classOpenMS_1_1PepIterator.html">PepIterator</a> & </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1PepIterator.html#a6db496644ee00c57075340072ad1d3b8">operator++</a> ()=0</td></tr>
<tr class="memdesc:a6db496644ee00c57075340072ad1d3b8"><td class="mdescLeft"> </td><td class="mdescRight">operator ++ for pre-increment <a href="#a6db496644ee00c57075340072ad1d3b8">More...</a><br/></td></tr>
<tr class="separator:a6db496644ee00c57075340072ad1d3b8"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:aa4e696669eb33d163d65ec9d3b343b09"><td class="memItemLeft" align="right" valign="top">virtual <a class="el" href="classOpenMS_1_1PepIterator.html">PepIterator</a> * </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1PepIterator.html#aa4e696669eb33d163d65ec9d3b343b09">operator++</a> (int)=0</td></tr>
<tr class="memdesc:aa4e696669eb33d163d65ec9d3b343b09"><td class="mdescLeft"> </td><td class="mdescRight">operator ++ for post-increment <a href="#aa4e696669eb33d163d65ec9d3b343b09">More...</a><br/></td></tr>
<tr class="separator:aa4e696669eb33d163d65ec9d3b343b09"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:ae4e709e523353cfb85943b8813fdef0f"><td class="memItemLeft" align="right" valign="top">virtual void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1PepIterator.html#ae4e709e523353cfb85943b8813fdef0f">setFastaFile</a> (const <a class="el" href="classOpenMS_1_1String.html">String</a> &f)=0</td></tr>
<tr class="memdesc:ae4e709e523353cfb85943b8813fdef0f"><td class="mdescLeft"> </td><td class="mdescRight">setter for FASTA file <a href="#ae4e709e523353cfb85943b8813fdef0f">More...</a><br/></td></tr>
<tr class="separator:ae4e709e523353cfb85943b8813fdef0f"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a9b9d24053affd496e54afedfed47f3e0"><td class="memItemLeft" align="right" valign="top">virtual <a class="el" href="classOpenMS_1_1String.html">String</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1PepIterator.html#a9b9d24053affd496e54afedfed47f3e0">getFastaFile</a> ()=0</td></tr>
<tr class="memdesc:a9b9d24053affd496e54afedfed47f3e0"><td class="mdescLeft"> </td><td class="mdescRight">getter for FASTA file <a href="#a9b9d24053affd496e54afedfed47f3e0">More...</a><br/></td></tr>
<tr class="separator:a9b9d24053affd496e54afedfed47f3e0"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:aa3d9038f341c4e7693684bc4608d6ed4"><td class="memItemLeft" align="right" valign="top">virtual void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1PepIterator.html#aa3d9038f341c4e7693684bc4608d6ed4">setSpectrum</a> (const std::vector< <a class="el" href="group__Concept.html#gace75bfb1aba684e874dffee13738bd15">DoubleReal</a> > &s)=0</td></tr>
<tr class="memdesc:aa3d9038f341c4e7693684bc4608d6ed4"><td class="mdescLeft"> </td><td class="mdescRight">setter for spectrum <a href="#aa3d9038f341c4e7693684bc4608d6ed4">More...</a><br/></td></tr>
<tr class="separator:aa3d9038f341c4e7693684bc4608d6ed4"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a76ac9563a3dd40f2f02790bdb1e00fd9"><td class="memItemLeft" align="right" valign="top">virtual const std::vector<br class="typebreak"/>
< <a class="el" href="group__Concept.html#gace75bfb1aba684e874dffee13738bd15">DoubleReal</a> > & </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1PepIterator.html#a76ac9563a3dd40f2f02790bdb1e00fd9">getSpectrum</a> ()=0</td></tr>
<tr class="memdesc:a76ac9563a3dd40f2f02790bdb1e00fd9"><td class="mdescLeft"> </td><td class="mdescRight">getter for spectrum <a href="#a76ac9563a3dd40f2f02790bdb1e00fd9">More...</a><br/></td></tr>
<tr class="separator:a76ac9563a3dd40f2f02790bdb1e00fd9"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a398690ada878a7dc5e01d57929ef2363"><td class="memItemLeft" align="right" valign="top">virtual void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1PepIterator.html#a398690ada878a7dc5e01d57929ef2363">setTolerance</a> (<a class="el" href="group__Concept.html#gace75bfb1aba684e874dffee13738bd15">DoubleReal</a> t)=0</td></tr>
<tr class="memdesc:a398690ada878a7dc5e01d57929ef2363"><td class="mdescLeft"> </td><td class="mdescRight">setter for tolerance <a href="#a398690ada878a7dc5e01d57929ef2363">More...</a><br/></td></tr>
<tr class="separator:a398690ada878a7dc5e01d57929ef2363"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a8b733898cb0fedb36fa2ca2c149c202e"><td class="memItemLeft" align="right" valign="top">virtual <a class="el" href="group__Concept.html#gace75bfb1aba684e874dffee13738bd15">DoubleReal</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1PepIterator.html#a8b733898cb0fedb36fa2ca2c149c202e">getTolerance</a> ()=0</td></tr>
<tr class="memdesc:a8b733898cb0fedb36fa2ca2c149c202e"><td class="mdescLeft"> </td><td class="mdescRight">getter for tolerance <a href="#a8b733898cb0fedb36fa2ca2c149c202e">More...</a><br/></td></tr>
<tr class="separator:a8b733898cb0fedb36fa2ca2c149c202e"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:ae8a0d9ca63f8bb3de100e347c3f3bca4"><td class="memItemLeft" align="right" valign="top">virtual bool </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1PepIterator.html#ae8a0d9ca63f8bb3de100e347c3f3bca4">begin</a> ()=0</td></tr>
<tr class="memdesc:ae8a0d9ca63f8bb3de100e347c3f3bca4"><td class="mdescLeft"> </td><td class="mdescRight">initializing iterator <a href="#ae8a0d9ca63f8bb3de100e347c3f3bca4">More...</a><br/></td></tr>
<tr class="separator:ae8a0d9ca63f8bb3de100e347c3f3bca4"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a2c60e21a5b7f6f394e0151ac242aff5d"><td class="memItemLeft" align="right" valign="top">virtual bool </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1PepIterator.html#a2c60e21a5b7f6f394e0151ac242aff5d">isAtEnd</a> ()=0</td></tr>
<tr class="memdesc:a2c60e21a5b7f6f394e0151ac242aff5d"><td class="mdescLeft"> </td><td class="mdescRight">idicator where iterator is at end <a href="#a2c60e21a5b7f6f394e0151ac242aff5d">More...</a><br/></td></tr>
<tr class="separator:a2c60e21a5b7f6f394e0151ac242aff5d"><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:a7899dbe105534dc1f81971dd71a26ff0"><td class="memItemLeft" align="right" valign="top">static void </td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenMS_1_1PepIterator.html#a7899dbe105534dc1f81971dd71a26ff0">registerChildren</a> ()</td></tr>
<tr class="memdesc:a7899dbe105534dc1f81971dd71a26ff0"><td class="mdescLeft"> </td><td class="mdescRight">all children has to be registered here <a href="#a7899dbe105534dc1f81971dd71a26ff0">More...</a><br/></td></tr>
<tr class="separator:a7899dbe105534dc1f81971dd71a26ff0"><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>Abstract base class for different peptide iterators. </p>
<dl class="section note"><dt>Note</dt><dd>every derived class has to implement the static functions "PepIterator * create()" and "const String getProductName()" (see <a class="el" href="classOpenMS_1_1Factory.html" title="Returns FactoryProduct* based on the name of the desired concrete FactoryProduct. ...">Factory</a> for details) </dd></dl>
</div><h2 class="groupheader">Member Typedef Documentation</h2>
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<td class="memname">typedef std::pair<<a class="el" href="classOpenMS_1_1String.html">String</a>, <a class="el" href="classOpenMS_1_1String.html">String</a>> <a class="el" href="classOpenMS_1_1PepIterator.html#a21b87598c52cebe4ab2ebc0bb1655e89">FASTAEntry</a></td>
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<h2 class="groupheader">Constructor & Destructor Documentation</h2>
<a class="anchor" id="aebe4326baeb556ac80ae9429d5037956"></a>
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<td class="memname"><a class="el" href="classOpenMS_1_1PepIterator.html">PepIterator</a> </td>
<td>(</td>
<td class="paramname"></td><td>)</td>
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<p>constructor </p>
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<td class="memname">virtual ~<a class="el" href="classOpenMS_1_1PepIterator.html">PepIterator</a> </td>
<td>(</td>
<td class="paramname"></td><td>)</td>
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<span class="mlabels"><span class="mlabel">virtual</span></span> </td>
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<p>destructor </p>
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<td class="memname"><a class="el" href="classOpenMS_1_1PepIterator.html">PepIterator</a> </td>
<td>(</td>
<td class="paramtype">const <a class="el" href="classOpenMS_1_1PepIterator.html">PepIterator</a> & </td>
<td class="paramname"><em>source</em></td><td>)</td>
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<p>copy constructor </p>
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<h2 class="groupheader">Member Function Documentation</h2>
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<td class="memname">virtual bool begin </td>
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<span class="mlabels"><span class="mlabel">pure virtual</span></span> </td>
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<p>initializing iterator </p>
<p>Implemented in <a class="el" href="classOpenMS_1_1FastaIteratorIntern.html#a50f45551c10ca30a0bc7f447e70188b1">FastaIteratorIntern</a>, <a class="el" href="classOpenMS_1_1FastaIterator.html#a50f45551c10ca30a0bc7f447e70188b1">FastaIterator</a>, <a class="el" href="classOpenMS_1_1TrypticIterator.html#a50f45551c10ca30a0bc7f447e70188b1">TrypticIterator</a>, and <a class="el" href="classOpenMS_1_1EdwardsLippertIterator.html#a50f45551c10ca30a0bc7f447e70188b1">EdwardsLippertIterator</a>.</p>
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<td class="memname">virtual <a class="el" href="classOpenMS_1_1String.html">String</a> getFastaFile </td>
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<td class="paramname"></td><td>)</td>
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<p>getter for FASTA file </p>
<dl class="section return"><dt>Returns</dt><dd><a class="el" href="classOpenMS_1_1String.html" title="A more convenient string class. ">String</a> with file location </dd></dl>
<p>Implemented in <a class="el" href="classOpenMS_1_1FastaIteratorIntern.html#a5bac16112a17e0b3b01ba5e5468e744f">FastaIteratorIntern</a>, <a class="el" href="classOpenMS_1_1FastaIterator.html#a5bac16112a17e0b3b01ba5e5468e744f">FastaIterator</a>, <a class="el" href="classOpenMS_1_1EdwardsLippertIterator.html#a5bac16112a17e0b3b01ba5e5468e744f">EdwardsLippertIterator</a>, and <a class="el" href="classOpenMS_1_1TrypticIterator.html#a5bac16112a17e0b3b01ba5e5468e744f">TrypticIterator</a>.</p>
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<td class="memname">virtual const std::vector<<a class="el" href="group__Concept.html#gace75bfb1aba684e874dffee13738bd15">DoubleReal</a>>& getSpectrum </td>
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<td class="paramname"></td><td>)</td>
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<p>getter for spectrum </p>
<dl class="section return"><dt>Returns</dt><dd>the used spectrum </dd></dl>
<p>Implemented in <a class="el" href="classOpenMS_1_1TrypticIterator.html#ae5d8ae6a47625445018d8a7e416aec1b">TrypticIterator</a>, <a class="el" href="classOpenMS_1_1EdwardsLippertIterator.html#ae5d8ae6a47625445018d8a7e416aec1b">EdwardsLippertIterator</a>, <a class="el" href="classOpenMS_1_1FastaIteratorIntern.html#ae5d8ae6a47625445018d8a7e416aec1b">FastaIteratorIntern</a>, and <a class="el" href="classOpenMS_1_1FastaIterator.html#ae5d8ae6a47625445018d8a7e416aec1b">FastaIterator</a>.</p>
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<td class="memname">virtual <a class="el" href="group__Concept.html#gace75bfb1aba684e874dffee13738bd15">DoubleReal</a> getTolerance </td>
<td>(</td>
<td class="paramname"></td><td>)</td>
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<p>getter for tolerance </p>
<dl class="section return"><dt>Returns</dt><dd>tolerance </dd></dl>
<p>Implemented in <a class="el" href="classOpenMS_1_1FastaIteratorIntern.html#a3cf6b0a9ead1e00ecdf43310820955e7">FastaIteratorIntern</a>, <a class="el" href="classOpenMS_1_1FastaIterator.html#a3cf6b0a9ead1e00ecdf43310820955e7">FastaIterator</a>, <a class="el" href="classOpenMS_1_1TrypticIterator.html#a3cf6b0a9ead1e00ecdf43310820955e7">TrypticIterator</a>, and <a class="el" href="classOpenMS_1_1EdwardsLippertIterator.html#a3cf6b0a9ead1e00ecdf43310820955e7">EdwardsLippertIterator</a>.</p>
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<td class="memname">virtual bool isAtEnd </td>
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<td class="paramname"></td><td>)</td>
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<span class="mlabels"><span class="mlabel">pure virtual</span></span> </td>
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<p>idicator where iterator is at end </p>
<p>Implemented in <a class="el" href="classOpenMS_1_1FastaIteratorIntern.html#ae078b21926e77272e3cc2792e8176e33">FastaIteratorIntern</a>, <a class="el" href="classOpenMS_1_1FastaIterator.html#ae078b21926e77272e3cc2792e8176e33">FastaIterator</a>, <a class="el" href="classOpenMS_1_1TrypticIterator.html#ae078b21926e77272e3cc2792e8176e33">TrypticIterator</a>, and <a class="el" href="classOpenMS_1_1EdwardsLippertIterator.html#ae078b21926e77272e3cc2792e8176e33">EdwardsLippertIterator</a>.</p>
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<td class="memname">virtual <a class="el" href="classOpenMS_1_1PepIterator.html#a21b87598c52cebe4ab2ebc0bb1655e89">FASTAEntry</a> operator* </td>
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<td class="paramname"></td><td>)</td>
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<p>* operator for accessing the value of the iterator </p>
<dl class="section return"><dt>Returns</dt><dd>FASTAEntry representing a peptide </dd></dl>
<dl class="exception"><dt>Exceptions</dt><dd>
<table class="exception">
<tr><td class="paramname">InvalidIterator</td><td>if iterator has not been initialized </td></tr>
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</dd>
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<p>Implemented in <a class="el" href="classOpenMS_1_1FastaIteratorIntern.html#a2468d86d946f361d96ea90bb8e6e28da">FastaIteratorIntern</a>, <a class="el" href="classOpenMS_1_1FastaIterator.html#a2468d86d946f361d96ea90bb8e6e28da">FastaIterator</a>, <a class="el" href="classOpenMS_1_1EdwardsLippertIterator.html#a2468d86d946f361d96ea90bb8e6e28da">EdwardsLippertIterator</a>, and <a class="el" href="classOpenMS_1_1TrypticIterator.html#a2468d86d946f361d96ea90bb8e6e28da">TrypticIterator</a>.</p>
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<td class="memname">virtual <a class="el" href="classOpenMS_1_1PepIterator.html">PepIterator</a>& operator++ </td>
<td>(</td>
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<p>operator ++ for pre-increment </p>
<dl class="section return"><dt>Returns</dt><dd>Reference to <a class="el" href="classOpenMS_1_1PepIterator.html" title="Abstract base class for different peptide iterators. ">PepIterator</a> </dd></dl>
<dl class="exception"><dt>Exceptions</dt><dd>
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<tr><td class="paramname">InvalidIterator</td><td>if iterator has not been initialized </td></tr>
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</dd>
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<p>Implemented in <a class="el" href="classOpenMS_1_1FastaIteratorIntern.html#a55f6d71bc104d273092993e29f301e72">FastaIteratorIntern</a>, <a class="el" href="classOpenMS_1_1FastaIterator.html#a55f6d71bc104d273092993e29f301e72">FastaIterator</a>, <a class="el" href="classOpenMS_1_1EdwardsLippertIterator.html#a55f6d71bc104d273092993e29f301e72">EdwardsLippertIterator</a>, and <a class="el" href="classOpenMS_1_1TrypticIterator.html#a55f6d71bc104d273092993e29f301e72">TrypticIterator</a>.</p>
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<td class="memname">virtual <a class="el" href="classOpenMS_1_1PepIterator.html">PepIterator</a>* operator++ </td>
<td>(</td>
<td class="paramtype">int </td>
<td class="paramname"></td><td>)</td>
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<p>operator ++ for post-increment </p>
<dl class="section return"><dt>Returns</dt><dd>pointer to <a class="el" href="classOpenMS_1_1PepIterator.html" title="Abstract base class for different peptide iterators. ">PepIterator</a> </dd></dl>
<dl class="exception"><dt>Exceptions</dt><dd>
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<tr><td class="paramname"><a class="el" href="classOpenMS_1_1Exception_1_1InvalidIterator.html" title="Invalid iterator exception. ">Exception::InvalidIterator</a></td><td>if iterator has not been initialized </td></tr>
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<p>Implemented in <a class="el" href="classOpenMS_1_1FastaIteratorIntern.html#a72227229d40a649a89bde5f60d48782e">FastaIteratorIntern</a>, <a class="el" href="classOpenMS_1_1FastaIterator.html#a72227229d40a649a89bde5f60d48782e">FastaIterator</a>, <a class="el" href="classOpenMS_1_1EdwardsLippertIterator.html#a72227229d40a649a89bde5f60d48782e">EdwardsLippertIterator</a>, and <a class="el" href="classOpenMS_1_1TrypticIterator.html#a72227229d40a649a89bde5f60d48782e">TrypticIterator</a>.</p>
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<td class="memname">static void registerChildren </td>
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<p>all children has to be registered here </p>
<dl class="section see"><dt>See Also</dt><dd><a class="el" href="classOpenMS_1_1Factory.html" title="Returns FactoryProduct* based on the name of the desired concrete FactoryProduct. ...">Factory</a> </dd></dl>
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<td class="memname">virtual void setFastaFile </td>
<td>(</td>
<td class="paramtype">const <a class="el" href="classOpenMS_1_1String.html">String</a> & </td>
<td class="paramname"><em>f</em></td><td>)</td>
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<p>setter for FASTA file </p>
<dl class="params"><dt>Parameters</dt><dd>
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<tr><td class="paramname">f</td><td>const <a class="el" href="classOpenMS_1_1String.html" title="A more convenient string class. ">String</a> reference representing file location </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></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></td></tr>
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<p>Implemented in <a class="el" href="classOpenMS_1_1FastaIteratorIntern.html#a7d238aef71f460f8ebe0c267b7b7792b">FastaIteratorIntern</a>, <a class="el" href="classOpenMS_1_1FastaIterator.html#a7d238aef71f460f8ebe0c267b7b7792b">FastaIterator</a>, <a class="el" href="classOpenMS_1_1EdwardsLippertIterator.html#a7d238aef71f460f8ebe0c267b7b7792b">EdwardsLippertIterator</a>, and <a class="el" href="classOpenMS_1_1TrypticIterator.html#a7d238aef71f460f8ebe0c267b7b7792b">TrypticIterator</a>.</p>
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<td class="memname">virtual void setSpectrum </td>
<td>(</td>
<td class="paramtype">const std::vector< <a class="el" href="group__Concept.html#gace75bfb1aba684e874dffee13738bd15">DoubleReal</a> > & </td>
<td class="paramname"><em>s</em></td><td>)</td>
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<p>setter for spectrum </p>
<dl class="params"><dt>Parameters</dt><dd>
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<tr><td class="paramname">s</td><td>ms spectrum given as vector of DoubleReals </td></tr>
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</dd>
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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_1InvalidValue.html" title="Invalid value exception. ">Exception::InvalidValue</a></td><td>if spectrum is not sorted acendingly </td></tr>
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</dd>
</dl>
<p>Implemented in <a class="el" href="classOpenMS_1_1TrypticIterator.html#ad8afbc78c6c6e4e0000d7b667751bac9">TrypticIterator</a>, <a class="el" href="classOpenMS_1_1EdwardsLippertIterator.html#abed3a62ee31d0d1add508b20d932fae5">EdwardsLippertIterator</a>, <a class="el" href="classOpenMS_1_1FastaIteratorIntern.html#ad8afbc78c6c6e4e0000d7b667751bac9">FastaIteratorIntern</a>, and <a class="el" href="classOpenMS_1_1FastaIterator.html#ad8afbc78c6c6e4e0000d7b667751bac9">FastaIterator</a>.</p>
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<td class="memname">virtual void setTolerance </td>
<td>(</td>
<td class="paramtype"><a class="el" href="group__Concept.html#gace75bfb1aba684e874dffee13738bd15">DoubleReal</a> </td>
<td class="paramname"><em>t</em></td><td>)</td>
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<p>setter for tolerance </p>
<dl class="params"><dt>Parameters</dt><dd>
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<tr><td class="paramname">t</td><td>tolerance value </td></tr>
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</dd>
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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_1InvalidValue.html" title="Invalid value exception. ">Exception::InvalidValue</a></td><td>if tolerance is negative </td></tr>
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<p>Implemented in <a class="el" href="classOpenMS_1_1FastaIteratorIntern.html#ac9938ec54ef18bdf4bf4c301ec658546">FastaIteratorIntern</a>, <a class="el" href="classOpenMS_1_1FastaIterator.html#ac9938ec54ef18bdf4bf4c301ec658546">FastaIterator</a>, <a class="el" href="classOpenMS_1_1EdwardsLippertIterator.html#a0b331f554495174d4e957af367a22425">EdwardsLippertIterator</a>, and <a class="el" href="classOpenMS_1_1TrypticIterator.html#ac9938ec54ef18bdf4bf4c301ec658546">TrypticIterator</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 11:19:27 using doxygen 1.8.5</font></TD>
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