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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_1IonizationSimulation.html">IonizationSimulation</a></li>  </ul>
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<div class="title">IonizationSimulation Member List</div>  </div>
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<p>This is the complete list of members for <a class="el" href="classOpenMS_1_1IonizationSimulation.html">IonizationSimulation</a>, including all inherited members.</p>
<table class="directory">
  <tr class="even"><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html#abe20ef41cf84a2353c11b006dc638201">basic_residues_</a></td><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html">IonizationSimulation</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
  <tr><td class="entry"><a class="el" href="classOpenMS_1_1ProgressLogger.html#a56589612e0e4164bf80c3918a087d05a">begin_</a></td><td class="entry"><a class="el" href="classOpenMS_1_1ProgressLogger.html">ProgressLogger</a></td><td class="entry"><span class="mlabel">mutable</span><span class="mlabel">protected</span></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html#a7c3b265b697a57615da5cd3274780efd">check_defaults_</a></td><td class="entry"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html">DefaultParamHandler</a></td><td class="entry"><span class="mlabel">protected</span></td></tr>
  <tr><td class="entry"><a class="el" href="classOpenMS_1_1ProgressLogger.html#af67907baa897e9fb84df0cb89795b87ca3ab34dd50405af2d5a62627d572f7860">CMD</a> enum value</td><td class="entry"><a class="el" href="classOpenMS_1_1ProgressLogger.html">ProgressLogger</a></td><td class="entry"></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html#aea6479d26c6eeb209d00337314b854f0">countIonizedResidues_</a>(const AASequence &amp;) const </td><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html">IonizationSimulation</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
  <tr><td class="entry"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html#afb6802fda161cb0c1a4a05597f94aecc">DefaultParamHandler</a>(const String &amp;name)</td><td class="entry"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html">DefaultParamHandler</a></td><td class="entry"></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html#a954da7eef3cfddda446574eaadd20abb">DefaultParamHandler</a>(const DefaultParamHandler &amp;rhs)</td><td class="entry"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html">DefaultParamHandler</a></td><td class="entry"></td></tr>
  <tr><td class="entry"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html#a761b1937850c141d0c6fff0e4d633a04">defaults_</a></td><td class="entry"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html">DefaultParamHandler</a></td><td class="entry"><span class="mlabel">protected</span></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html#a2802c591e6d7fd3fd9cc35f5e875d0ba">defaultsToParam_</a>()</td><td class="entry"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html">DefaultParamHandler</a></td><td class="entry"><span class="mlabel">protected</span></td></tr>
  <tr><td class="entry"><a class="el" href="classOpenMS_1_1ProgressLogger.html#a76072b3919abcf01141ba68da8a001fd">dlg_</a></td><td class="entry"><a class="el" href="classOpenMS_1_1ProgressLogger.html">ProgressLogger</a></td><td class="entry"><span class="mlabel">mutable</span><span class="mlabel">protected</span></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="classOpenMS_1_1ProgressLogger.html#a0c749bf4e621699b7a5c45ae22c2fa90">end_</a></td><td class="entry"><a class="el" href="classOpenMS_1_1ProgressLogger.html">ProgressLogger</a></td><td class="entry"><span class="mlabel">mutable</span><span class="mlabel">protected</span></td></tr>
  <tr><td class="entry"><a class="el" href="classOpenMS_1_1ProgressLogger.html#a1cc1012b0cdaea97f58d571af1ff45de">endProgress</a>() const </td><td class="entry"><a class="el" href="classOpenMS_1_1ProgressLogger.html">ProgressLogger</a></td><td class="entry"></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html#a5a51f3f150b09068256195e934339a19">error_name_</a></td><td class="entry"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html">DefaultParamHandler</a></td><td class="entry"><span class="mlabel">protected</span></td></tr>
  <tr><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html#a84655a74f51157d0db787c89bdfcef46a4ce1f413b646020308281e301ce1e4ec">ESI</a> enum value</td><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html">IonizationSimulation</a></td><td class="entry"></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html#a9157248c2b0cf08dc059d90d5200f06f">esi_adducts_</a></td><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html">IonizationSimulation</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
  <tr><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html#a59ee927a14ddb37ade8cf9b28f0404b3">esi_impurity_probabilities_</a></td><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html">IonizationSimulation</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html#ae504db913e79d0f53604b13022d1b6d3">esi_probability_</a></td><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html">IonizationSimulation</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
  <tr><td class="entry"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html#a02f02fa9832ca3e8d47c575a39803a2a">getDefaults</a>() const </td><td class="entry"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html">DefaultParamHandler</a></td><td class="entry"></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="classOpenMS_1_1ProgressLogger.html#a67024cdd5c34ec571baecabd8f783310">getLogType</a>() const </td><td class="entry"><a class="el" href="classOpenMS_1_1ProgressLogger.html">ProgressLogger</a></td><td class="entry"></td></tr>
  <tr><td class="entry"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html#aaee0f2845288173de9f6ad47e6ad31d5">getName</a>() const </td><td class="entry"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html">DefaultParamHandler</a></td><td class="entry"></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html#a7f6aab5a7dfbdd1c062a4352a29361f3">getParameters</a>() const </td><td class="entry"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html">DefaultParamHandler</a></td><td class="entry"></td></tr>
  <tr><td class="entry"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html#a768d4a2093627a2f34728656a9721bdf">getSubsections</a>() const </td><td class="entry"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html">DefaultParamHandler</a></td><td class="entry"></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="classOpenMS_1_1ProgressLogger.html#af67907baa897e9fb84df0cb89795b87ca73c6901c7c648a6a735770bc038bb26a">GUI</a> enum value</td><td class="entry"><a class="el" href="classOpenMS_1_1ProgressLogger.html">ProgressLogger</a></td><td class="entry"></td></tr>
  <tr><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html#a1ab0fe0248799c192b1084a377d5a978">ionization_type_</a></td><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html">IonizationSimulation</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html#a1bd300ebce221a60dbfdaf8aac98702a">IonizationSimulation</a>(const SimRandomNumberGenerator &amp;)</td><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html">IonizationSimulation</a></td><td class="entry"></td></tr>
  <tr><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html#a8f87ffa0bafc2764c8436fd41b873825">IonizationSimulation</a>(const IonizationSimulation &amp;source)</td><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html">IonizationSimulation</a></td><td class="entry"></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html#ad195b37d58365cafa1d3d4dd40a3acce">IonizationSimulation</a>()</td><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html">IonizationSimulation</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
  <tr><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html#a84655a74f51157d0db787c89bdfcef46">IonizationType</a> enum name</td><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html">IonizationSimulation</a></td><td class="entry"></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html#a6de3f3c927dcb7143c999ee98123eeed">ionize</a>(FeatureMapSim &amp;features, ConsensusMap &amp;charge_consensus, MSSimExperiment &amp;experiment)</td><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html">IonizationSimulation</a></td><td class="entry"></td></tr>
  <tr><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html#ad944f3e244ce363f8d1e3e61bba40a4d">ionizeEsi_</a>(FeatureMapSim &amp;, ConsensusMap &amp;charge_consensus)</td><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html">IonizationSimulation</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html#a114a7b5b6f04c48e9d9c7224cdf18ea8">ionizeMaldi_</a>(FeatureMapSim &amp;, ConsensusMap &amp;charge_consensus)</td><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html">IonizationSimulation</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
  <tr><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html#aa41904a152b3c5d46f8209388656310f">isFeatureValid_</a>(const Feature &amp;feature)</td><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html">IonizationSimulation</a></td><td class="entry"><span class="mlabel">inline</span><span class="mlabel">private</span></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="classOpenMS_1_1ProgressLogger.html#a79bacf60c4109d7517590441c7f85f9c">last_invoke_</a></td><td class="entry"><a class="el" href="classOpenMS_1_1ProgressLogger.html">ProgressLogger</a></td><td class="entry"><span class="mlabel">mutable</span><span class="mlabel">protected</span></td></tr>
  <tr><td class="entry"><a class="el" href="classOpenMS_1_1ProgressLogger.html#af67907baa897e9fb84df0cb89795b87c">LogType</a> enum name</td><td class="entry"><a class="el" href="classOpenMS_1_1ProgressLogger.html">ProgressLogger</a></td><td class="entry"></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html#a84655a74f51157d0db787c89bdfcef46af44dbf64796c3c09b804546061c39258">MALDI</a> enum value</td><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html">IonizationSimulation</a></td><td class="entry"></td></tr>
  <tr><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html#aa62f04e217a478e55bea5af98c7a6466">maldi_probabilities_</a></td><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html">IonizationSimulation</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html#a48d22c472cd233ffad028d415844c578">max_adduct_charge_</a></td><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html">IonizationSimulation</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
  <tr><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html#a25f7afe44ba229946b369a2f218dc10d">maximal_mz_measurement_limit_</a></td><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html">IonizationSimulation</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html#aedc4995317c2015ae20711edf457c22a">minimal_mz_measurement_limit_</a></td><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html">IonizationSimulation</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
  <tr><td class="entry"><a class="el" href="classOpenMS_1_1ProgressLogger.html#af67907baa897e9fb84df0cb89795b87cac157bdf0b85a40d2619cbc8bc1ae5fe2">NONE</a> enum value</td><td class="entry"><a class="el" href="classOpenMS_1_1ProgressLogger.html">ProgressLogger</a></td><td class="entry"></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html#a89a1e550627fba742af27e45534d01d8">operator=</a>(const IonizationSimulation &amp;source)</td><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html">IonizationSimulation</a></td><td class="entry"></td></tr>
  <tr><td class="entry"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html#ae6b6d68036a573a44f6609460ba2dfb6">OpenMS::DefaultParamHandler::operator=</a>(const DefaultParamHandler &amp;rhs)</td><td class="entry"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html">DefaultParamHandler</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html#ac435f2dd4d9f9328db83af97129a8d7e">operator==</a>(const DefaultParamHandler &amp;rhs) const </td><td class="entry"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html">DefaultParamHandler</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
  <tr><td class="entry"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html#a28c73e623c63a4fe3bfceb1ae8274f39">param_</a></td><td class="entry"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html">DefaultParamHandler</a></td><td class="entry"><span class="mlabel">protected</span></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="classOpenMS_1_1ProgressLogger.html#a2a106011aec95b2013d7a545f2063d01">ProgressLogger</a>()</td><td class="entry"><a class="el" href="classOpenMS_1_1ProgressLogger.html">ProgressLogger</a></td><td class="entry"></td></tr>
  <tr><td class="entry"><a class="el" href="classOpenMS_1_1ProgressLogger.html#a94eb3ef5ef94b83eb348dd00a2b53119">recursion_depth_</a></td><td class="entry"><a class="el" href="classOpenMS_1_1ProgressLogger.html">ProgressLogger</a></td><td class="entry"><span class="mlabel">protected</span><span class="mlabel">static</span></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html#a1755a34bd4d88feb6a87a209273177eb">rnd_gen_</a></td><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html">IonizationSimulation</a></td><td class="entry"><span class="mlabel">protected</span></td></tr>
  <tr><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html#a592956c92badca126cec3abd62da8d67">setDefaultParams_</a>()</td><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html">IonizationSimulation</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html#a70d5c4ba2b711fab68d9b11df9b3723f">setFeatureProperties_</a>(Feature &amp;f, const DoubleReal &amp;adduct_mass, const String &amp;adduct_formula, const SimChargeType charge, const SimIntensityType new_intensity, const Size parent_index)</td><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html">IonizationSimulation</a></td><td class="entry"><span class="mlabel">private</span></td></tr>
  <tr><td class="entry"><a class="el" href="classOpenMS_1_1ProgressLogger.html#acc3538c5284777d8702ccaefeb61e74c">setLogType</a>(LogType type) const </td><td class="entry"><a class="el" href="classOpenMS_1_1ProgressLogger.html">ProgressLogger</a></td><td class="entry"></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html#a77d37f2e1c12e8bd33ea0e660a89e927">setName</a>(const String &amp;name)</td><td class="entry"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html">DefaultParamHandler</a></td><td class="entry"></td></tr>
  <tr><td class="entry"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html#abc8067511cfc949ae942ea2b08588f81">setParameters</a>(const Param &amp;param)</td><td class="entry"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html">DefaultParamHandler</a></td><td class="entry"></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="classOpenMS_1_1ProgressLogger.html#a8852277abd03220cc7b80d6c1bed6fed">setProgress</a>(SignedSize value) const </td><td class="entry"><a class="el" href="classOpenMS_1_1ProgressLogger.html">ProgressLogger</a></td><td class="entry"></td></tr>
  <tr><td class="entry"><a class="el" href="classOpenMS_1_1ProgressLogger.html#af1c45ecd71b5041b70319249e8e73591">startProgress</a>(SignedSize begin, SignedSize end, const String &amp;label) const </td><td class="entry"><a class="el" href="classOpenMS_1_1ProgressLogger.html">ProgressLogger</a></td><td class="entry"></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="classOpenMS_1_1ProgressLogger.html#a6d9750520313ea7f843d7a49cb2e9e5f">stop_watch_</a></td><td class="entry"><a class="el" href="classOpenMS_1_1ProgressLogger.html">ProgressLogger</a></td><td class="entry"><span class="mlabel">mutable</span><span class="mlabel">protected</span></td></tr>
  <tr><td class="entry"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html#ac4b0e20bc59c7a5afe016c69067e428c">subsections_</a></td><td class="entry"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html">DefaultParamHandler</a></td><td class="entry"><span class="mlabel">protected</span></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="classOpenMS_1_1ProgressLogger.html#a7c691d7de2a43bc5606e96cb15da3641">type_</a></td><td class="entry"><a class="el" href="classOpenMS_1_1ProgressLogger.html">ProgressLogger</a></td><td class="entry"><span class="mlabel">mutable</span><span class="mlabel">protected</span></td></tr>
  <tr><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html#aaf258e1a9846d9b238ee4b3005ad3ee9">updateMembers_</a>()</td><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html">IonizationSimulation</a></td><td class="entry"><span class="mlabel">private</span><span class="mlabel">virtual</span></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="classOpenMS_1_1ProgressLogger.html#aec57b26e143202dc119a41592e075932">value_</a></td><td class="entry"><a class="el" href="classOpenMS_1_1ProgressLogger.html">ProgressLogger</a></td><td class="entry"><span class="mlabel">mutable</span><span class="mlabel">protected</span></td></tr>
  <tr><td class="entry"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html#aba444910e4fccb93f91bf7ab135f508a">warn_empty_defaults_</a></td><td class="entry"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html">DefaultParamHandler</a></td><td class="entry"><span class="mlabel">protected</span></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html#a11e9d6dd34fe8860874aa8abe0ec121b">~DefaultParamHandler</a>()</td><td class="entry"><a class="el" href="classOpenMS_1_1DefaultParamHandler.html">DefaultParamHandler</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
  <tr><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html#a5064111950b60758adb2e7417bd7307b">~IonizationSimulation</a>()</td><td class="entry"><a class="el" href="classOpenMS_1_1IonizationSimulation.html">IonizationSimulation</a></td><td class="entry"><span class="mlabel">virtual</span></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="classOpenMS_1_1ProgressLogger.html#a19c882d907f90f7f88c7436d82cd2a13">~ProgressLogger</a>()</td><td class="entry"><a class="el" href="classOpenMS_1_1ProgressLogger.html">ProgressLogger</a></td><td class="entry"></td></tr>
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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 11:19:33 using doxygen 1.8.5</font></TD>
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