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<p><span style="border-bottom: solid 1px grey;">Generated by Cython 0.26.1</span></p>
<p>
<span style="background-color: #FFFF00">Yellow lines</span> hint at Python interaction.<br />
Click on a line that starts with a "<code>+</code>" to see the C code that Cython generated for it.
</p>
<p>Raw output: <a href="CRT.cpp">CRT.cpp</a></p>
<div class="cython"><pre class="cython line score-11" onclick='toggleDiv(this)'>+<span class="">001</span>: <span class="c"># cython: language_level=3, boundscheck=False</span></pre>
<pre class='cython code score-11 '> __pyx_t_1 = <span class='py_c_api'>PyDict_New</span>();<span class='error_goto'> if (unlikely(!__pyx_t_1)) __PYX_ERR(1, 1, __pyx_L1_error)</span>
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</pre><pre class="cython line score-0"> <span class="">002</span>: </pre>
<pre class="cython line score-8" onclick='toggleDiv(this)'>+<span class="">003</span>: <span class="k">import</span> <span class="nn">os</span></pre>
<pre class='cython code score-8 '> __pyx_t_1 = <span class='pyx_c_api'>__Pyx_Import</span>(__pyx_n_s_os, 0, 0);<span class='error_goto'> if (unlikely(!__pyx_t_1)) __PYX_ERR(1, 3, __pyx_L1_error)</span>
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</pre><pre class="cython line score-8" onclick='toggleDiv(this)'>+<span class="">004</span>: <span class="k">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span></pre>
<pre class='cython code score-8 '> __pyx_t_1 = <span class='pyx_c_api'>__Pyx_Import</span>(__pyx_n_s_numpy, 0, 0);<span class='error_goto'> if (unlikely(!__pyx_t_1)) __PYX_ERR(1, 4, __pyx_L1_error)</span>
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</pre><pre class="cython line score-0"> <span class="">005</span>: <span class="k">cimport</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span></pre>
<pre class="cython line score-0" onclick='toggleDiv(this)'>+<span class="">006</span>: <span class="n">np</span><span class="o">.</span><span class="n">import_array</span><span class="p">()</span></pre>
<pre class='cython code score-0 '> __pyx_t_2 = __pyx_f_5numpy_import_array();<span class='error_goto'> if (unlikely(__pyx_t_2 == -1)) __PYX_ERR(1, 6, __pyx_L1_error)</span>
</pre><pre class="cython line score-8" onclick='toggleDiv(this)'>+<span class="">007</span>: <span class="k">import</span> <span class="nn">scipy.integrate</span></pre>
<pre class='cython code score-8 '> __pyx_t_1 = <span class='pyx_c_api'>__Pyx_Import</span>(__pyx_n_s_scipy_integrate, 0, 0);<span class='error_goto'> if (unlikely(!__pyx_t_1)) __PYX_ERR(1, 7, __pyx_L1_error)</span>
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</pre><pre class="cython line score-0"> <span class="">008</span>: <span class="k">from</span> <span class="nn">libcpp.string</span> <span class="k">cimport</span> <span class="n">string</span></pre>
<pre class="cython line score-0"> <span class="">009</span>: <span class="k">from</span> <span class="nn">libcpp.vector</span> <span class="k">cimport</span> <span class="n">vector</span></pre>
<pre class="cython line score-0"> <span class="">010</span>: </pre>
<pre class="cython line score-0"> <span class="">011</span>: <span class="k">cdef</span> <span class="kr">extern</span> <span class="k">from</span> <span class="s">"Phase.h"</span><span class="p">:</span></pre>
<pre class="cython line score-0"> <span class="">012</span>: <span class="k">cdef</span> <span class="kt">cppclass</span> <span class="nf">Phase</span><span class="p">:</span></pre>
<pre class="cython line score-0"> <span class="">013</span>: <span class="n">Phase</span><span class="p">(</span><span class="n">string</span><span class="p">,</span><span class="n">string</span><span class="p">)</span> <span class="k">except</span> <span class="o">+</span></pre>
<pre class="cython line score-0"> <span class="">014</span>: <span class="n">double</span> <span class="n">getT</span><span class="p">()</span></pre>
<pre class="cython line score-0"> <span class="">015</span>: <span class="n">void</span> <span class="n">setT</span><span class="p">(</span><span class="n">double</span><span class="p">)</span></pre>
<pre class="cython line score-0"> <span class="">016</span>: <span class="n">double</span> <span class="n">getP</span><span class="p">()</span></pre>
<pre class="cython line score-0"> <span class="">017</span>: <span class="n">void</span> <span class="n">setP</span><span class="p">(</span><span class="n">double</span><span class="p">)</span></pre>
<pre class="cython line score-0"> <span class="">018</span>: <span class="n">double</span> <span class="n">get_density</span><span class="p">()</span></pre>
<pre class="cython line score-0"> <span class="">019</span>: <span class="n">void</span> <span class="n">set_density</span><span class="p">(</span><span class="n">double</span><span class="p">)</span></pre>
<pre class="cython line score-0"> <span class="">020</span>: <span class="n">double</span> <span class="n">get_viscosity</span><span class="p">()</span></pre>
<pre class="cython line score-0"> <span class="">021</span>: <span class="n">void</span> <span class="n">set_viscosity</span><span class="p">(</span><span class="n">double</span><span class="p">)</span></pre>
<pre class="cython line score-0"> <span class="">022</span>: </pre>
<pre class="cython line score-0"> <span class="">023</span>: <span class="nb">int</span> <span class="n">get_n_species</span><span class="p">()</span></pre>
<pre class="cython line score-0"> <span class="">024</span>: <span class="nb">int</span> <span class="n">get_n_reactions</span><span class="p">()</span></pre>
<pre class="cython line score-0"> <span class="">025</span>: <span class="n">string</span> <span class="n">species_name</span><span class="p">(</span><span class="nb">int</span><span class="p">)</span></pre>
<pre class="cython line score-0"> <span class="">026</span>: <span class="n">string</span> <span class="n">reaction_name</span><span class="p">(</span><span class="nb">int</span><span class="p">)</span></pre>
<pre class="cython line score-0"> <span class="">027</span>: <span class="nb">int</span> <span class="n">species_index</span><span class="p">(</span><span class="n">string</span><span class="p">)</span></pre>
<pre class="cython line score-0"> <span class="">028</span>: <span class="n">vector</span><span class="p">[</span><span class="n">string</span><span class="p">]</span> <span class="n">get_reactants_list</span><span class="p">(</span><span class="nb">int</span><span class="p">)</span></pre>
<pre class="cython line score-0"> <span class="">029</span>: <span class="n">vector</span><span class="p">[</span><span class="n">string</span><span class="p">]</span> <span class="n">get_products_list</span><span class="p">(</span><span class="nb">int</span><span class="p">)</span></pre>
<pre class="cython line score-0"> <span class="">030</span>: </pre>
<pre class="cython line score-0"> <span class="">031</span>: <span class="n">void</span> <span class="n">setX</span><span class="p">(</span><span class="n">vector</span><span class="p">[</span><span class="n">double</span><span class="p">])</span></pre>
<pre class="cython line score-0"> <span class="">032</span>: <span class="n">vector</span><span class="p">[</span><span class="n">double</span><span class="p">]</span> <span class="n">getX</span><span class="p">()</span></pre>
<pre class="cython line score-0"> <span class="">033</span>: <span class="n">void</span> <span class="n">setY</span><span class="p">(</span><span class="n">vector</span><span class="p">[</span><span class="n">double</span><span class="p">])</span></pre>
<pre class="cython line score-0"> <span class="">034</span>: <span class="n">vector</span><span class="p">[</span><span class="n">double</span><span class="p">]</span> <span class="n">getY</span><span class="p">()</span></pre>
<pre class="cython line score-0"> <span class="">035</span>: </pre>
<pre class="cython line score-0"> <span class="">036</span>: <span class="n">vector</span><span class="p">[</span><span class="n">double</span><span class="p">]</span> <span class="n">get_molecular_weights</span><span class="p">()</span></pre>
<pre class="cython line score-0"> <span class="">037</span>: <span class="n">double</span> <span class="n">get_mean_molecular_weight</span><span class="p">()</span></pre>
<pre class="cython line score-0"> <span class="">038</span>: <span class="n">vector</span><span class="p">[</span><span class="n">double</span><span class="p">]</span> <span class="n">get_concentrations</span><span class="p">()</span></pre>
<pre class="cython line score-0"> <span class="">039</span>: </pre>
<pre class="cython line score-0"> <span class="">040</span>: <span class="n">vector</span><span class="p">[</span><span class="n">double</span><span class="p">]</span> <span class="n">get_forward_rate_constants</span><span class="p">()</span></pre>
<pre class="cython line score-0"> <span class="">041</span>: <span class="n">vector</span><span class="p">[</span><span class="n">double</span><span class="p">]</span> <span class="n">get_backward_rate_constants</span><span class="p">()</span></pre>
<pre class="cython line score-0"> <span class="">042</span>: </pre>
<pre class="cython line score-0"> <span class="">043</span>: <span class="n">vector</span><span class="p">[</span><span class="n">double</span><span class="p">]</span> <span class="n">get_kdiff_f</span><span class="p">()</span></pre>
<pre class="cython line score-0"> <span class="">044</span>: <span class="n">vector</span><span class="p">[</span><span class="n">double</span><span class="p">]</span> <span class="n">get_kdiff_b</span><span class="p">()</span></pre>
<pre class="cython line score-0"> <span class="">045</span>: </pre>
<pre class="cython line score-0"> <span class="">046</span>: <span class="n">vector</span><span class="p">[</span><span class="n">vector</span><span class="p">[</span><span class="n">double</span><span class="p">]]</span> <span class="n">get_kdiff</span><span class="p">()</span></pre>
<pre class="cython line score-0"> <span class="">047</span>: </pre>
<pre class="cython line score-0"> <span class="">048</span>: <span class="n">vector</span><span class="p">[</span><span class="n">double</span><span class="p">]</span> <span class="n">get_net_forward_rate_constants</span><span class="p">()</span></pre>
<pre class="cython line score-0"> <span class="">049</span>: <span class="n">vector</span><span class="p">[</span><span class="n">double</span><span class="p">]</span> <span class="n">get_net_backward_rate_constants</span><span class="p">()</span></pre>
<pre class="cython line score-0"> <span class="">050</span>: </pre>
<pre class="cython line score-0"> <span class="">051</span>: <span class="n">vector</span><span class="p">[</span><span class="n">double</span><span class="p">]</span> <span class="n">get_Eaf</span><span class="p">()</span></pre>
<pre class="cython line score-0"> <span class="">052</span>: <span class="n">vector</span><span class="p">[</span><span class="n">double</span><span class="p">]</span> <span class="n">get_Eab</span><span class="p">()</span></pre>
<pre class="cython line score-0"> <span class="">053</span>: </pre>
<pre class="cython line score-0"> <span class="">054</span>: <span class="n">vector</span><span class="p">[</span><span class="n">double</span><span class="p">]</span> <span class="n">get_net_rates_of_production</span><span class="p">()</span></pre>
<pre class="cython line score-0"> <span class="">055</span>: <span class="n">vector</span><span class="p">[</span><span class="n">double</span><span class="p">]</span> <span class="n">get_net_rates_of_progress</span><span class="p">()</span></pre>
<pre class="cython line score-0"> <span class="">056</span>: </pre>
<pre class="cython line score-0" onclick='toggleDiv(this)'>+<span class="">057</span>: <span class="k">cdef</span> <span class="k">class</span> <span class="nf">PyPhase</span><span class="p">:</span></pre>
<pre class='cython code score-0 '>struct __pyx_obj_3CRT_PyPhase {
PyObject_HEAD
Phase *liquidphase;
PyArrayObject *_kdiff_f;
PyArrayObject *_kdiff_b;
};
</pre><pre class="cython line score-0"> <span class="">058</span>: <span class="k">cdef</span> <span class="kt">Phase</span>* <span class="nf">liquidphase</span></pre>
<pre class="cython line score-0"> <span class="">059</span>: </pre>
<pre class="cython line score-0"> <span class="">060</span>: <span class="k">cdef</span> <span class="kt">np</span>.<span class="kt">ndarray</span> <span class="nf">_kdiff_f</span><span class="p">,</span> <span class="nf">_kdiff_b</span></pre>
<pre class="cython line score-0"> <span class="">061</span>: </pre>
<pre class="cython line score-32" onclick='toggleDiv(this)'>+<span class="">062</span>: <span class="k">def</span> <span class="nf">__cinit__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span><span class="n">file1</span><span class="p">,</span><span class="n">file2</span><span class="p">):</span></pre>
<pre class='cython code score-32 '>/* Python wrapper */
static int __pyx_pw_3CRT_7PyPhase_1__cinit__(PyObject *__pyx_v_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/
static int __pyx_pw_3CRT_7PyPhase_1__cinit__(PyObject *__pyx_v_self, PyObject *__pyx_args, PyObject *__pyx_kwds) {
PyObject *__pyx_v_file1 = 0;
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<span class='refnanny'>__Pyx_RefNannyDeclarations</span>
<span class='refnanny'>__Pyx_RefNannySetupContext</span>("__cinit__ (wrapper)", 0);
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<pre class="cython line score-0"> <span class="">091</span>: </pre>
<pre class="cython line score-0"> <span class="">092</span>: <span class="nd">@density</span><span class="o">.</span><span class="n">setter</span></pre>
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