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deploy: d4cb5ee
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@annawendler
annawendler committed Feb 16, 2024
1 parent 7940b15 commit 21bf21c
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20 changes: 10 additions & 10 deletions coverage/cpp/index-sort-f.html
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<td class="headerValue">coverage.info</td>
<td></td>
<td class="headerItem">Lines:</td>
<td class="headerCovTableEntry">9287</td>
<td class="headerCovTableEntry">9674</td>
<td class="headerCovTableEntryHi">96.0 %</td>
<td class="headerCovTableEntry">9333</td>
<td class="headerCovTableEntry">9699</td>
<td class="headerCovTableEntryHi">96.2 %</td>
</tr>
<tr>
<td class="headerItem">Date:</td>
<td class="headerValue">2024-02-16 11:16:14</td>
<td class="headerValue">2024-02-16 11:51:33</td>
<td></td>
<td class="headerItem">Functions:</td>
<td class="headerCovTableEntry">6510</td>
<td class="headerCovTableEntry">7485</td>
<td class="headerCovTableEntry">6512</td>
<td class="headerCovTableEntry">7487</td>
<td class="headerCovTableEntryMed">87.0 %</td>
</tr>
<tr><td><img src="glass.png" width=3 height=3 alt=""></td></tr>
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<tr>
<td class="coverFile"><a href="models/ide_secir/index.html">models/ide_secir</a></td>
<td class="coverBar" align="center">
<table border=0 cellspacing=0 cellpadding=1><tr><td class="coverBarOutline"><img src="emerald.png" width=91 height=10 alt="90.8%"><img src="snow.png" width=9 height=10 alt="90.8%"></td></tr></table>
<table border=0 cellspacing=0 cellpadding=1><tr><td class="coverBarOutline"><img src="emerald.png" width=98 height=10 alt="97.9%"><img src="snow.png" width=2 height=10 alt="97.9%"></td></tr></table>
</td>
<td class="coverPerHi">90.8&nbsp;%</td>
<td class="coverNumHi">276 / 304</td>
<td class="coverPerHi">97.9&nbsp;%</td>
<td class="coverNumHi">322 / 329</td>
<td class="coverPerHi">100.0&nbsp;%</td>
<td class="coverNumHi">25 / 25</td>
<td class="coverNumHi">27 / 27</td>
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<td class="coverFile"><a href="models/lct_secir/index.html">models/lct_secir</a></td>
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32 changes: 16 additions & 16 deletions coverage/cpp/index-sort-l.html
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<td class="headerValue">coverage.info</td>
<td></td>
<td class="headerItem">Lines:</td>
<td class="headerCovTableEntry">9287</td>
<td class="headerCovTableEntry">9674</td>
<td class="headerCovTableEntryHi">96.0 %</td>
<td class="headerCovTableEntry">9333</td>
<td class="headerCovTableEntry">9699</td>
<td class="headerCovTableEntryHi">96.2 %</td>
</tr>
<tr>
<td class="headerItem">Date:</td>
<td class="headerValue">2024-02-16 11:16:14</td>
<td class="headerValue">2024-02-16 11:51:33</td>
<td></td>
<td class="headerItem">Functions:</td>
<td class="headerCovTableEntry">6510</td>
<td class="headerCovTableEntry">7485</td>
<td class="headerCovTableEntry">6512</td>
<td class="headerCovTableEntry">7487</td>
<td class="headerCovTableEntryMed">87.0 %</td>
</tr>
<tr><td><img src="glass.png" width=3 height=3 alt=""></td></tr>
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<td class="tableHead" colspan=3>Line Coverage <span class="tableHeadSort"><img src="glass.png" width=10 height=14 alt="Sort by line coverage" title="Sort by line coverage" border=0></span></td>
<td class="tableHead" colspan=2>Functions <span class="tableHeadSort"><a href="index-sort-f.html"><img src="updown.png" width=10 height=14 alt="Sort by function coverage" title="Sort by function coverage" border=0></a></span></td>
</tr>
<tr>
<td class="coverFile"><a href="models/ide_secir/index.html">models/ide_secir</a></td>
<td class="coverBar" align="center">
<table border=0 cellspacing=0 cellpadding=1><tr><td class="coverBarOutline"><img src="emerald.png" width=91 height=10 alt="90.8%"><img src="snow.png" width=9 height=10 alt="90.8%"></td></tr></table>
</td>
<td class="coverPerHi">90.8&nbsp;%</td>
<td class="coverNumHi">276 / 304</td>
<td class="coverPerHi">100.0&nbsp;%</td>
<td class="coverNumHi">25 / 25</td>
</tr>
<tr>
<td class="coverFile"><a href="memilio/io/index.html">memilio/io</a></td>
<td class="coverBar" align="center">
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<td class="coverPerHi">96.0&nbsp;%</td>
<td class="coverNumHi">387 / 403</td>
</tr>
<tr>
<td class="coverFile"><a href="models/ide_secir/index.html">models/ide_secir</a></td>
<td class="coverBar" align="center">
<table border=0 cellspacing=0 cellpadding=1><tr><td class="coverBarOutline"><img src="emerald.png" width=98 height=10 alt="97.9%"><img src="snow.png" width=2 height=10 alt="97.9%"></td></tr></table>
</td>
<td class="coverPerHi">97.9&nbsp;%</td>
<td class="coverNumHi">322 / 329</td>
<td class="coverPerHi">100.0&nbsp;%</td>
<td class="coverNumHi">27 / 27</td>
</tr>
<tr>
<td class="coverFile"><a href="memilio/compartments/index.html">memilio/compartments</a></td>
<td class="coverBar" align="center">
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20 changes: 10 additions & 10 deletions coverage/cpp/index.html
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Expand Up @@ -31,17 +31,17 @@
<td class="headerValue">coverage.info</td>
<td></td>
<td class="headerItem">Lines:</td>
<td class="headerCovTableEntry">9287</td>
<td class="headerCovTableEntry">9674</td>
<td class="headerCovTableEntryHi">96.0 %</td>
<td class="headerCovTableEntry">9333</td>
<td class="headerCovTableEntry">9699</td>
<td class="headerCovTableEntryHi">96.2 %</td>
</tr>
<tr>
<td class="headerItem">Date:</td>
<td class="headerValue">2024-02-16 11:16:14</td>
<td class="headerValue">2024-02-16 11:51:33</td>
<td></td>
<td class="headerItem">Functions:</td>
<td class="headerCovTableEntry">6510</td>
<td class="headerCovTableEntry">7485</td>
<td class="headerCovTableEntry">6512</td>
<td class="headerCovTableEntry">7487</td>
<td class="headerCovTableEntryMed">87.0 %</td>
</tr>
<tr><td><img src="glass.png" width=3 height=3 alt=""></td></tr>
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<tr>
<td class="coverFile"><a href="models/ide_secir/index.html">models/ide_secir</a></td>
<td class="coverBar" align="center">
<table border=0 cellspacing=0 cellpadding=1><tr><td class="coverBarOutline"><img src="emerald.png" width=91 height=10 alt="90.8%"><img src="snow.png" width=9 height=10 alt="90.8%"></td></tr></table>
<table border=0 cellspacing=0 cellpadding=1><tr><td class="coverBarOutline"><img src="emerald.png" width=98 height=10 alt="97.9%"><img src="snow.png" width=2 height=10 alt="97.9%"></td></tr></table>
</td>
<td class="coverPerHi">90.8&nbsp;%</td>
<td class="coverNumHi">276 / 304</td>
<td class="coverPerHi">97.9&nbsp;%</td>
<td class="coverNumHi">322 / 329</td>
<td class="coverPerHi">100.0&nbsp;%</td>
<td class="coverNumHi">25 / 25</td>
<td class="coverNumHi">27 / 27</td>
</tr>
<tr>
<td class="coverFile"><a href="models/ide_seir/index.html">models/ide_seir</a></td>
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10 changes: 5 additions & 5 deletions coverage/cpp/memilio/compartments/compartmentalmodel.h.func-sort-c.html
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</tr>
<tr>
<td class="headerItem">Date:</td>
<td class="headerValue">2024-02-16 11:16:14</td>
<td class="headerValue">2024-02-16 11:51:33</td>
<td></td>
<td class="headerItem">Functions:</td>
<td class="headerCovTableEntry">31</td>
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<td class="coverFnHi">18107</td>
</tr>
<tr>
<td class="coverFn"><a href="compartmentalmodel.h.gcov.html#118">mio::CompartmentalModel&lt;mio::oseir::InfectionState, mio::Populations&lt;mio::oseir::InfectionState&gt;, mio::oseir::Parameters&gt;::eval_right_hand_side(Eigen::Ref&lt;Eigen::Matrix&lt;double, -1, 1, 0, -1, 1&gt; const, 0, Eigen::InnerStride&lt;1&gt; &gt;, Eigen::Ref&lt;Eigen::Matrix&lt;double, -1, 1, 0, -1, 1&gt; const, 0, Eigen::InnerStride&lt;1&gt; &gt;, double, Eigen::Ref&lt;Eigen::Matrix&lt;double, -1, 1, 0, -1, 1&gt;, 0, Eigen::InnerStride&lt;1&gt; &gt;) const</a></td>
<td class="coverFnHi">19184</td>
<td class="coverFn"><a href="compartmentalmodel.h.gcov.html#118">mio::CompartmentalModel&lt;mio::osecir::InfectionState, mio::Populations&lt;mio::AgeGroup, mio::osecir::InfectionState&gt;, mio::osecir::Parameters&gt;::eval_right_hand_side(Eigen::Ref&lt;Eigen::Matrix&lt;double, -1, 1, 0, -1, 1&gt; const, 0, Eigen::InnerStride&lt;1&gt; &gt;, Eigen::Ref&lt;Eigen::Matrix&lt;double, -1, 1, 0, -1, 1&gt; const, 0, Eigen::InnerStride&lt;1&gt; &gt;, double, Eigen::Ref&lt;Eigen::Matrix&lt;double, -1, 1, 0, -1, 1&gt;, 0, Eigen::InnerStride&lt;1&gt; &gt;) const</a></td>
<td class="coverFnHi">18888</td>
</tr>
<tr>
<td class="coverFn"><a href="compartmentalmodel.h.gcov.html#118">mio::CompartmentalModel&lt;mio::osecir::InfectionState, mio::Populations&lt;mio::AgeGroup, mio::osecir::InfectionState&gt;, mio::osecir::Parameters&gt;::eval_right_hand_side(Eigen::Ref&lt;Eigen::Matrix&lt;double, -1, 1, 0, -1, 1&gt; const, 0, Eigen::InnerStride&lt;1&gt; &gt;, Eigen::Ref&lt;Eigen::Matrix&lt;double, -1, 1, 0, -1, 1&gt; const, 0, Eigen::InnerStride&lt;1&gt; &gt;, double, Eigen::Ref&lt;Eigen::Matrix&lt;double, -1, 1, 0, -1, 1&gt;, 0, Eigen::InnerStride&lt;1&gt; &gt;) const</a></td>
<td class="coverFnHi">19716</td>
<td class="coverFn"><a href="compartmentalmodel.h.gcov.html#118">mio::CompartmentalModel&lt;mio::oseir::InfectionState, mio::Populations&lt;mio::oseir::InfectionState&gt;, mio::oseir::Parameters&gt;::eval_right_hand_side(Eigen::Ref&lt;Eigen::Matrix&lt;double, -1, 1, 0, -1, 1&gt; const, 0, Eigen::InnerStride&lt;1&gt; &gt;, Eigen::Ref&lt;Eigen::Matrix&lt;double, -1, 1, 0, -1, 1&gt; const, 0, Eigen::InnerStride&lt;1&gt; &gt;, double, Eigen::Ref&lt;Eigen::Matrix&lt;double, -1, 1, 0, -1, 1&gt;, 0, Eigen::InnerStride&lt;1&gt; &gt;) const</a></td>
<td class="coverFnHi">19136</td>
</tr>
</table>
<br>
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6 changes: 3 additions & 3 deletions coverage/cpp/memilio/compartments/compartmentalmodel.h.func.html
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Expand Up @@ -37,7 +37,7 @@
</tr>
<tr>
<td class="headerItem">Date:</td>
<td class="headerValue">2024-02-16 11:16:14</td>
<td class="headerValue">2024-02-16 11:51:33</td>
<td></td>
<td class="headerItem">Functions:</td>
<td class="headerCovTableEntry">31</td>
Expand Down Expand Up @@ -197,7 +197,7 @@
</tr>
<tr>
<td class="coverFn"><a href="compartmentalmodel.h.gcov.html#118">mio::CompartmentalModel&lt;mio::oseir::InfectionState, mio::Populations&lt;mio::oseir::InfectionState&gt;, mio::oseir::Parameters&gt;::eval_right_hand_side(Eigen::Ref&lt;Eigen::Matrix&lt;double, -1, 1, 0, -1, 1&gt; const, 0, Eigen::InnerStride&lt;1&gt; &gt;, Eigen::Ref&lt;Eigen::Matrix&lt;double, -1, 1, 0, -1, 1&gt; const, 0, Eigen::InnerStride&lt;1&gt; &gt;, double, Eigen::Ref&lt;Eigen::Matrix&lt;double, -1, 1, 0, -1, 1&gt;, 0, Eigen::InnerStride&lt;1&gt; &gt;) const</a></td>
<td class="coverFnHi">19184</td>
<td class="coverFnHi">19136</td>
</tr>
<tr>
<td class="coverFn"><a href="compartmentalmodel.h.gcov.html#96">mio::CompartmentalModel&lt;mio::osecir::InfectionState, mio::Populations&lt;mio::AgeGroup, mio::osecir::InfectionState&gt;, mio::osecir::Parameters&gt;::get_derivatives(Eigen::Ref&lt;Eigen::Matrix&lt;double, -1, 1, 0, -1, 1&gt; const, 0, Eigen::InnerStride&lt;1&gt; &gt;, Eigen::Ref&lt;Eigen::Matrix&lt;double, -1, 1, 0, -1, 1&gt; const, 0, Eigen::InnerStride&lt;1&gt; &gt;, double, Eigen::Ref&lt;Eigen::Matrix&lt;double, -1, 1, 0, -1, 1&gt;, 0, Eigen::InnerStride&lt;1&gt; &gt;) const</a></td>
Expand All @@ -213,7 +213,7 @@
</tr>
<tr>
<td class="coverFn"><a href="compartmentalmodel.h.gcov.html#118">mio::CompartmentalModel&lt;mio::osecir::InfectionState, mio::Populations&lt;mio::AgeGroup, mio::osecir::InfectionState&gt;, mio::osecir::Parameters&gt;::eval_right_hand_side(Eigen::Ref&lt;Eigen::Matrix&lt;double, -1, 1, 0, -1, 1&gt; const, 0, Eigen::InnerStride&lt;1&gt; &gt;, Eigen::Ref&lt;Eigen::Matrix&lt;double, -1, 1, 0, -1, 1&gt; const, 0, Eigen::InnerStride&lt;1&gt; &gt;, double, Eigen::Ref&lt;Eigen::Matrix&lt;double, -1, 1, 0, -1, 1&gt;, 0, Eigen::InnerStride&lt;1&gt; &gt;) const</a></td>
<td class="coverFnHi">19716</td>
<td class="coverFnHi">18888</td>
</tr>
<tr>
<td class="coverFn"><a href="compartmentalmodel.h.gcov.html#96">mio::CompartmentalModel&lt;mio::osecirvvs::InfectionState, mio::Populations&lt;mio::AgeGroup, mio::osecirvvs::InfectionState&gt;, mio::osecirvvs::Parameters&gt;::get_derivatives(Eigen::Ref&lt;Eigen::Matrix&lt;double, -1, 1, 0, -1, 1&gt; const, 0, Eigen::InnerStride&lt;1&gt; &gt;, Eigen::Ref&lt;Eigen::Matrix&lt;double, -1, 1, 0, -1, 1&gt; const, 0, Eigen::InnerStride&lt;1&gt; &gt;, double, Eigen::Ref&lt;Eigen::Matrix&lt;double, -1, 1, 0, -1, 1&gt;, 0, Eigen::InnerStride&lt;1&gt; &gt;) const</a></td>
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10 changes: 5 additions & 5 deletions coverage/cpp/memilio/compartments/compartmentalmodel.h.gcov.html
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Expand Up @@ -37,7 +37,7 @@
</tr>
<tr>
<td class="headerItem">Date:</td>
<td class="headerValue">2024-02-16 11:16:14</td>
<td class="headerValue">2024-02-16 11:51:33</td>
<td></td>
<td class="headerItem">Functions:</td>
<td class="headerCovTableEntry">31</td>
Expand Down Expand Up @@ -179,12 +179,12 @@
<a name="117"><span class="lineNum"> 117 </span> : * @param t the current time</a>
<a name="118"><span class="lineNum"> 118 </span> : * @param dydt a reference to the calculated output</a>
<a name="119"><span class="lineNum"> 119 </span> : */</a>
<a name="120"><span class="lineNum"> 120 </span><span class="lineCov"> 40160 : void eval_right_hand_side(Eigen::Ref&lt;const Eigen::VectorXd&gt; pop, Eigen::Ref&lt;const Eigen::VectorXd&gt; y, double t,</span></a>
<a name="120"><span class="lineNum"> 120 </span><span class="lineCov"> 39284 : void eval_right_hand_side(Eigen::Ref&lt;const Eigen::VectorXd&gt; pop, Eigen::Ref&lt;const Eigen::VectorXd&gt; y, double t,</span></a>
<a name="121"><span class="lineNum"> 121 </span> : Eigen::Ref&lt;Eigen::VectorXd&gt; dydt) const</a>
<a name="122"><span class="lineNum"> 122 </span> : {</a>
<a name="123"><span class="lineNum"> 123 </span><span class="lineCov"> 40160 : dydt.setZero();</span></a>
<a name="124"><span class="lineNum"> 124 </span><span class="lineCov"> 40160 : this-&gt;get_derivatives(pop, y, t, dydt);</span></a>
<a name="125"><span class="lineNum"> 125 </span><span class="lineCov"> 40160 : }</span></a>
<a name="123"><span class="lineNum"> 123 </span><span class="lineCov"> 39284 : dydt.setZero();</span></a>
<a name="124"><span class="lineNum"> 124 </span><span class="lineCov"> 39284 : this-&gt;get_derivatives(pop, y, t, dydt);</span></a>
<a name="125"><span class="lineNum"> 125 </span><span class="lineCov"> 39284 : }</span></a>
<a name="126"><span class="lineNum"> 126 </span> : </a>
<a name="127"><span class="lineNum"> 127 </span> : /**</a>
<a name="128"><span class="lineNum"> 128 </span> : * @brief get_initial_values returns the initial values for the compartmental populations.</a>
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