diff --git a/COPYRIGHT b/COPYRIGHT
index 4b287a4d0..17de0aab7 100644
--- a/COPYRIGHT
+++ b/COPYRIGHT
@@ -1,5 +1,5 @@
 GillesPy2 is a Python 3 package for stochastic simulation of biochemical systems.
-Copyright (C) 2019-2022 GillesPy2 developers.
+Copyright (C) 2019-2023 GillesPy2 developers.
 
 This program is free software: you can redistribute it and/or modify
 it under the terms of the GNU General Public License as published by
diff --git a/docs/build/html/.buildinfo b/docs/build/html/.buildinfo
index 3d00a7e02..740da8aa3 100644
--- a/docs/build/html/.buildinfo
+++ b/docs/build/html/.buildinfo
@@ -1,4 +1,4 @@
 # Sphinx build info version 1
 # This file hashes the configuration used when building these files. When it is not found, a full rebuild will be done.
-config: 2006784203741c89b203814ea55dd5b3
+config: 714161441d2f0842325605e90e4c0783
 tags: 645f666f9bcd5a90fca523b33c5a78b7
diff --git a/docs/build/html/.doctrees/classes/gillespy2.core.doctree b/docs/build/html/.doctrees/classes/gillespy2.core.doctree
index c73a1db93..03847b8fb 100644
Binary files a/docs/build/html/.doctrees/classes/gillespy2.core.doctree and b/docs/build/html/.doctrees/classes/gillespy2.core.doctree differ
diff --git a/docs/build/html/.doctrees/classes/gillespy2.solvers.doctree b/docs/build/html/.doctrees/classes/gillespy2.solvers.doctree
index a4263f09f..185167a44 100644
Binary files a/docs/build/html/.doctrees/classes/gillespy2.solvers.doctree and b/docs/build/html/.doctrees/classes/gillespy2.solvers.doctree differ
diff --git a/docs/build/html/.doctrees/classes/gillespy2.solvers.stochkit.doctree b/docs/build/html/.doctrees/classes/gillespy2.solvers.stochkit.doctree
index e7d135599..c62da87e0 100644
Binary files a/docs/build/html/.doctrees/classes/gillespy2.solvers.stochkit.doctree and b/docs/build/html/.doctrees/classes/gillespy2.solvers.stochkit.doctree differ
diff --git a/docs/build/html/.doctrees/environment.pickle b/docs/build/html/.doctrees/environment.pickle
index 1b9058a92..755fba5dd 100644
Binary files a/docs/build/html/.doctrees/environment.pickle and b/docs/build/html/.doctrees/environment.pickle differ
diff --git a/docs/build/html/.doctrees/index.doctree b/docs/build/html/.doctrees/index.doctree
index 2cad554dd..08e81fadd 100644
Binary files a/docs/build/html/.doctrees/index.doctree and b/docs/build/html/.doctrees/index.doctree differ
diff --git a/docs/build/html/_modules/gillespy2/core/assignmentrule.html b/docs/build/html/_modules/gillespy2/core/assignmentrule.html
index cd008c62e..ff9ccde9b 100644
--- a/docs/build/html/_modules/gillespy2/core/assignmentrule.html
+++ b/docs/build/html/_modules/gillespy2/core/assignmentrule.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>gillespy2.core.assignmentrule &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.core.assignmentrule &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../../../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../../../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../../../_static/css/gillespy2_alabaster_customizations.css" />
@@ -103,7 +103,7 @@ <h3 id="searchlabel">Quick search</h3>
             
   <h1>Source code for gillespy2.core.assignmentrule</h1><div class="highlight"><pre>
 <span></span><span class="c1"># GillesPy2 is a modeling toolkit for biochemical simulation.</span>
-<span class="c1"># Copyright (C) 2019-2022 GillesPy2 developers.</span>
+<span class="c1"># Copyright (C) 2019-2023 GillesPy2 developers.</span>
 
 <span class="c1"># This program is free software: you can redistribute it and/or modify</span>
 <span class="c1"># it under the terms of the GNU General Public License as published by</span>
@@ -187,7 +187,7 @@ <h1>Source code for gillespy2.core.assignmentrule</h1><div class="highlight"><pr
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/_modules/gillespy2/core/cleanup.html b/docs/build/html/_modules/gillespy2/core/cleanup.html
index 51de924f2..531461b00 100644
--- a/docs/build/html/_modules/gillespy2/core/cleanup.html
+++ b/docs/build/html/_modules/gillespy2/core/cleanup.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>gillespy2.core.cleanup &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.core.cleanup &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../../../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../../../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../../../_static/css/gillespy2_alabaster_customizations.css" />
@@ -103,7 +103,7 @@ <h3 id="searchlabel">Quick search</h3>
             
   <h1>Source code for gillespy2.core.cleanup</h1><div class="highlight"><pre>
 <span></span><span class="c1"># GillesPy2 is a modeling toolkit for biochemical simulation.</span>
-<span class="c1"># Copyright (C) 2019-2022 GillesPy2 developers.</span>
+<span class="c1"># Copyright (C) 2019-2023 GillesPy2 developers.</span>
 
 <span class="c1"># This program is free software: you can redistribute it and/or modify</span>
 <span class="c1"># it under the terms of the GNU General Public License as published by</span>
@@ -146,7 +146,7 @@ <h1>Source code for gillespy2.core.cleanup</h1><div class="highlight"><pre>
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/_modules/gillespy2/core/events.html b/docs/build/html/_modules/gillespy2/core/events.html
index f35c9ede5..7b68b639b 100644
--- a/docs/build/html/_modules/gillespy2/core/events.html
+++ b/docs/build/html/_modules/gillespy2/core/events.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>gillespy2.core.events &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.core.events &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../../../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../../../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../../../_static/css/gillespy2_alabaster_customizations.css" />
@@ -103,7 +103,7 @@ <h3 id="searchlabel">Quick search</h3>
             
   <h1>Source code for gillespy2.core.events</h1><div class="highlight"><pre>
 <span></span><span class="c1"># GillesPy2 is a modeling toolkit for biochemical simulation.</span>
-<span class="c1"># Copyright (C) 2019-2022 GillesPy2 developers.</span>
+<span class="c1"># Copyright (C) 2019-2023 GillesPy2 developers.</span>
 
 <span class="c1"># This program is free software: you can redistribute it and/or modify</span>
 <span class="c1"># it under the terms of the GNU General Public License as published by</span>
@@ -396,7 +396,7 @@ <h1>Source code for gillespy2.core.events</h1><div class="highlight"><pre>
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/_modules/gillespy2/core/functiondefinition.html b/docs/build/html/_modules/gillespy2/core/functiondefinition.html
index 34b4808ed..e37776ce8 100644
--- a/docs/build/html/_modules/gillespy2/core/functiondefinition.html
+++ b/docs/build/html/_modules/gillespy2/core/functiondefinition.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>gillespy2.core.functiondefinition &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.core.functiondefinition &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../../../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../../../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../../../_static/css/gillespy2_alabaster_customizations.css" />
@@ -103,7 +103,7 @@ <h3 id="searchlabel">Quick search</h3>
             
   <h1>Source code for gillespy2.core.functiondefinition</h1><div class="highlight"><pre>
 <span></span><span class="c1"># GillesPy2 is a modeling toolkit for biochemical simulation.</span>
-<span class="c1"># Copyright (C) 2019-2022 GillesPy2 developers.</span>
+<span class="c1"># Copyright (C) 2019-2023 GillesPy2 developers.</span>
 
 <span class="c1"># This program is free software: you can redistribute it and/or modify</span>
 <span class="c1"># it under the terms of the GNU General Public License as published by</span>
@@ -200,7 +200,7 @@ <h1>Source code for gillespy2.core.functiondefinition</h1><div class="highlight"
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/_modules/gillespy2/core/gillespyError.html b/docs/build/html/_modules/gillespy2/core/gillespyError.html
index d7d0068ab..7dfcaf652 100644
--- a/docs/build/html/_modules/gillespy2/core/gillespyError.html
+++ b/docs/build/html/_modules/gillespy2/core/gillespyError.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>gillespy2.core.gillespyError &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.core.gillespyError &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../../../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../../../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../../../_static/css/gillespy2_alabaster_customizations.css" />
@@ -103,7 +103,7 @@ <h3 id="searchlabel">Quick search</h3>
             
   <h1>Source code for gillespy2.core.gillespyError</h1><div class="highlight"><pre>
 <span></span><span class="c1"># GillesPy2 is a modeling toolkit for biochemical simulation.</span>
-<span class="c1"># Copyright (C) 2019-2022 GillesPy2 developers.</span>
+<span class="c1"># Copyright (C) 2019-2023 GillesPy2 developers.</span>
 
 <span class="c1"># This program is free software: you can redistribute it and/or modify</span>
 <span class="c1"># it under the terms of the GNU General Public License as published by</span>
@@ -219,7 +219,7 @@ <h1>Source code for gillespy2.core.gillespyError</h1><div class="highlight"><pre
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/_modules/gillespy2/core/gillespySolver.html b/docs/build/html/_modules/gillespy2/core/gillespySolver.html
index 85650d2ef..e6d13642e 100644
--- a/docs/build/html/_modules/gillespy2/core/gillespySolver.html
+++ b/docs/build/html/_modules/gillespy2/core/gillespySolver.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>gillespy2.core.gillespySolver &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.core.gillespySolver &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../../../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../../../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../../../_static/css/gillespy2_alabaster_customizations.css" />
@@ -103,7 +103,7 @@ <h3 id="searchlabel">Quick search</h3>
             
   <h1>Source code for gillespy2.core.gillespySolver</h1><div class="highlight"><pre>
 <span></span><span class="c1"># GillesPy2 is a modeling toolkit for biochemical simulation.</span>
-<span class="c1"># Copyright (C) 2019-2022 GillesPy2 developers.</span>
+<span class="c1"># Copyright (C) 2019-2023 GillesPy2 developers.</span>
 
 <span class="c1"># This program is free software: you can redistribute it and/or modify</span>
 <span class="c1"># it under the terms of the GNU General Public License as published by</span>
@@ -284,7 +284,7 @@ <h1>Source code for gillespy2.core.gillespySolver</h1><div class="highlight"><pr
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/_modules/gillespy2/core/jsonify.html b/docs/build/html/_modules/gillespy2/core/jsonify.html
index 3e5bcebe0..5407fa53b 100644
--- a/docs/build/html/_modules/gillespy2/core/jsonify.html
+++ b/docs/build/html/_modules/gillespy2/core/jsonify.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>gillespy2.core.jsonify &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.core.jsonify &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../../../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../../../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../../../_static/css/gillespy2_alabaster_customizations.css" />
@@ -103,7 +103,7 @@ <h3 id="searchlabel">Quick search</h3>
             
   <h1>Source code for gillespy2.core.jsonify</h1><div class="highlight"><pre>
 <span></span><span class="c1"># GillesPy2 is a modeling toolkit for biochemical simulation.</span>
-<span class="c1"># Copyright (C) 2019-2022 GillesPy2 developers.</span>
+<span class="c1"># Copyright (C) 2019-2023 GillesPy2 developers.</span>
 
 <span class="c1"># This program is free software: you can redistribute it and/or modify</span>
 <span class="c1"># it under the terms of the GNU General Public License as published by</span>
@@ -538,7 +538,7 @@ <h1>Source code for gillespy2.core.jsonify</h1><div class="highlight"><pre>
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/_modules/gillespy2/core/liveGraphing.html b/docs/build/html/_modules/gillespy2/core/liveGraphing.html
index 0ce4d4806..b87b479ba 100644
--- a/docs/build/html/_modules/gillespy2/core/liveGraphing.html
+++ b/docs/build/html/_modules/gillespy2/core/liveGraphing.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>gillespy2.core.liveGraphing &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.core.liveGraphing &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../../../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../../../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../../../_static/css/gillespy2_alabaster_customizations.css" />
@@ -103,7 +103,7 @@ <h3 id="searchlabel">Quick search</h3>
             
   <h1>Source code for gillespy2.core.liveGraphing</h1><div class="highlight"><pre>
 <span></span><span class="c1"># GillesPy2 is a modeling toolkit for biochemical simulation.</span>
-<span class="c1"># Copyright (C) 2019-2022 GillesPy2 developers.</span>
+<span class="c1"># Copyright (C) 2019-2023 GillesPy2 developers.</span>
 
 <span class="c1"># This program is free software: you can redistribute it and/or modify</span>
 <span class="c1"># it under the terms of the GNU General Public License as published by</span>
@@ -393,7 +393,7 @@ <h1>Source code for gillespy2.core.liveGraphing</h1><div class="highlight"><pre>
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/_modules/gillespy2/core/model.html b/docs/build/html/_modules/gillespy2/core/model.html
index f32221091..13666ab5b 100644
--- a/docs/build/html/_modules/gillespy2/core/model.html
+++ b/docs/build/html/_modules/gillespy2/core/model.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>gillespy2.core.model &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.core.model &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../../../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../../../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../../../_static/css/gillespy2_alabaster_customizations.css" />
@@ -103,7 +103,7 @@ <h3 id="searchlabel">Quick search</h3>
             
   <h1>Source code for gillespy2.core.model</h1><div class="highlight"><pre>
 <span></span><span class="c1"># GillesPy2 is a modeling toolkit for biochemical simulation.</span>
-<span class="c1"># Copyright (C) 2019-2022 GillesPy2 developers.</span>
+<span class="c1"># Copyright (C) 2019-2023 GillesPy2 developers.</span>
 
 <span class="c1"># This program is free software: you can redistribute it and/or modify</span>
 <span class="c1"># it under the terms of the GNU General Public License as published by</span>
@@ -1155,7 +1155,7 @@ <h1>Source code for gillespy2.core.model</h1><div class="highlight"><pre>
 
 <div class="viewcode-block" id="Model.timespan"><a class="viewcode-back" href="../../../classes/gillespy2.core.html#gillespy2.core.model.Model.timespan">[docs]</a>    <span class="k">def</span> <span class="nf">timespan</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">time_span</span><span class="p">):</span>
 <span class="w">        </span><span class="sd">&quot;&quot;&quot;</span>
-<span class="sd">        Set the time span of simulation. StochKit does not support non-uniform</span>
+<span class="sd">        Set the time span of simulation. GillesPy2 does not support non-uniform</span>
 <span class="sd">        timespans.</span>
 
 <span class="sd">        :param time_span: Evenly-spaced list of times at which to sample the species populations</span>
@@ -1461,7 +1461,7 @@ <h1>Source code for gillespy2.core.model</h1><div class="highlight"><pre>
 
 <div class="viewcode-block" id="StochMLDocument"><a class="viewcode-back" href="../../../classes/gillespy2.core.html#gillespy2.core.model.StochMLDocument">[docs]</a><span class="k">class</span> <span class="nc">StochMLDocument</span><span class="p">():</span>
 <span class="w">    </span><span class="sd">&quot;&quot;&quot; Serializiation and deserialization of a Model to/from</span>
-<span class="sd">        the native StochKit2 XML format. &quot;&quot;&quot;</span>
+<span class="sd">        the native XML format. &quot;&quot;&quot;</span>
 
     <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
         <span class="c1"># The root element</span>
@@ -1471,7 +1471,7 @@ <h1>Source code for gillespy2.core.model</h1><div class="highlight"><pre>
 <div class="viewcode-block" id="StochMLDocument.from_model"><a class="viewcode-back" href="../../../classes/gillespy2.core.html#gillespy2.core.model.StochMLDocument.from_model">[docs]</a>    <span class="nd">@classmethod</span>
     <span class="k">def</span> <span class="nf">from_model</span><span class="p">(</span><span class="bp">cls</span><span class="p">,</span> <span class="n">model</span><span class="p">):</span>
 <span class="w">        </span><span class="sd">&quot;&quot;&quot;</span>
-<span class="sd">        Creates an StochKit XML document from an exisiting Model object.</span>
+<span class="sd">        Creates an XML document from an exisiting Model object.</span>
 <span class="sd">        This method assumes that all the parameters in the model are already</span>
 <span class="sd">        resolved to scalar floats (see Model.resolveParamters).</span>
 
@@ -1546,7 +1546,7 @@ <h1>Source code for gillespy2.core.model</h1><div class="highlight"><pre>
 
 <div class="viewcode-block" id="StochMLDocument.from_file"><a class="viewcode-back" href="../../../classes/gillespy2.core.html#gillespy2.core.model.StochMLDocument.from_file">[docs]</a>    <span class="nd">@classmethod</span>
     <span class="k">def</span> <span class="nf">from_file</span><span class="p">(</span><span class="bp">cls</span><span class="p">,</span> <span class="n">filepath</span><span class="p">):</span>
-<span class="w">        </span><span class="sd">&quot;&quot;&quot; Intializes the document from an exisiting native StochKit XML</span>
+<span class="w">        </span><span class="sd">&quot;&quot;&quot; Intializes the document from an exisiting native XML</span>
 <span class="sd">        file read from disk. &quot;&quot;&quot;</span>
         <span class="n">tree</span> <span class="o">=</span> <span class="n">eTree</span><span class="o">.</span><span class="n">parse</span><span class="p">(</span><span class="n">filepath</span><span class="p">)</span>
         <span class="n">root</span> <span class="o">=</span> <span class="n">tree</span><span class="o">.</span><span class="n">getroot</span><span class="p">()</span>
@@ -1556,7 +1556,7 @@ <h1>Source code for gillespy2.core.model</h1><div class="highlight"><pre>
 
 <div class="viewcode-block" id="StochMLDocument.from_string"><a class="viewcode-back" href="../../../classes/gillespy2.core.html#gillespy2.core.model.StochMLDocument.from_string">[docs]</a>    <span class="nd">@classmethod</span>
     <span class="k">def</span> <span class="nf">from_string</span><span class="p">(</span><span class="bp">cls</span><span class="p">,</span> <span class="n">string</span><span class="p">):</span>
-<span class="w">        </span><span class="sd">&quot;&quot;&quot; Intializes the document from an exisiting native StochKit XML</span>
+<span class="w">        </span><span class="sd">&quot;&quot;&quot; Intializes the document from an exisiting native XML</span>
 <span class="sd">        file read from disk. &quot;&quot;&quot;</span>
         <span class="n">root</span> <span class="o">=</span> <span class="n">eTree</span><span class="o">.</span><span class="n">fromString</span><span class="p">(</span><span class="n">string</span><span class="p">)</span>
 
@@ -1706,8 +1706,8 @@ <h1>Source code for gillespy2.core.model</h1><div class="highlight"><pre>
                     <span class="k">try</span><span class="p">:</span>
                         <span class="n">kwargs</span><span class="p">[</span><span class="s1">&#39;rate&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">model</span><span class="o">.</span><span class="n">listOfParameters</span><span class="p">[</span><span class="n">ratename</span><span class="p">]</span>
                     <span class="k">except</span> <span class="ne">KeyError</span><span class="p">:</span>
-                        <span class="c1"># No paramter name is given. This is a valid use case</span>
-                        <span class="c1"># in StochKit. We generate a name for the paramter,</span>
+                        <span class="c1"># No paramter name is given. This is a valid use case.</span>
+                        <span class="c1"># We generate a name for the paramter,</span>
                         <span class="c1"># and create a new parameter instance. The parameter&#39;s</span>
                         <span class="c1"># value should now be found in &#39;ratename&#39;.</span>
                         <span class="n">generated_rate_name</span> <span class="o">=</span> <span class="s2">&quot;Reaction_&quot;</span> <span class="o">+</span> <span class="n">name</span> <span class="o">+</span> \
@@ -1792,7 +1792,7 @@ <h1>Source code for gillespy2.core.model</h1><div class="highlight"><pre>
         <span class="n">description_element</span><span class="o">.</span><span class="n">text</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">annotation</span>
         <span class="n">sml_reac</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">description_element</span><span class="p">)</span>
 
-        <span class="c1"># StochKit2 wants a rate for mass-action propensites</span>
+        <span class="c1"># Need a rate for mass-action propensites</span>
         <span class="k">if</span> <span class="n">reaction</span><span class="o">.</span><span class="n">massaction</span> <span class="ow">and</span> <span class="n">model_volume</span> <span class="o">==</span> <span class="mf">1.0</span><span class="p">:</span>
             <span class="n">rate_element</span> <span class="o">=</span> <span class="n">eTree</span><span class="o">.</span><span class="n">Element</span><span class="p">(</span><span class="s1">&#39;Rate&#39;</span><span class="p">)</span>
             <span class="c1"># A mass-action reactions should only have one parameter</span>
@@ -1845,7 +1845,7 @@ <h1>Source code for gillespy2.core.model</h1><div class="highlight"><pre>
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/_modules/gillespy2/core/parameter.html b/docs/build/html/_modules/gillespy2/core/parameter.html
index 6ba001fa8..63d892eff 100644
--- a/docs/build/html/_modules/gillespy2/core/parameter.html
+++ b/docs/build/html/_modules/gillespy2/core/parameter.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>gillespy2.core.parameter &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.core.parameter &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../../../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../../../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../../../_static/css/gillespy2_alabaster_customizations.css" />
@@ -103,7 +103,7 @@ <h3 id="searchlabel">Quick search</h3>
             
   <h1>Source code for gillespy2.core.parameter</h1><div class="highlight"><pre>
 <span></span><span class="c1"># GillesPy2 is a modeling toolkit for biochemical simulation.</span>
-<span class="c1"># Copyright (C) 2019-2022 GillesPy2 developers.</span>
+<span class="c1"># Copyright (C) 2019-2023 GillesPy2 developers.</span>
 
 <span class="c1"># This program is free software: you can redistribute it and/or modify</span>
 <span class="c1"># it under the terms of the GNU General Public License as published by</span>
@@ -244,7 +244,7 @@ <h1>Source code for gillespy2.core.parameter</h1><div class="highlight"><pre>
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/_modules/gillespy2/core/raterule.html b/docs/build/html/_modules/gillespy2/core/raterule.html
index f5cd56884..4d660787b 100644
--- a/docs/build/html/_modules/gillespy2/core/raterule.html
+++ b/docs/build/html/_modules/gillespy2/core/raterule.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>gillespy2.core.raterule &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.core.raterule &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../../../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../../../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../../../_static/css/gillespy2_alabaster_customizations.css" />
@@ -103,7 +103,7 @@ <h3 id="searchlabel">Quick search</h3>
             
   <h1>Source code for gillespy2.core.raterule</h1><div class="highlight"><pre>
 <span></span><span class="c1"># GillesPy2 is a modeling toolkit for biochemical simulation.</span>
-<span class="c1"># Copyright (C) 2019-2022 GillesPy2 developers.</span>
+<span class="c1"># Copyright (C) 2019-2023 GillesPy2 developers.</span>
 
 <span class="c1"># This program is free software: you can redistribute it and/or modify</span>
 <span class="c1"># it under the terms of the GNU General Public License as published by</span>
@@ -175,7 +175,7 @@ <h1>Source code for gillespy2.core.raterule</h1><div class="highlight"><pre>
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/_modules/gillespy2/core/reaction.html b/docs/build/html/_modules/gillespy2/core/reaction.html
index 1aaa38393..ff2a1f130 100644
--- a/docs/build/html/_modules/gillespy2/core/reaction.html
+++ b/docs/build/html/_modules/gillespy2/core/reaction.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>gillespy2.core.reaction &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.core.reaction &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../../../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../../../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../../../_static/css/gillespy2_alabaster_customizations.css" />
@@ -103,7 +103,7 @@ <h3 id="searchlabel">Quick search</h3>
             
   <h1>Source code for gillespy2.core.reaction</h1><div class="highlight"><pre>
 <span></span><span class="c1"># GillesPy2 is a modeling toolkit for biochemical simulation.</span>
-<span class="c1"># Copyright (C) 2019-2022 GillesPy2 developers.</span>
+<span class="c1"># Copyright (C) 2019-2023 GillesPy2 developers.</span>
 
 <span class="c1"># This program is free software: you can redistribute it and/or modify</span>
 <span class="c1"># it under the terms of the GNU General Public License as published by</span>
@@ -930,7 +930,7 @@ <h1>Source code for gillespy2.core.reaction</h1><div class="highlight"><pre>
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/_modules/gillespy2/core/results.html b/docs/build/html/_modules/gillespy2/core/results.html
index b3bb6576c..66185d2d2 100644
--- a/docs/build/html/_modules/gillespy2/core/results.html
+++ b/docs/build/html/_modules/gillespy2/core/results.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>gillespy2.core.results &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.core.results &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../../../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../../../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../../../_static/css/gillespy2_alabaster_customizations.css" />
@@ -103,7 +103,7 @@ <h3 id="searchlabel">Quick search</h3>
             
   <h1>Source code for gillespy2.core.results</h1><div class="highlight"><pre>
 <span></span><span class="c1"># GillesPy2 is a modeling toolkit for biochemical simulation.</span>
-<span class="c1"># Copyright (C) 2019-2022 GillesPy2 developers.</span>
+<span class="c1"># Copyright (C) 2019-2023 GillesPy2 developers.</span>
 
 <span class="c1"># This program is free software: you can redistribute it and/or modify</span>
 <span class="c1"># it under the terms of the GNU General Public License as published by</span>
@@ -1055,7 +1055,7 @@ <h1>Source code for gillespy2.core.results</h1><div class="highlight"><pre>
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/_modules/gillespy2/core/sortableobject.html b/docs/build/html/_modules/gillespy2/core/sortableobject.html
index 4f862fd61..4ad1d5b56 100644
--- a/docs/build/html/_modules/gillespy2/core/sortableobject.html
+++ b/docs/build/html/_modules/gillespy2/core/sortableobject.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>gillespy2.core.sortableobject &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.core.sortableobject &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../../../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../../../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../../../_static/css/gillespy2_alabaster_customizations.css" />
@@ -103,7 +103,7 @@ <h3 id="searchlabel">Quick search</h3>
             
   <h1>Source code for gillespy2.core.sortableobject</h1><div class="highlight"><pre>
 <span></span><span class="c1"># GillesPy2 is a modeling toolkit for biochemical simulation.</span>
-<span class="c1"># Copyright (C) 2019-2022 GillesPy2 developers.</span>
+<span class="c1"># Copyright (C) 2019-2023 GillesPy2 developers.</span>
 
 <span class="c1"># This program is free software: you can redistribute it and/or modify</span>
 <span class="c1"># it under the terms of the GNU General Public License as published by</span>
@@ -168,7 +168,7 @@ <h1>Source code for gillespy2.core.sortableobject</h1><div class="highlight"><pr
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/_modules/gillespy2/core/species.html b/docs/build/html/_modules/gillespy2/core/species.html
index 0105f9943..7ebf27e33 100644
--- a/docs/build/html/_modules/gillespy2/core/species.html
+++ b/docs/build/html/_modules/gillespy2/core/species.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>gillespy2.core.species &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.core.species &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../../../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../../../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../../../_static/css/gillespy2_alabaster_customizations.css" />
@@ -103,7 +103,7 @@ <h3 id="searchlabel">Quick search</h3>
             
   <h1>Source code for gillespy2.core.species</h1><div class="highlight"><pre>
 <span></span><span class="c1"># GillesPy2 is a modeling toolkit for biochemical simulation.</span>
-<span class="c1"># Copyright (C) 2019-2022 GillesPy2 developers.</span>
+<span class="c1"># Copyright (C) 2019-2023 GillesPy2 developers.</span>
 
 <span class="c1"># This program is free software: you can redistribute it and/or modify</span>
 <span class="c1"># it under the terms of the GNU General Public License as published by</span>
@@ -321,7 +321,7 @@ <h1>Source code for gillespy2.core.species</h1><div class="highlight"><pre>
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/_modules/gillespy2/core/timespan.html b/docs/build/html/_modules/gillespy2/core/timespan.html
index d73605fc0..bdef62717 100644
--- a/docs/build/html/_modules/gillespy2/core/timespan.html
+++ b/docs/build/html/_modules/gillespy2/core/timespan.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>gillespy2.core.timespan &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.core.timespan &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../../../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../../../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../../../_static/css/gillespy2_alabaster_customizations.css" />
@@ -103,7 +103,7 @@ <h3 id="searchlabel">Quick search</h3>
             
   <h1>Source code for gillespy2.core.timespan</h1><div class="highlight"><pre>
 <span></span><span class="c1"># GillesPy2 is a modeling toolkit for biochemical simulation.</span>
-<span class="c1"># Copyright (C) 2019-2022 GillesPy2 developers.</span>
+<span class="c1"># Copyright (C) 2019-2023 GillesPy2 developers.</span>
 
 <span class="c1"># This program is free software: you can redistribute it and/or modify</span>
 <span class="c1"># it under the terms of the GNU General Public License as published by</span>
@@ -235,7 +235,7 @@ <h1>Source code for gillespy2.core.timespan</h1><div class="highlight"><pre>
         <span class="n">isuniform</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">isclose</span><span class="p">(</span><span class="n">other_diff</span><span class="p">,</span> <span class="n">first_diff</span><span class="p">)</span><span class="o">.</span><span class="n">all</span><span class="p">()</span>
 
         <span class="k">if</span> <span class="ow">not</span> <span class="n">isuniform</span><span class="p">:</span>
-            <span class="k">raise</span> <span class="n">TimespanError</span><span class="p">(</span><span class="s2">&quot;StochKit only supports uniform timespans.&quot;</span><span class="p">)</span>
+            <span class="k">raise</span> <span class="n">TimespanError</span><span class="p">(</span><span class="s2">&quot;GillesPy2 only supports uniform timespans.&quot;</span><span class="p">)</span>
         <span class="k">if</span> <span class="n">first_diff</span> <span class="o">==</span> <span class="mi">0</span> <span class="ow">or</span> <span class="n">np</span><span class="o">.</span><span class="n">count_nonzero</span><span class="p">(</span><span class="n">other_diff</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">other_diff</span><span class="p">):</span>
             <span class="k">raise</span> <span class="n">TimespanError</span><span class="p">(</span><span class="s2">&quot;Timespan can&#39;t contain a single repeating value.&quot;</span><span class="p">)</span></div></div>
 </pre></div>
@@ -254,7 +254,7 @@ <h1>Source code for gillespy2.core.timespan</h1><div class="highlight"><pre>
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/_modules/gillespy2/solvers/cpp/build/build_engine.html b/docs/build/html/_modules/gillespy2/solvers/cpp/build/build_engine.html
index 6e5312331..36fecc5d0 100644
--- a/docs/build/html/_modules/gillespy2/solvers/cpp/build/build_engine.html
+++ b/docs/build/html/_modules/gillespy2/solvers/cpp/build/build_engine.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>gillespy2.solvers.cpp.build.build_engine &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.solvers.cpp.build.build_engine &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../../../../../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../../../../../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../../../../../_static/css/gillespy2_alabaster_customizations.css" />
@@ -103,7 +103,7 @@ <h3 id="searchlabel">Quick search</h3>
             
   <h1>Source code for gillespy2.solvers.cpp.build.build_engine</h1><div class="highlight"><pre>
 <span></span><span class="c1"># GillesPy2 is a modeling toolkit for biochemical simulation.</span>
-<span class="c1"># Copyright (C) 2019-2022 GillesPy2 developers.</span>
+<span class="c1"># Copyright (C) 2019-2023 GillesPy2 developers.</span>
 
 <span class="c1"># This program is free software: you can redistribute it and/or modify</span>
 <span class="c1"># it under the terms of the GNU General Public License as published by</span>
@@ -122,6 +122,7 @@ <h1>Source code for gillespy2.solvers.cpp.build.build_engine</h1><div class="hig
 <span class="kn">import</span> <span class="nn">shutil</span>
 <span class="kn">import</span> <span class="nn">tempfile</span>
 <span class="kn">import</span> <span class="nn">platform</span>
+<span class="kn">from</span> <span class="nn">importlib.util</span> <span class="kn">import</span> <span class="n">find_spec</span>
 <span class="kn">from</span> <span class="nn">pathlib</span> <span class="kn">import</span> <span class="n">Path</span>
 <span class="kn">from</span> <span class="nn">typing</span> <span class="kn">import</span> <span class="n">Union</span>
 
@@ -169,8 +170,12 @@ <h1>Source code for gillespy2.solvers.cpp.build.build_engine</h1><div class="hig
 <span class="sd">        :returns: A list of missing dependencies.</span>
 <span class="sd">        &quot;&quot;&quot;</span>
 
-        <span class="n">dependencies</span> <span class="o">=</span> <span class="p">[</span><span class="s2">&quot;g++&quot;</span><span class="p">,</span> <span class="s2">&quot;make&quot;</span><span class="p">]</span>
+        <span class="n">dependencies</span> <span class="o">=</span> <span class="p">[</span><span class="s2">&quot;g++&quot;</span><span class="p">,</span> <span class="s2">&quot;scons&quot;</span><span class="p">]</span>
         <span class="n">missing</span> <span class="o">=</span> <span class="p">[(</span><span class="n">dep</span><span class="p">)</span> <span class="k">for</span> <span class="n">dep</span> <span class="ow">in</span> <span class="n">dependencies</span> <span class="k">if</span> <span class="n">shutil</span><span class="o">.</span><span class="n">which</span><span class="p">(</span><span class="n">dep</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">]</span>
+        <span class="c1"># SCons can either be an executable or a Python package</span>
+        <span class="c1"># If the executable is not found, default to the Python package</span>
+        <span class="k">if</span> <span class="s2">&quot;scons&quot;</span> <span class="ow">in</span> <span class="n">missing</span> <span class="ow">and</span> <span class="n">find_spec</span><span class="p">(</span><span class="s2">&quot;SCons&quot;</span><span class="p">)</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
+            <span class="n">missing</span><span class="o">.</span><span class="n">remove</span><span class="p">(</span><span class="s2">&quot;scons&quot;</span><span class="p">)</span>
 
         <span class="k">return</span> <span class="n">missing</span></div>
 
@@ -314,7 +319,7 @@ <h1>Source code for gillespy2.solvers.cpp.build.build_engine</h1><div class="hig
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/_modules/gillespy2/solvers/cpp/build/expression.html b/docs/build/html/_modules/gillespy2/solvers/cpp/build/expression.html
index aea02f8a4..2061578bf 100644
--- a/docs/build/html/_modules/gillespy2/solvers/cpp/build/expression.html
+++ b/docs/build/html/_modules/gillespy2/solvers/cpp/build/expression.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>gillespy2.solvers.cpp.build.expression &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.solvers.cpp.build.expression &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../../../../../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../../../../../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../../../../../_static/css/gillespy2_alabaster_customizations.css" />
@@ -103,7 +103,7 @@ <h3 id="searchlabel">Quick search</h3>
             
   <h1>Source code for gillespy2.solvers.cpp.build.expression</h1><div class="highlight"><pre>
 <span></span><span class="c1"># GillesPy2 is a modeling toolkit for biochemical simulation.</span>
-<span class="c1"># Copyright (C) 2019-2022 GillesPy2 developers.</span>
+<span class="c1"># Copyright (C) 2019-2023 GillesPy2 developers.</span>
 
 <span class="c1"># This program is free software: you can redistribute it and/or modify</span>
 <span class="c1"># it under the terms of the GNU General Public License as published by</span>
@@ -583,7 +583,7 @@ <h1>Source code for gillespy2.solvers.cpp.build.expression</h1><div class="highl
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/_modules/gillespy2/solvers/cpp/build/make.html b/docs/build/html/_modules/gillespy2/solvers/cpp/build/make.html
index 2d046c151..f702f9d5f 100644
--- a/docs/build/html/_modules/gillespy2/solvers/cpp/build/make.html
+++ b/docs/build/html/_modules/gillespy2/solvers/cpp/build/make.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>gillespy2.solvers.cpp.build.make &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.solvers.cpp.build.make &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../../../../../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../../../../../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../../../../../_static/css/gillespy2_alabaster_customizations.css" />
@@ -103,7 +103,7 @@ <h3 id="searchlabel">Quick search</h3>
             
   <h1>Source code for gillespy2.solvers.cpp.build.make</h1><div class="highlight"><pre>
 <span></span><span class="c1"># GillesPy2 is a modeling toolkit for biochemical simulation.</span>
-<span class="c1"># Copyright (C) 2019-2022 GillesPy2 developers.</span>
+<span class="c1"># Copyright (C) 2019-2023 GillesPy2 developers.</span>
 
 <span class="c1"># This program is free software: you can redistribute it and/or modify</span>
 <span class="c1"># it under the terms of the GNU General Public License as published by</span>
@@ -121,11 +121,14 @@ <h1>Source code for gillespy2.solvers.cpp.build.make</h1><div class="highlight">
 <span class="kn">import</span> <span class="nn">os</span>
 <span class="kn">import</span> <span class="nn">subprocess</span>
 
+<span class="kn">from</span> <span class="nn">importlib.util</span> <span class="kn">import</span> <span class="n">find_spec</span>
 <span class="kn">from</span> <span class="nn">pathlib</span> <span class="kn">import</span> <span class="n">Path</span>
+<span class="kn">import</span> <span class="nn">shutil</span>
 <span class="kn">import</span> <span class="nn">sys</span>
 
 <span class="kn">from</span> <span class="nn">gillespy2.core</span> <span class="kn">import</span> <span class="n">log</span>
 <span class="kn">from</span> <span class="nn">gillespy2.core</span> <span class="kn">import</span> <span class="n">gillespyError</span>
+<span class="kn">from</span> <span class="nn">gillespy2.core</span> <span class="kn">import</span> <span class="n">BuildError</span>
 
 <div class="viewcode-block" id="Make"><a class="viewcode-back" href="../../../../../classes/gillespy2.solvers.cpp.build.html#gillespy2.solvers.cpp.build.make.Make">[docs]</a><span class="k">class</span> <span class="nc">Make</span><span class="p">():</span>
     <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">makefile</span><span class="p">:</span> <span class="nb">str</span><span class="p">,</span> <span class="n">output_dir</span><span class="p">:</span> <span class="nb">str</span><span class="p">,</span> <span class="n">obj_dir</span><span class="p">:</span> <span class="nb">str</span> <span class="o">=</span> <span class="kc">None</span><span class="p">,</span> <span class="n">template_dir</span><span class="p">:</span> <span class="nb">str</span> <span class="o">=</span> <span class="kc">None</span><span class="p">):</span>
@@ -162,6 +165,15 @@ <h1>Source code for gillespy2.solvers.cpp.build.make</h1><div class="highlight">
 
         <span class="bp">self</span><span class="o">.</span><span class="n">output_file</span> <span class="o">=</span> <span class="n">Path</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">output_dir</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">output_file</span><span class="p">)</span>
 
+        <span class="c1"># SCons can either be an executable or a Python package.</span>
+        <span class="n">scons_exe</span> <span class="o">=</span> <span class="n">shutil</span><span class="o">.</span><span class="n">which</span><span class="p">(</span><span class="s2">&quot;scons&quot;</span><span class="p">)</span>
+        <span class="k">if</span> <span class="n">scons_exe</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+            <span class="bp">self</span><span class="o">.</span><span class="n">scons_cmd</span> <span class="o">=</span> <span class="p">[</span><span class="nb">str</span><span class="p">(</span><span class="n">Path</span><span class="p">(</span><span class="n">sys</span><span class="o">.</span><span class="n">executable</span><span class="p">)</span><span class="o">.</span><span class="n">resolve</span><span class="p">()),</span> <span class="s2">&quot;-m&quot;</span><span class="p">,</span> <span class="s2">&quot;SCons&quot;</span><span class="p">]</span>
+        <span class="k">elif</span> <span class="n">find_spec</span><span class="p">(</span><span class="s2">&quot;SCons&quot;</span><span class="p">)</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
+            <span class="bp">self</span><span class="o">.</span><span class="n">scons_cmd</span> <span class="o">=</span> <span class="p">[</span><span class="nb">str</span><span class="p">(</span><span class="n">Path</span><span class="p">(</span><span class="n">scons_exe</span><span class="p">)</span><span class="o">.</span><span class="n">resolve</span><span class="p">())]</span>
+        <span class="k">else</span><span class="p">:</span>
+            <span class="k">raise</span> <span class="n">BuildError</span><span class="p">(</span><span class="s2">&quot;SCons must be installed in order to compile solver with C++&quot;</span><span class="p">)</span>
+
 <div class="viewcode-block" id="Make.prebuild"><a class="viewcode-back" href="../../../../../classes/gillespy2.solvers.cpp.build.html#gillespy2.solvers.cpp.build.make.Make.prebuild">[docs]</a>    <span class="k">def</span> <span class="nf">prebuild</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
         <span class="bp">self</span><span class="o">.</span><span class="n">__execute</span><span class="p">(</span><span class="s2">&quot;build&quot;</span><span class="p">)</span></div>
 
@@ -186,14 +198,14 @@ <h1>Source code for gillespy2.solvers.cpp.build.make</h1><div class="highlight">
         <span class="n">make_args</span> <span class="o">=</span> <span class="p">[(</span><span class="sa">f</span><span class="s2">&quot;</span><span class="si">{</span><span class="n">key</span><span class="o">.</span><span class="n">upper</span><span class="p">()</span><span class="si">}</span><span class="s2">=</span><span class="si">{</span><span class="n">value</span><span class="si">}</span><span class="s2">&quot;</span><span class="p">)</span> <span class="k">for</span> <span class="n">key</span><span class="p">,</span> <span class="n">value</span> <span class="ow">in</span> <span class="n">args_dict</span><span class="o">.</span><span class="n">items</span><span class="p">()]</span>
 
         <span class="c1"># Create the make command.</span>
-        <span class="n">scons_cmd</span> <span class="o">=</span> <span class="p">[</span><span class="nb">str</span><span class="p">(</span><span class="n">Path</span><span class="p">(</span><span class="n">sys</span><span class="o">.</span><span class="n">executable</span><span class="p">)</span><span class="o">.</span><span class="n">resolve</span><span class="p">()),</span> <span class="s2">&quot;-m&quot;</span><span class="p">,</span> <span class="s2">&quot;SCons&quot;</span><span class="p">]</span>
-        <span class="n">make_cmd</span> <span class="o">=</span> <span class="p">[</span><span class="o">*</span><span class="n">scons_cmd</span><span class="p">,</span> <span class="sa">f</span><span class="s2">&quot;-C</span><span class="si">{</span><span class="nb">str</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">output_dir</span><span class="o">.</span><span class="n">resolve</span><span class="p">())</span><span class="si">}</span><span class="s2">&quot;</span><span class="p">,</span> <span class="sa">f</span><span class="s2">&quot;-f</span><span class="si">{</span><span class="nb">str</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">makefile</span><span class="p">)</span><span class="si">}</span><span class="s2">&quot;</span><span class="p">]</span> <span class="o">+</span> <span class="n">make_args</span>
+        <span class="n">make_cmd</span> <span class="o">=</span> <span class="p">[</span><span class="o">*</span><span class="bp">self</span><span class="o">.</span><span class="n">scons_cmd</span><span class="p">,</span> <span class="sa">f</span><span class="s2">&quot;-C</span><span class="si">{</span><span class="nb">str</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">output_dir</span><span class="o">.</span><span class="n">resolve</span><span class="p">())</span><span class="si">}</span><span class="s2">&quot;</span><span class="p">,</span> <span class="sa">f</span><span class="s2">&quot;-f</span><span class="si">{</span><span class="nb">str</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">makefile</span><span class="p">)</span><span class="si">}</span><span class="s2">&quot;</span><span class="p">]</span> <span class="o">+</span> <span class="n">make_args</span>
 
         <span class="k">try</span><span class="p">:</span>
             <span class="n">result</span> <span class="o">=</span> <span class="n">subprocess</span><span class="o">.</span><span class="n">run</span><span class="p">(</span><span class="n">make_cmd</span><span class="p">,</span> <span class="n">stdout</span><span class="o">=</span><span class="n">subprocess</span><span class="o">.</span><span class="n">PIPE</span><span class="p">,</span> <span class="n">stderr</span><span class="o">=</span><span class="n">subprocess</span><span class="o">.</span><span class="n">PIPE</span><span class="p">)</span>
 
         <span class="k">except</span> <span class="ne">KeyboardInterrupt</span><span class="p">:</span>
-            <span class="n">log</span><span class="o">.</span><span class="n">warning</span><span class="p">(</span><span class="sa">f</span><span class="s2">&quot;Makefile was interrupted during execution of target: &#39;</span><span class="si">{</span><span class="n">target</span><span class="si">}</span><span class="s2">&#39;, unexpected behavior may occur.&quot;</span><span class="p">)</span>
+            <span class="n">log</span><span class="o">.</span><span class="n">warning</span><span class="p">(</span>
+                    <span class="sa">f</span><span class="s2">&quot;Makefile was interrupted during execution of target: &#39;</span><span class="si">{</span><span class="n">target</span><span class="si">}</span><span class="s2">&#39;, unexpected behavior may occur.&quot;</span><span class="p">)</span>
 
         <span class="k">if</span> <span class="n">result</span><span class="o">.</span><span class="n">returncode</span> <span class="o">==</span> <span class="mi">0</span> <span class="ow">and</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">exists</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">output_file</span><span class="p">):</span>
             <span class="k">return</span>
@@ -221,7 +233,7 @@ <h1>Source code for gillespy2.solvers.cpp.build.make</h1><div class="highlight">
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/_modules/gillespy2/solvers/cpp/build/template_gen.html b/docs/build/html/_modules/gillespy2/solvers/cpp/build/template_gen.html
index 32bdce1f3..4f24ee1ac 100644
--- a/docs/build/html/_modules/gillespy2/solvers/cpp/build/template_gen.html
+++ b/docs/build/html/_modules/gillespy2/solvers/cpp/build/template_gen.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>gillespy2.solvers.cpp.build.template_gen &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.solvers.cpp.build.template_gen &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../../../../../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../../../../../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../../../../../_static/css/gillespy2_alabaster_customizations.css" />
@@ -103,7 +103,7 @@ <h3 id="searchlabel">Quick search</h3>
             
   <h1>Source code for gillespy2.solvers.cpp.build.template_gen</h1><div class="highlight"><pre>
 <span></span><span class="c1"># GillesPy2 is a modeling toolkit for biochemical simulation.</span>
-<span class="c1"># Copyright (C) 2019-2022 GillesPy2 developers.</span>
+<span class="c1"># Copyright (C) 2019-2023 GillesPy2 developers.</span>
 
 <span class="c1"># This program is free software: you can redistribute it and/or modify</span>
 <span class="c1"># it under the terms of the GNU General Public License as published by</span>
@@ -118,16 +118,15 @@ <h1>Source code for gillespy2.solvers.cpp.build.template_gen</h1><div class="hig
 <span class="c1"># You should have received a copy of the GNU General Public License</span>
 <span class="c1"># along with this program.  If not, see &lt;http://www.gnu.org/licenses/&gt;.</span>
 
+<span class="kn">import</span> <span class="nn">math</span>
 <span class="kn">from</span> <span class="nn">collections</span> <span class="kn">import</span> <span class="n">OrderedDict</span>
 <span class="kn">from</span> <span class="nn">typing</span> <span class="kn">import</span> <span class="n">Optional</span>
 <span class="kn">from</span> <span class="nn">gillespy2.core</span> <span class="kn">import</span> <span class="n">Species</span><span class="p">,</span> <span class="n">Reaction</span><span class="p">,</span> <span class="n">Parameter</span><span class="p">,</span> <span class="n">Model</span><span class="p">,</span> <span class="n">RateRule</span>
 <span class="kn">from</span> <span class="nn">gillespy2.solvers.cpp.build.expression</span> <span class="kn">import</span> <span class="n">Expression</span>
+<span class="kn">from</span> <span class="nn">gillespy2.solvers.utilities.solverutils</span> <span class="kn">import</span> <span class="n">species_parse</span>
 <span class="kn">from</span> <span class="nn">gillespy2.core</span> <span class="kn">import</span> <span class="n">log</span>
 <span class="kn">from</span> <span class="nn">gillespy2.core.gillespyError</span> <span class="kn">import</span> <span class="n">SimulationError</span>
 
-<span class="kn">import</span> <span class="nn">math</span>
-
-
 <div class="viewcode-block" id="SanitizedModel"><a class="viewcode-back" href="../../../../../classes/gillespy2.solvers.cpp.build.html#gillespy2.solvers.cpp.build.template_gen.SanitizedModel">[docs]</a><span class="k">class</span> <span class="nc">SanitizedModel</span><span class="p">:</span>
 <span class="w">    </span><span class="sd">&quot;&quot;&quot;</span>
 <span class="sd">    Utility class for preparing a model to be passed to a C++ solver.</span>
@@ -176,7 +175,7 @@ <h1>Source code for gillespy2.solvers.cpp.build.template_gen</h1><div class="hig
             <span class="c1"># ORDER IS IMPORTANT HERE!</span>
             <span class="c1"># All &quot;system&quot; namespace entries should always be first.</span>
             <span class="c1"># Otherwise, user-defined identifiers (like, for example, &quot;gamma&quot;) might get overwritten.</span>
-            <span class="o">**</span><span class="p">{</span><span class="n">name</span><span class="p">:</span> <span class="n">name</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">math</span><span class="o">.</span><span class="vm">__dict__</span><span class="o">.</span><span class="n">keys</span><span class="p">()},</span>
+            <span class="o">**</span><span class="p">{</span><span class="n">name</span><span class="p">:</span> <span class="n">name</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">math</span><span class="o">.</span><span class="vm">__dict__</span><span class="p">},</span>
             <span class="o">**</span><span class="bp">self</span><span class="o">.</span><span class="n">function_map</span><span class="p">,</span>
             <span class="o">**</span><span class="bp">self</span><span class="o">.</span><span class="n">species_names</span><span class="p">,</span>
             <span class="o">**</span><span class="bp">self</span><span class="o">.</span><span class="n">parameter_names</span><span class="p">,</span>
@@ -193,6 +192,7 @@ <h1>Source code for gillespy2.solvers.cpp.build.template_gen</h1><div class="hig
         <span class="bp">self</span><span class="o">.</span><span class="n">reactions</span><span class="p">:</span> <span class="s2">&quot;OrderedDict[str, dict[str, int]]&quot;</span> <span class="o">=</span> <span class="n">OrderedDict</span><span class="p">()</span>
         <span class="bp">self</span><span class="o">.</span><span class="n">reaction_reactants</span><span class="p">:</span> <span class="s2">&quot;OrderedDict[str, dict[str, int]]&quot;</span> <span class="o">=</span> <span class="n">OrderedDict</span><span class="p">()</span>
         <span class="bp">self</span><span class="o">.</span><span class="n">reaction_products</span><span class="p">:</span> <span class="s2">&quot;OrderedDict[str, dict[str, int]]&quot;</span> <span class="o">=</span> <span class="n">OrderedDict</span><span class="p">()</span>
+        <span class="bp">self</span><span class="o">.</span><span class="n">reaction_props_deps</span><span class="p">:</span> <span class="s2">&quot;OrderedDict[str, [int]]&quot;</span> <span class="o">=</span> <span class="n">OrderedDict</span><span class="p">()</span>
         <span class="c1"># Rate Rules: maps sanitized species names to their corresponding rate rule expression.</span>
         <span class="bp">self</span><span class="o">.</span><span class="n">rate_rules</span><span class="p">:</span> <span class="s2">&quot;OrderedDict[str, str]&quot;</span> <span class="o">=</span> <span class="n">OrderedDict</span><span class="p">()</span>
         <span class="c1"># Options: custom definitions that can be supplied by the solver, maps macros to their definitions.</span>
@@ -230,6 +230,7 @@ <h1>Source code for gillespy2.solvers.cpp.build.template_gen</h1><div class="hig
         <span class="bp">self</span><span class="o">.</span><span class="n">reactions</span><span class="p">[</span><span class="n">reaction</span><span class="o">.</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="p">{</span><span class="n">spec</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="mi">0</span><span class="p">)</span> <span class="k">for</span> <span class="n">spec</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">species_names</span><span class="o">.</span><span class="n">values</span><span class="p">()}</span>
         <span class="bp">self</span><span class="o">.</span><span class="n">reaction_reactants</span><span class="p">[</span><span class="n">reaction</span><span class="o">.</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="p">{</span><span class="n">spec</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="mi">0</span><span class="p">)</span> <span class="k">for</span> <span class="n">spec</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">species_names</span><span class="o">.</span><span class="n">values</span><span class="p">()}</span>
         <span class="bp">self</span><span class="o">.</span><span class="n">reaction_products</span><span class="p">[</span><span class="n">reaction</span><span class="o">.</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="p">{</span><span class="n">spec</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="mi">0</span><span class="p">)</span> <span class="k">for</span> <span class="n">spec</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">species_names</span><span class="o">.</span><span class="n">values</span><span class="p">()}</span>
+        <span class="bp">self</span><span class="o">.</span><span class="n">reaction_props_deps</span><span class="p">[</span><span class="n">reaction</span><span class="o">.</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="p">{</span><span class="n">spec</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="mi">0</span><span class="p">)</span> <span class="k">for</span> <span class="n">spec</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">species_names</span><span class="o">.</span><span class="n">values</span><span class="p">()}</span>
         <span class="k">for</span> <span class="n">reactant</span><span class="p">,</span> <span class="n">stoich_value</span> <span class="ow">in</span> <span class="n">reaction</span><span class="o">.</span><span class="n">reactants</span><span class="o">.</span><span class="n">items</span><span class="p">():</span>
             <span class="n">reactant</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">species_names</span><span class="p">[</span><span class="n">reactant</span><span class="o">.</span><span class="n">name</span><span class="p">]</span>
             <span class="bp">self</span><span class="o">.</span><span class="n">reactions</span><span class="p">[</span><span class="n">reaction</span><span class="o">.</span><span class="n">name</span><span class="p">][</span><span class="n">reactant</span><span class="p">]</span> <span class="o">-=</span> <span class="nb">int</span><span class="p">(</span><span class="n">stoich_value</span><span class="p">)</span>
@@ -240,6 +241,10 @@ <h1>Source code for gillespy2.solvers.cpp.build.template_gen</h1><div class="hig
             <span class="bp">self</span><span class="o">.</span><span class="n">reactions</span><span class="p">[</span><span class="n">reaction</span><span class="o">.</span><span class="n">name</span><span class="p">][</span><span class="n">product</span><span class="p">]</span> <span class="o">+=</span> <span class="nb">int</span><span class="p">(</span><span class="n">stoich_value</span><span class="p">)</span>
             <span class="bp">self</span><span class="o">.</span><span class="n">reaction_products</span><span class="p">[</span><span class="n">reaction</span><span class="o">.</span><span class="n">name</span><span class="p">][</span><span class="n">product</span><span class="p">]</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">stoich_value</span><span class="p">)</span>
 
+        <span class="n">parsed_species</span> <span class="o">=</span> <span class="p">[</span><span class="n">spec</span><span class="o">.</span><span class="n">name</span> <span class="k">for</span> <span class="n">spec</span> <span class="ow">in</span> <span class="n">species_parse</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">model</span><span class="p">,</span> <span class="n">reaction</span><span class="o">.</span><span class="n">propensity_function</span><span class="p">)]</span>
+        <span class="k">for</span> <span class="n">species</span><span class="p">,</span> <span class="n">san_species</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">species_names</span><span class="o">.</span><span class="n">items</span><span class="p">():</span>
+            <span class="k">if</span> <span class="n">species</span> <span class="ow">in</span> <span class="n">parsed_species</span><span class="p">:</span>
+                <span class="bp">self</span><span class="o">.</span><span class="n">reaction_props_deps</span><span class="p">[</span><span class="n">reaction</span><span class="o">.</span><span class="n">name</span><span class="p">][</span><span class="n">san_species</span><span class="p">]</span> <span class="o">=</span> <span class="mi">1</span>
         <span class="k">return</span> <span class="bp">self</span></div>
 
 <div class="viewcode-block" id="SanitizedModel.use_rate_rule"><a class="viewcode-back" href="../../../../../classes/gillespy2.solvers.cpp.build.html#gillespy2.solvers.cpp.build.template_gen.SanitizedModel.use_rate_rule">[docs]</a>    <span class="k">def</span> <span class="nf">use_rate_rule</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">rate_rule</span><span class="p">:</span> <span class="s2">&quot;RateRule&quot;</span><span class="p">)</span> <span class="o">-&gt;</span> <span class="s2">&quot;SanitizedModel&quot;</span><span class="p">:</span>
@@ -511,6 +516,7 @@ <h1>Source code for gillespy2.solvers.cpp.build.template_gen</h1><div class="hig
     <span class="n">reaction_set</span> <span class="o">=</span> <span class="n">OrderedDict</span><span class="p">()</span>
     <span class="n">reactants_set</span> <span class="o">=</span> <span class="n">OrderedDict</span><span class="p">()</span>
     <span class="n">products_set</span> <span class="o">=</span> <span class="n">OrderedDict</span><span class="p">()</span>
+    <span class="n">props_deps_set</span> <span class="o">=</span> <span class="n">OrderedDict</span><span class="p">()</span>
 
     <span class="k">for</span> <span class="n">rxn_name</span><span class="p">,</span> <span class="n">reaction</span> <span class="ow">in</span> <span class="n">model</span><span class="o">.</span><span class="n">reactions</span><span class="o">.</span><span class="n">items</span><span class="p">():</span>
         <span class="n">stoich</span> <span class="o">=</span> <span class="p">[</span><span class="nb">str</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">reaction</span><span class="p">[</span><span class="n">species</span><span class="p">]))</span> <span class="k">for</span> <span class="n">species</span> <span class="ow">in</span> <span class="n">model</span><span class="o">.</span><span class="n">species_names</span><span class="o">.</span><span class="n">values</span><span class="p">()]</span>
@@ -521,11 +527,15 @@ <h1>Source code for gillespy2.solvers.cpp.build.template_gen</h1><div class="hig
     <span class="k">for</span> <span class="n">rxn_name</span><span class="p">,</span> <span class="n">reaction_products</span> <span class="ow">in</span> <span class="n">model</span><span class="o">.</span><span class="n">reaction_products</span><span class="o">.</span><span class="n">items</span><span class="p">():</span>
         <span class="n">products_count</span> <span class="o">=</span> <span class="p">[</span><span class="nb">str</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">reaction_products</span><span class="p">[</span><span class="n">species</span><span class="p">]))</span> <span class="k">for</span> <span class="n">species</span> <span class="ow">in</span> <span class="n">model</span><span class="o">.</span><span class="n">species_names</span><span class="o">.</span><span class="n">values</span><span class="p">()]</span>
         <span class="n">products_set</span><span class="p">[</span><span class="n">rxn_name</span><span class="p">]</span> <span class="o">=</span> <span class="sa">f</span><span class="s2">&quot;</span><span class="se">{{</span><span class="si">{</span><span class="s1">&#39;,&#39;</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">products_count</span><span class="p">)</span><span class="si">}</span><span class="se">}}</span><span class="s2">&quot;</span>
+    <span class="k">for</span> <span class="n">rxn_name</span><span class="p">,</span> <span class="n">reaction_props_deps</span> <span class="ow">in</span> <span class="n">model</span><span class="o">.</span><span class="n">reaction_props_deps</span><span class="o">.</span><span class="n">items</span><span class="p">():</span>
+        <span class="n">props_deps_count</span> <span class="o">=</span> <span class="p">[</span><span class="nb">str</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">reaction_props_deps</span><span class="p">[</span><span class="n">species</span><span class="p">]))</span> <span class="k">for</span> <span class="n">species</span> <span class="ow">in</span> <span class="n">model</span><span class="o">.</span><span class="n">species_names</span><span class="o">.</span><span class="n">values</span><span class="p">()]</span>
+        <span class="n">props_deps_set</span><span class="p">[</span><span class="n">rxn_name</span><span class="p">]</span> <span class="o">=</span> <span class="sa">f</span><span class="s2">&quot;</span><span class="se">{{</span><span class="si">{</span><span class="s1">&#39;,&#39;</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">props_deps_count</span><span class="p">)</span><span class="si">}</span><span class="se">}}</span><span class="s2">&quot;</span>
 
     <span class="n">reaction_names</span> <span class="o">=</span> <span class="s2">&quot; &quot;</span><span class="o">.</span><span class="n">join</span><span class="p">([</span><span class="sa">f</span><span class="s2">&quot;REACTION_NAME(</span><span class="si">{</span><span class="n">rxn</span><span class="si">}</span><span class="s2">)&quot;</span> <span class="k">for</span> <span class="n">rxn</span> <span class="ow">in</span> <span class="n">reaction_set</span><span class="o">.</span><span class="n">keys</span><span class="p">()])</span>
     <span class="n">reaction_set</span> <span class="o">=</span> <span class="sa">f</span><span class="s2">&quot;</span><span class="se">{{</span><span class="si">{</span><span class="s1">&#39;,&#39;</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">reaction_set</span><span class="o">.</span><span class="n">values</span><span class="p">())</span><span class="si">}</span><span class="se">}}</span><span class="s2">&quot;</span>
     <span class="n">reactants_set</span> <span class="o">=</span> <span class="sa">f</span><span class="s2">&quot;</span><span class="se">{{</span><span class="si">{</span><span class="s1">&#39;,&#39;</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">reactants_set</span><span class="o">.</span><span class="n">values</span><span class="p">())</span><span class="si">}</span><span class="se">}}</span><span class="s2">&quot;</span>
     <span class="n">products_set</span> <span class="o">=</span> <span class="sa">f</span><span class="s2">&quot;</span><span class="se">{{</span><span class="si">{</span><span class="s1">&#39;,&#39;</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">products_set</span><span class="o">.</span><span class="n">values</span><span class="p">())</span><span class="si">}</span><span class="se">}}</span><span class="s2">&quot;</span>
+    <span class="n">props_deps_set</span> <span class="o">=</span> <span class="sa">f</span><span class="s2">&quot;</span><span class="se">{{</span><span class="si">{</span><span class="s1">&#39;,&#39;</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">props_deps_set</span><span class="o">.</span><span class="n">values</span><span class="p">())</span><span class="si">}</span><span class="se">}}</span><span class="s2">&quot;</span>
 
     <span class="k">return</span> <span class="p">{</span>
         <span class="s2">&quot;GPY_NUM_REACTIONS&quot;</span><span class="p">:</span> <span class="n">num_reactions</span><span class="p">,</span>
@@ -533,6 +543,7 @@ <h1>Source code for gillespy2.solvers.cpp.build.template_gen</h1><div class="hig
         <span class="s2">&quot;GPY_REACTIONS&quot;</span><span class="p">:</span> <span class="n">reaction_set</span><span class="p">,</span>
         <span class="s2">&quot;GPY_REACTION_REACTANTS&quot;</span><span class="p">:</span> <span class="n">reactants_set</span><span class="p">,</span>
         <span class="s2">&quot;GPY_REACTION_PRODUCTS&quot;</span><span class="p">:</span> <span class="n">products_set</span><span class="p">,</span>
+        <span class="s2">&quot;GPY_REACTION_PROPS_DEPS&quot;</span><span class="p">:</span> <span class="n">props_deps_set</span>
     <span class="p">}</span></div>
 
 
@@ -568,7 +579,7 @@ <h1>Source code for gillespy2.solvers.cpp.build.template_gen</h1><div class="hig
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/_modules/gillespy2/solvers/cpp/c_decoder.html b/docs/build/html/_modules/gillespy2/solvers/cpp/c_decoder.html
index 690c2a445..5cab5dd84 100644
--- a/docs/build/html/_modules/gillespy2/solvers/cpp/c_decoder.html
+++ b/docs/build/html/_modules/gillespy2/solvers/cpp/c_decoder.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>gillespy2.solvers.cpp.c_decoder &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.solvers.cpp.c_decoder &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../../../../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../../../../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../../../../_static/css/gillespy2_alabaster_customizations.css" />
@@ -103,7 +103,7 @@ <h3 id="searchlabel">Quick search</h3>
             
   <h1>Source code for gillespy2.solvers.cpp.c_decoder</h1><div class="highlight"><pre>
 <span></span><span class="c1"># GillesPy2 is a modeling toolkit for biochemical simulation.</span>
-<span class="c1"># Copyright (C) 2019-2022 GillesPy2 developers.</span>
+<span class="c1"># Copyright (C) 2019-2023 GillesPy2 developers.</span>
 
 <span class="c1"># This program is free software: you can redistribute it and/or modify</span>
 <span class="c1"># it under the terms of the GNU General Public License as published by</span>
@@ -377,7 +377,7 @@ <h1>Source code for gillespy2.solvers.cpp.c_decoder</h1><div class="highlight"><
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/_modules/gillespy2/solvers/cpp/c_solver.html b/docs/build/html/_modules/gillespy2/solvers/cpp/c_solver.html
index d1db98d64..8b6316d5d 100644
--- a/docs/build/html/_modules/gillespy2/solvers/cpp/c_solver.html
+++ b/docs/build/html/_modules/gillespy2/solvers/cpp/c_solver.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>gillespy2.solvers.cpp.c_solver &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.solvers.cpp.c_solver &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../../../../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../../../../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../../../../_static/css/gillespy2_alabaster_customizations.css" />
@@ -103,7 +103,7 @@ <h3 id="searchlabel">Quick search</h3>
             
   <h1>Source code for gillespy2.solvers.cpp.c_solver</h1><div class="highlight"><pre>
 <span></span><span class="c1"># GillesPy2 is a modeling toolkit for biochemical simulation.</span>
-<span class="c1"># Copyright (C) 2019-2022 GillesPy2 developers.</span>
+<span class="c1"># Copyright (C) 2019-2023 GillesPy2 developers.</span>
 
 <span class="c1"># This program is free software: you can redistribute it and/or modify</span>
 <span class="c1"># it under the terms of the GNU General Public License as published by</span>
@@ -172,7 +172,7 @@ <h1>Source code for gillespy2.solvers.cpp.c_solver</h1><div class="highlight"><p
 
         <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">BuildEngine</span><span class="o">.</span><span class="n">get_missing_dependencies</span><span class="p">())</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
             <span class="k">raise</span> <span class="n">gillespyError</span><span class="o">.</span><span class="n">SimulationError</span><span class="p">(</span>
-                <span class="s2">&quot;Please install/configure &#39;g++&#39; and &#39;make&#39; on your system, to ensure that GillesPy2 C solvers will run properly.&quot;</span>
+                <span class="s2">&quot;Please install/configure &#39;g++&#39; and &#39;scons&#39; on your system, to ensure that GillesPy2 C solvers will run properly.&quot;</span>
             <span class="p">)</span>
 
         <span class="k">if</span> <span class="n">platform</span><span class="o">.</span><span class="n">system</span><span class="p">()</span> <span class="o">==</span> <span class="s2">&quot;Windows&quot;</span> <span class="ow">and</span> <span class="s2">&quot; &quot;</span> <span class="ow">in</span> <span class="n">gillespy2</span><span class="o">.</span><span class="vm">__file__</span><span class="p">:</span>
@@ -534,7 +534,7 @@ <h1>Source code for gillespy2.solvers.cpp.c_solver</h1><div class="highlight"><p
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/_modules/gillespy2/solvers/cpp/ode_c_solver.html b/docs/build/html/_modules/gillespy2/solvers/cpp/ode_c_solver.html
index d1d2bba0a..0b5bb2337 100644
--- a/docs/build/html/_modules/gillespy2/solvers/cpp/ode_c_solver.html
+++ b/docs/build/html/_modules/gillespy2/solvers/cpp/ode_c_solver.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>gillespy2.solvers.cpp.ode_c_solver &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.solvers.cpp.ode_c_solver &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../../../../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../../../../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../../../../_static/css/gillespy2_alabaster_customizations.css" />
@@ -103,7 +103,7 @@ <h3 id="searchlabel">Quick search</h3>
             
   <h1>Source code for gillespy2.solvers.cpp.ode_c_solver</h1><div class="highlight"><pre>
 <span></span><span class="c1"># GillesPy2 is a modeling toolkit for biochemical simulation.</span>
-<span class="c1"># Copyright (C) 2019-2022 GillesPy2 developers.</span>
+<span class="c1"># Copyright (C) 2019-2023 GillesPy2 developers.</span>
 
 <span class="c1"># This program is free software: you can redistribute it and/or modify</span>
 <span class="c1"># it under the terms of the GNU General Public License as published by</span>
@@ -311,7 +311,7 @@ <h1>Source code for gillespy2.solvers.cpp.ode_c_solver</h1><div class="highlight
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/_modules/gillespy2/solvers/cpp/ssa_c_solver.html b/docs/build/html/_modules/gillespy2/solvers/cpp/ssa_c_solver.html
index c5d71386f..330621b84 100644
--- a/docs/build/html/_modules/gillespy2/solvers/cpp/ssa_c_solver.html
+++ b/docs/build/html/_modules/gillespy2/solvers/cpp/ssa_c_solver.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>gillespy2.solvers.cpp.ssa_c_solver &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.solvers.cpp.ssa_c_solver &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../../../../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../../../../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../../../../_static/css/gillespy2_alabaster_customizations.css" />
@@ -103,7 +103,7 @@ <h3 id="searchlabel">Quick search</h3>
             
   <h1>Source code for gillespy2.solvers.cpp.ssa_c_solver</h1><div class="highlight"><pre>
 <span></span><span class="c1"># GillesPy2 is a modeling toolkit for biochemical simulation.</span>
-<span class="c1"># Copyright (C) 2019-2022 GillesPy2 developers.</span>
+<span class="c1"># Copyright (C) 2019-2023 GillesPy2 developers.</span>
 
 <span class="c1"># This program is free software: you can redistribute it and/or modify</span>
 <span class="c1"># it under the terms of the GNU General Public License as published by</span>
@@ -301,7 +301,7 @@ <h1>Source code for gillespy2.solvers.cpp.ssa_c_solver</h1><div class="highlight
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/_modules/gillespy2/solvers/cpp/tau_hybrid_c_solver.html b/docs/build/html/_modules/gillespy2/solvers/cpp/tau_hybrid_c_solver.html
index a5015a481..310afc1ca 100644
--- a/docs/build/html/_modules/gillespy2/solvers/cpp/tau_hybrid_c_solver.html
+++ b/docs/build/html/_modules/gillespy2/solvers/cpp/tau_hybrid_c_solver.html
@@ -5,7 +5,7 @@
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     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>gillespy2.solvers.cpp.tau_hybrid_c_solver &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.solvers.cpp.tau_hybrid_c_solver &#8212; GillesPy2 1.8.1 documentation</title>
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@@ -467,7 +467,7 @@ <h1>Source code for gillespy2.solvers.cpp.tau_hybrid_c_solver</h1><div class="hi
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/_modules/gillespy2/solvers/cpp/tau_leaping_c_solver.html b/docs/build/html/_modules/gillespy2/solvers/cpp/tau_leaping_c_solver.html
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@@ -5,7 +5,7 @@
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-    <title>gillespy2.solvers.cpp.tau_leaping_c_solver &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.solvers.cpp.tau_leaping_c_solver &#8212; GillesPy2 1.8.1 documentation</title>
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@@ -103,7 +103,7 @@ <h3 id="searchlabel">Quick search</h3>
             
   <h1>Source code for gillespy2.solvers.cpp.tau_leaping_c_solver</h1><div class="highlight"><pre>
 <span></span><span class="c1"># GillesPy2 is a modeling toolkit for biochemical simulation.</span>
-<span class="c1"># Copyright (C) 2019-2022 GillesPy2 developers.</span>
+<span class="c1"># Copyright (C) 2019-2023 GillesPy2 developers.</span>
 
 <span class="c1"># This program is free software: you can redistribute it and/or modify</span>
 <span class="c1"># it under the terms of the GNU General Public License as published by</span>
@@ -305,7 +305,7 @@ <h1>Source code for gillespy2.solvers.cpp.tau_leaping_c_solver</h1><div class="h
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/_modules/gillespy2/solvers/numpy/CLE_solver.html b/docs/build/html/_modules/gillespy2/solvers/numpy/CLE_solver.html
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--- a/docs/build/html/_modules/gillespy2/solvers/numpy/CLE_solver.html
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-    <title>gillespy2.solvers.numpy.CLE_solver &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.solvers.numpy.CLE_solver &#8212; GillesPy2 1.8.1 documentation</title>
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@@ -103,7 +103,7 @@ <h3 id="searchlabel">Quick search</h3>
             
   <h1>Source code for gillespy2.solvers.numpy.CLE_solver</h1><div class="highlight"><pre>
 <span></span><span class="c1"># GillesPy2 is a modeling toolkit for biochemical simulation.</span>
-<span class="c1"># Copyright (C) 2019-2022 GillesPy2 developers.</span>
+<span class="c1"># Copyright (C) 2019-2023 GillesPy2 developers.</span>
 
 <span class="c1"># This program is free software: you can redistribute it and/or modify</span>
 <span class="c1"># it under the terms of the GNU General Public License as published by</span>
@@ -609,7 +609,7 @@ <h1>Source code for gillespy2.solvers.numpy.CLE_solver</h1><div class="highlight
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/_modules/gillespy2/solvers/numpy/ode_solver.html b/docs/build/html/_modules/gillespy2/solvers/numpy/ode_solver.html
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--- a/docs/build/html/_modules/gillespy2/solvers/numpy/ode_solver.html
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-    <title>gillespy2.solvers.numpy.ode_solver &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.solvers.numpy.ode_solver &#8212; GillesPy2 1.8.1 documentation</title>
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@@ -103,7 +103,7 @@ <h3 id="searchlabel">Quick search</h3>
             
   <h1>Source code for gillespy2.solvers.numpy.ode_solver</h1><div class="highlight"><pre>
 <span></span><span class="c1"># GillesPy2 is a modeling toolkit for biochemical simulation.</span>
-<span class="c1"># Copyright (C) 2019-2022 GillesPy2 developers.</span>
+<span class="c1"># Copyright (C) 2019-2023 GillesPy2 developers.</span>
 
 <span class="c1"># This program is free software: you can redistribute it and/or modify</span>
 <span class="c1"># it under the terms of the GNU General Public License as published by</span>
@@ -459,7 +459,7 @@ <h1>Source code for gillespy2.solvers.numpy.ode_solver</h1><div class="highlight
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/_modules/gillespy2/solvers/numpy/ssa_solver.html b/docs/build/html/_modules/gillespy2/solvers/numpy/ssa_solver.html
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--- a/docs/build/html/_modules/gillespy2/solvers/numpy/ssa_solver.html
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-    <title>gillespy2.solvers.numpy.ssa_solver &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.solvers.numpy.ssa_solver &#8212; GillesPy2 1.8.1 documentation</title>
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@@ -103,7 +103,7 @@ <h3 id="searchlabel">Quick search</h3>
             
   <h1>Source code for gillespy2.solvers.numpy.ssa_solver</h1><div class="highlight"><pre>
 <span></span><span class="c1"># GillesPy2 is a modeling toolkit for biochemical simulation.</span>
-<span class="c1"># Copyright (C) 2019-2022 GillesPy2 developers.</span>
+<span class="c1"># Copyright (C) 2019-2023 GillesPy2 developers.</span>
 
 <span class="c1"># This program is free software: you can redistribute it and/or modify</span>
 <span class="c1"># it under the terms of the GNU General Public License as published by</span>
@@ -521,7 +521,7 @@ <h1>Source code for gillespy2.solvers.numpy.ssa_solver</h1><div class="highlight
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/_modules/gillespy2/solvers/numpy/tau_hybrid_solver.html b/docs/build/html/_modules/gillespy2/solvers/numpy/tau_hybrid_solver.html
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@@ -5,7 +5,7 @@
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-    <title>gillespy2.solvers.numpy.tau_hybrid_solver &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.solvers.numpy.tau_hybrid_solver &#8212; GillesPy2 1.8.1 documentation</title>
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@@ -103,7 +103,7 @@ <h3 id="searchlabel">Quick search</h3>
             
   <h1>Source code for gillespy2.solvers.numpy.tau_hybrid_solver</h1><div class="highlight"><pre>
 <span></span><span class="c1"># GillesPy2 is a modeling toolkit for biochemical simulation.</span>
-<span class="c1"># Copyright (C) 2019-2022 GillesPy2 developers.</span>
+<span class="c1"># Copyright (C) 2019-2023 GillesPy2 developers.</span>
 
 <span class="c1"># This program is free software: you can redistribute it and/or modify</span>
 <span class="c1"># it under the terms of the GNU General Public License as published by</span>
@@ -1408,7 +1408,7 @@ <h1>Source code for gillespy2.solvers.numpy.tau_hybrid_solver</h1><div class="hi
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/_modules/gillespy2/solvers/numpy/tau_leaping_solver.html b/docs/build/html/_modules/gillespy2/solvers/numpy/tau_leaping_solver.html
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@@ -5,7 +5,7 @@
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     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>gillespy2.solvers.numpy.tau_leaping_solver &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.solvers.numpy.tau_leaping_solver &#8212; GillesPy2 1.8.1 documentation</title>
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@@ -103,7 +103,7 @@ <h3 id="searchlabel">Quick search</h3>
             
   <h1>Source code for gillespy2.solvers.numpy.tau_leaping_solver</h1><div class="highlight"><pre>
 <span></span><span class="c1"># GillesPy2 is a modeling toolkit for biochemical simulation.</span>
-<span class="c1"># Copyright (C) 2019-2022 GillesPy2 developers.</span>
+<span class="c1"># Copyright (C) 2019-2023 GillesPy2 developers.</span>
 
 <span class="c1"># This program is free software: you can redistribute it and/or modify</span>
 <span class="c1"># it under the terms of the GNU General Public License as published by</span>
@@ -596,7 +596,7 @@ <h1>Source code for gillespy2.solvers.numpy.tau_leaping_solver</h1><div class="h
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/_modules/gillespy2/solvers/stochkit/stochkit_solvers.html b/docs/build/html/_modules/gillespy2/solvers/stochkit/stochkit_solvers.html
index 9969fd5de..4e6bcec4c 100644
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@@ -5,7 +5,7 @@
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-    <title>gillespy2.solvers.stochkit.stochkit_solvers &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.solvers.stochkit.stochkit_solvers &#8212; GillesPy2 1.8.1 documentation</title>
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@@ -103,7 +103,7 @@ <h3 id="searchlabel">Quick search</h3>
             
   <h1>Source code for gillespy2.solvers.stochkit.stochkit_solvers</h1><div class="highlight"><pre>
 <span></span><span class="c1"># GillesPy2 is a modeling toolkit for biochemical simulation.</span>
-<span class="c1"># Copyright (C) 2019-2022 GillesPy2 developers.</span>
+<span class="c1"># Copyright (C) 2019-2023 GillesPy2 developers.</span>
 
 <span class="c1"># This program is free software: you can redistribute it and/or modify</span>
 <span class="c1"># it under the terms of the GNU General Public License as published by</span>
@@ -508,7 +508,7 @@ <h1>Source code for gillespy2.solvers.stochkit.stochkit_solvers</h1><div class="
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/_modules/gillespy2/solvers/utilities/Tau.html b/docs/build/html/_modules/gillespy2/solvers/utilities/Tau.html
index 3d613c2f3..0f1756953 100644
--- a/docs/build/html/_modules/gillespy2/solvers/utilities/Tau.html
+++ b/docs/build/html/_modules/gillespy2/solvers/utilities/Tau.html
@@ -5,7 +5,7 @@
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-    <title>gillespy2.solvers.utilities.Tau &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.solvers.utilities.Tau &#8212; GillesPy2 1.8.1 documentation</title>
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     <link rel="stylesheet" type="text/css" href="../../../../_static/alabaster.css" />
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@@ -103,7 +103,7 @@ <h3 id="searchlabel">Quick search</h3>
             
   <h1>Source code for gillespy2.solvers.utilities.Tau</h1><div class="highlight"><pre>
 <span></span><span class="c1"># GillesPy2 is a modeling toolkit for biochemical simulation.</span>
-<span class="c1"># Copyright (C) 2019-2022 GillesPy2 developers.</span>
+<span class="c1"># Copyright (C) 2019-2023 GillesPy2 developers.</span>
 
 <span class="c1"># This program is free software: you can redistribute it and/or modify</span>
 <span class="c1"># it under the terms of the GNU General Public License as published by</span>
@@ -279,7 +279,7 @@ <h1>Source code for gillespy2.solvers.utilities.Tau</h1><div class="highlight"><
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/_modules/gillespy2/solvers/utilities/cpp_support_test.html b/docs/build/html/_modules/gillespy2/solvers/utilities/cpp_support_test.html
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--- a/docs/build/html/_modules/gillespy2/solvers/utilities/cpp_support_test.html
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@@ -5,7 +5,7 @@
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-    <title>gillespy2.solvers.utilities.cpp_support_test &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.solvers.utilities.cpp_support_test &#8212; GillesPy2 1.8.1 documentation</title>
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@@ -103,7 +103,7 @@ <h3 id="searchlabel">Quick search</h3>
             
   <h1>Source code for gillespy2.solvers.utilities.cpp_support_test</h1><div class="highlight"><pre>
 <span></span><span class="c1"># GillesPy2 is a modeling toolkit for biochemical simulation.</span>
-<span class="c1"># Copyright (C) 2019-2022 GillesPy2 developers.</span>
+<span class="c1"># Copyright (C) 2019-2023 GillesPy2 developers.</span>
 
 <span class="c1"># This program is free software: you can redistribute it and/or modify</span>
 <span class="c1"># it under the terms of the GNU General Public License as published by</span>
@@ -145,7 +145,7 @@ <h1>Source code for gillespy2.solvers.utilities.cpp_support_test</h1><div class=
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/_modules/gillespy2/solvers/utilities/solverutils.html b/docs/build/html/_modules/gillespy2/solvers/utilities/solverutils.html
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--- a/docs/build/html/_modules/gillespy2/solvers/utilities/solverutils.html
+++ b/docs/build/html/_modules/gillespy2/solvers/utilities/solverutils.html
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-    <title>gillespy2.solvers.utilities.solverutils &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.solvers.utilities.solverutils &#8212; GillesPy2 1.8.1 documentation</title>
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     <link rel="stylesheet" type="text/css" href="../../../../_static/alabaster.css" />
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@@ -103,7 +103,7 @@ <h3 id="searchlabel">Quick search</h3>
             
   <h1>Source code for gillespy2.solvers.utilities.solverutils</h1><div class="highlight"><pre>
 <span></span><span class="c1"># GillesPy2 is a modeling toolkit for biochemical simulation.</span>
-<span class="c1"># Copyright (C) 2019-2022 GillesPy2 developers.</span>
+<span class="c1"># Copyright (C) 2019-2023 GillesPy2 developers.</span>
 
 <span class="c1"># This program is free software: you can redistribute it and/or modify</span>
 <span class="c1"># it under the terms of the GNU General Public License as published by</span>
@@ -320,7 +320,7 @@ <h1>Source code for gillespy2.solvers.utilities.solverutils</h1><div class="high
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/_modules/gillespy2/stochss/StochSSexport.html b/docs/build/html/_modules/gillespy2/stochss/StochSSexport.html
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-    <title>gillespy2.stochss.StochSSexport &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.stochss.StochSSexport &#8212; GillesPy2 1.8.1 documentation</title>
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     <link rel="stylesheet" type="text/css" href="../../../_static/css/gillespy2_alabaster_customizations.css" />
@@ -103,7 +103,7 @@ <h3 id="searchlabel">Quick search</h3>
             
   <h1>Source code for gillespy2.stochss.StochSSexport</h1><div class="highlight"><pre>
 <span></span><span class="c1"># GillesPy2 is a modeling toolkit for biochemical simulation.</span>
-<span class="c1"># Copyright (C) 2019-2022 GillesPy2 developers.</span>
+<span class="c1"># Copyright (C) 2019-2023 GillesPy2 developers.</span>
 
 <span class="c1"># This program is free software: you can redistribute it and/or modify</span>
 <span class="c1"># it under the terms of the GNU General Public License as published by</span>
@@ -361,7 +361,7 @@ <h1>Source code for gillespy2.stochss.StochSSexport</h1><div class="highlight"><
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/_modules/index.html b/docs/build/html/_modules/index.html
index 9e99f21bb..9b657c45d 100644
--- a/docs/build/html/_modules/index.html
+++ b/docs/build/html/_modules/index.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>Overview: module code &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>Overview: module code &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../_static/css/gillespy2_alabaster_customizations.css" />
@@ -133,7 +133,6 @@ <h1>All modules for which code is available</h1>
 <li><a href="gillespy2/solvers/numpy/ssa_solver.html">gillespy2.solvers.numpy.ssa_solver</a></li>
 <li><a href="gillespy2/solvers/numpy/tau_hybrid_solver.html">gillespy2.solvers.numpy.tau_hybrid_solver</a></li>
 <li><a href="gillespy2/solvers/numpy/tau_leaping_solver.html">gillespy2.solvers.numpy.tau_leaping_solver</a></li>
-<li><a href="gillespy2/solvers/stochkit/stochkit_solvers.html">gillespy2.solvers.stochkit.stochkit_solvers</a></li>
 <li><a href="gillespy2/solvers/utilities/Tau.html">gillespy2.solvers.utilities.Tau</a></li>
 <li><a href="gillespy2/solvers/utilities/cpp_support_test.html">gillespy2.solvers.utilities.cpp_support_test</a></li>
 <li><a href="gillespy2/solvers/utilities/solverutils.html">gillespy2.solvers.utilities.solverutils</a></li>
@@ -154,7 +153,7 @@ <h1>All modules for which code is available</h1>
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/_sources/classes/gillespy2.solvers.rst.txt b/docs/build/html/_sources/classes/gillespy2.solvers.rst.txt
index 6836f632a..73f75ea82 100644
--- a/docs/build/html/_sources/classes/gillespy2.solvers.rst.txt
+++ b/docs/build/html/_sources/classes/gillespy2.solvers.rst.txt
@@ -9,7 +9,6 @@ Subpackages
 
    gillespy2.solvers.cpp
    gillespy2.solvers.numpy
-   gillespy2.solvers.stochkit
    gillespy2.solvers.utilities
 
 Module contents
diff --git a/docs/build/html/_static/documentation_options.js b/docs/build/html/_static/documentation_options.js
index 224a0d20b..ca527932f 100644
--- a/docs/build/html/_static/documentation_options.js
+++ b/docs/build/html/_static/documentation_options.js
@@ -1,6 +1,6 @@
 var DOCUMENTATION_OPTIONS = {
     URL_ROOT: document.getElementById("documentation_options").getAttribute('data-url_root'),
-    VERSION: '1.8.0',
+    VERSION: '1.8.1',
     LANGUAGE: 'en',
     COLLAPSE_INDEX: false,
     BUILDER: 'html',
diff --git a/docs/build/html/classes/gillespy2.core.html b/docs/build/html/classes/gillespy2.core.html
index 106662a18..0c731a9e5 100644
--- a/docs/build/html/classes/gillespy2.core.html
+++ b/docs/build/html/classes/gillespy2.core.html
@@ -6,7 +6,7 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="generator" content="Docutils 0.19: https://docutils.sourceforge.io/" />
 
-    <title>gillespy2.core package &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.core package &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../_static/css/gillespy2_alabaster_customizations.css" />
@@ -1797,7 +1797,7 @@ <h2>Submodules<a class="headerlink" href="#submodules" title="Permalink to this
 <dl class="py method">
 <dt class="sig sig-object py" id="gillespy2.core.model.Model.timespan">
 <span class="sig-name descname"><span class="pre">timespan</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">time_span</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="../_modules/gillespy2/core/model.html#Model.timespan"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#gillespy2.core.model.Model.timespan" title="Permalink to this definition">¶</a></dt>
-<dd><p>Set the time span of simulation. StochKit does not support non-uniform
+<dd><p>Set the time span of simulation. GillesPy2 does not support non-uniform
 timespans.</p>
 <dl class="field-list simple">
 <dt class="field-odd">Parameters<span class="colon">:</span></dt>
@@ -1837,18 +1837,18 @@ <h2>Submodules<a class="headerlink" href="#submodules" title="Permalink to this
 <em class="property"><span class="pre">class</span><span class="w"> </span></em><span class="sig-prename descclassname"><span class="pre">gillespy2.core.model.</span></span><span class="sig-name descname"><span class="pre">StochMLDocument</span></span><a class="reference internal" href="../_modules/gillespy2/core/model.html#StochMLDocument"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#gillespy2.core.model.StochMLDocument" title="Permalink to this definition">¶</a></dt>
 <dd><p>Bases: <code class="xref py py-class docutils literal notranslate"><span class="pre">object</span></code></p>
 <p>Serializiation and deserialization of a Model to/from
-the native StochKit2 XML format.</p>
+the native XML format.</p>
 <dl class="py method">
 <dt class="sig sig-object py" id="gillespy2.core.model.StochMLDocument.from_file">
 <em class="property"><span class="pre">classmethod</span><span class="w"> </span></em><span class="sig-name descname"><span class="pre">from_file</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">filepath</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="../_modules/gillespy2/core/model.html#StochMLDocument.from_file"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#gillespy2.core.model.StochMLDocument.from_file" title="Permalink to this definition">¶</a></dt>
-<dd><p>Intializes the document from an exisiting native StochKit XML
+<dd><p>Intializes the document from an exisiting native XML
 file read from disk.</p>
 </dd></dl>
 
 <dl class="py method">
 <dt class="sig sig-object py" id="gillespy2.core.model.StochMLDocument.from_model">
 <em class="property"><span class="pre">classmethod</span><span class="w"> </span></em><span class="sig-name descname"><span class="pre">from_model</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">model</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="../_modules/gillespy2/core/model.html#StochMLDocument.from_model"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#gillespy2.core.model.StochMLDocument.from_model" title="Permalink to this definition">¶</a></dt>
-<dd><p>Creates an StochKit XML document from an exisiting Model object.
+<dd><p>Creates an XML document from an exisiting Model object.
 This method assumes that all the parameters in the model are already
 resolved to scalar floats (see Model.resolveParamters).</p>
 <p>Note, this method is intended to be used internally by the models
@@ -1868,7 +1868,7 @@ <h2>Submodules<a class="headerlink" href="#submodules" title="Permalink to this
 <dl class="py method">
 <dt class="sig sig-object py" id="gillespy2.core.model.StochMLDocument.from_string">
 <em class="property"><span class="pre">classmethod</span><span class="w"> </span></em><span class="sig-name descname"><span class="pre">from_string</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">string</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="../_modules/gillespy2/core/model.html#StochMLDocument.from_string"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#gillespy2.core.model.StochMLDocument.from_string" title="Permalink to this definition">¶</a></dt>
-<dd><p>Intializes the document from an exisiting native StochKit XML
+<dd><p>Intializes the document from an exisiting native XML
 file read from disk.</p>
 </dd></dl>
 
@@ -3923,7 +3923,7 @@ <h2>Submodules<a class="headerlink" href="#submodules" title="Permalink to this
 <dl class="py method">
 <dt class="sig sig-object py" id="gillespy2.core.Model.timespan">
 <span class="sig-name descname"><span class="pre">timespan</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">time_span</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="../_modules/gillespy2/core/model.html#Model.timespan"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#gillespy2.core.Model.timespan" title="Permalink to this definition">¶</a></dt>
-<dd><p>Set the time span of simulation. StochKit does not support non-uniform
+<dd><p>Set the time span of simulation. GillesPy2 does not support non-uniform
 timespans.</p>
 <dl class="field-list simple">
 <dt class="field-odd">Parameters<span class="colon">:</span></dt>
@@ -4691,18 +4691,18 @@ <h2>Submodules<a class="headerlink" href="#submodules" title="Permalink to this
 <em class="property"><span class="pre">class</span><span class="w"> </span></em><span class="sig-prename descclassname"><span class="pre">gillespy2.core.</span></span><span class="sig-name descname"><span class="pre">StochMLDocument</span></span><a class="reference internal" href="../_modules/gillespy2/core/model.html#StochMLDocument"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#gillespy2.core.StochMLDocument" title="Permalink to this definition">¶</a></dt>
 <dd><p>Bases: <code class="xref py py-class docutils literal notranslate"><span class="pre">object</span></code></p>
 <p>Serializiation and deserialization of a Model to/from
-the native StochKit2 XML format.</p>
+the native XML format.</p>
 <dl class="py method">
 <dt class="sig sig-object py" id="gillespy2.core.StochMLDocument.from_file">
 <em class="property"><span class="pre">classmethod</span><span class="w"> </span></em><span class="sig-name descname"><span class="pre">from_file</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">filepath</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="../_modules/gillespy2/core/model.html#StochMLDocument.from_file"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#gillespy2.core.StochMLDocument.from_file" title="Permalink to this definition">¶</a></dt>
-<dd><p>Intializes the document from an exisiting native StochKit XML
+<dd><p>Intializes the document from an exisiting native XML
 file read from disk.</p>
 </dd></dl>
 
 <dl class="py method">
 <dt class="sig sig-object py" id="gillespy2.core.StochMLDocument.from_model">
 <em class="property"><span class="pre">classmethod</span><span class="w"> </span></em><span class="sig-name descname"><span class="pre">from_model</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">model</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="../_modules/gillespy2/core/model.html#StochMLDocument.from_model"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#gillespy2.core.StochMLDocument.from_model" title="Permalink to this definition">¶</a></dt>
-<dd><p>Creates an StochKit XML document from an exisiting Model object.
+<dd><p>Creates an XML document from an exisiting Model object.
 This method assumes that all the parameters in the model are already
 resolved to scalar floats (see Model.resolveParamters).</p>
 <p>Note, this method is intended to be used internally by the models
@@ -4722,7 +4722,7 @@ <h2>Submodules<a class="headerlink" href="#submodules" title="Permalink to this
 <dl class="py method">
 <dt class="sig sig-object py" id="gillespy2.core.StochMLDocument.from_string">
 <em class="property"><span class="pre">classmethod</span><span class="w"> </span></em><span class="sig-name descname"><span class="pre">from_string</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">string</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="../_modules/gillespy2/core/model.html#StochMLDocument.from_string"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#gillespy2.core.StochMLDocument.from_string" title="Permalink to this definition">¶</a></dt>
-<dd><p>Intializes the document from an exisiting native StochKit XML
+<dd><p>Intializes the document from an exisiting native XML
 file read from disk.</p>
 </dd></dl>
 
@@ -5262,7 +5262,7 @@ <h2>Submodules<a class="headerlink" href="#submodules" title="Permalink to this
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/classes/gillespy2.html b/docs/build/html/classes/gillespy2.html
index ebb08747a..6f12d3b94 100644
--- a/docs/build/html/classes/gillespy2.html
+++ b/docs/build/html/classes/gillespy2.html
@@ -6,7 +6,7 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="generator" content="Docutils 0.19: https://docutils.sourceforge.io/" />
 
-    <title>gillespy2 package &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2 package &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../_static/css/gillespy2_alabaster_customizations.css" />
@@ -714,12 +714,6 @@ <h2>Subpackages<a class="headerlink" href="#subpackages" title="Permalink to thi
 <li class="toctree-l4"><a class="reference internal" href="gillespy2.solvers.numpy.html#module-gillespy2.solvers.numpy">Module contents</a></li>
 </ul>
 </li>
-<li class="toctree-l3"><a class="reference internal" href="gillespy2.solvers.stochkit.html">gillespy2.solvers.stochkit package</a><ul>
-<li class="toctree-l4"><a class="reference internal" href="gillespy2.solvers.stochkit.html#submodules">Submodules</a></li>
-<li class="toctree-l4"><a class="reference internal" href="gillespy2.solvers.stochkit.html#module-gillespy2.solvers.stochkit.stochkit_solvers">gillespy2.solvers.stochkit.stochkit_solvers module</a></li>
-<li class="toctree-l4"><a class="reference internal" href="gillespy2.solvers.stochkit.html#module-gillespy2.solvers.stochkit">Module contents</a></li>
-</ul>
-</li>
 <li class="toctree-l3"><a class="reference internal" href="gillespy2.solvers.utilities.html">gillespy2.solvers.utilities package</a><ul>
 <li class="toctree-l4"><a class="reference internal" href="gillespy2.solvers.utilities.html#submodules">Submodules</a></li>
 <li class="toctree-l4"><a class="reference internal" href="gillespy2.solvers.utilities.html#module-gillespy2.solvers.utilities.Tau">gillespy2.solvers.utilities.Tau module</a></li>
@@ -857,7 +851,7 @@ <h2>Subpackages<a class="headerlink" href="#subpackages" title="Permalink to thi
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/classes/gillespy2.sbml.html b/docs/build/html/classes/gillespy2.sbml.html
index 101f9f8f5..3cce30447 100644
--- a/docs/build/html/classes/gillespy2.sbml.html
+++ b/docs/build/html/classes/gillespy2.sbml.html
@@ -6,7 +6,7 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="generator" content="Docutils 0.19: https://docutils.sourceforge.io/" />
 
-    <title>gillespy2.sbml package &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.sbml package &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../_static/css/gillespy2_alabaster_customizations.css" />
@@ -155,7 +155,7 @@ <h2>gillespy2.sbml.SBMLimport module<a class="headerlink" href="#gillespy2-sbml-
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/classes/gillespy2.solvers.auto.html b/docs/build/html/classes/gillespy2.solvers.auto.html
index ed253c55a..4fd09be52 100644
--- a/docs/build/html/classes/gillespy2.solvers.auto.html
+++ b/docs/build/html/classes/gillespy2.solvers.auto.html
@@ -6,7 +6,7 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="generator" content="Docutils 0.19: https://docutils.sourceforge.io/" />
 
-    <title>gillespy2.solvers.auto package &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.solvers.auto package &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../_static/css/gillespy2_alabaster_customizations.css" />
@@ -128,7 +128,7 @@ <h2>Module contents<a class="headerlink" href="#module-contents" title="Permalin
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/classes/gillespy2.solvers.cpp.build.html b/docs/build/html/classes/gillespy2.solvers.cpp.build.html
index 2eada0ddc..1a5b787e6 100644
--- a/docs/build/html/classes/gillespy2.solvers.cpp.build.html
+++ b/docs/build/html/classes/gillespy2.solvers.cpp.build.html
@@ -6,7 +6,7 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="generator" content="Docutils 0.19: https://docutils.sourceforge.io/" />
 
-    <title>gillespy2.solvers.cpp.build package &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.solvers.cpp.build package &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../_static/css/gillespy2_alabaster_customizations.css" />
@@ -893,7 +893,7 @@ <h2>Submodules<a class="headerlink" href="#submodules" title="Permalink to this
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/classes/gillespy2.solvers.cpp.html b/docs/build/html/classes/gillespy2.solvers.cpp.html
index 4dfa3ccc8..5fa238f22 100644
--- a/docs/build/html/classes/gillespy2.solvers.cpp.html
+++ b/docs/build/html/classes/gillespy2.solvers.cpp.html
@@ -6,7 +6,7 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="generator" content="Docutils 0.19: https://docutils.sourceforge.io/" />
 
-    <title>gillespy2.solvers.cpp package &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.solvers.cpp package &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../_static/css/gillespy2_alabaster_customizations.css" />
@@ -1089,7 +1089,7 @@ <h2>Submodules<a class="headerlink" href="#submodules" title="Permalink to this
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/classes/gillespy2.solvers.cython.html b/docs/build/html/classes/gillespy2.solvers.cython.html
index 9cdeed9ee..ebd9addaa 100644
--- a/docs/build/html/classes/gillespy2.solvers.cython.html
+++ b/docs/build/html/classes/gillespy2.solvers.cython.html
@@ -6,7 +6,7 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="generator" content="Docutils 0.19: https://docutils.sourceforge.io/" />
 
-    <title>gillespy2.solvers.cython package &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.solvers.cython package &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../_static/css/gillespy2_alabaster_customizations.css" />
@@ -128,7 +128,7 @@ <h2>Module contents<a class="headerlink" href="#module-contents" title="Permalin
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/classes/gillespy2.solvers.html b/docs/build/html/classes/gillespy2.solvers.html
index 0731495e5..0c81ac695 100644
--- a/docs/build/html/classes/gillespy2.solvers.html
+++ b/docs/build/html/classes/gillespy2.solvers.html
@@ -6,7 +6,7 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="generator" content="Docutils 0.19: https://docutils.sourceforge.io/" />
 
-    <title>gillespy2.solvers package &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.solvers package &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../_static/css/gillespy2_alabaster_customizations.css" />
@@ -380,49 +380,6 @@ <h2>Subpackages<a class="headerlink" href="#subpackages" title="Permalink to thi
 </li>
 </ul>
 </li>
-<li class="toctree-l1"><a class="reference internal" href="gillespy2.solvers.stochkit.html">gillespy2.solvers.stochkit package</a><ul>
-<li class="toctree-l2"><a class="reference internal" href="gillespy2.solvers.stochkit.html#submodules">Submodules</a></li>
-<li class="toctree-l2"><a class="reference internal" href="gillespy2.solvers.stochkit.html#module-gillespy2.solvers.stochkit.stochkit_solvers">gillespy2.solvers.stochkit.stochkit_solvers module</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver"><code class="docutils literal notranslate"><span class="pre">StochKitBaseSolver</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver.label_trajectories"><code class="docutils literal notranslate"><span class="pre">StochKitBaseSolver.label_trajectories()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver.locate_executable"><code class="docutils literal notranslate"><span class="pre">StochKitBaseSolver.locate_executable()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver.name"><code class="docutils literal notranslate"><span class="pre">StochKitBaseSolver.name</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver.process_seed"><code class="docutils literal notranslate"><span class="pre">StochKitBaseSolver.process_seed()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver.rc"><code class="docutils literal notranslate"><span class="pre">StochKitBaseSolver.rc</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver.run"><code class="docutils literal notranslate"><span class="pre">StochKitBaseSolver.run()</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l3"><a class="reference internal" href="gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.stochkit_solvers.StochKitODESolver"><code class="docutils literal notranslate"><span class="pre">StochKitODESolver</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.stochkit_solvers.StochKitODESolver.get_trajectories"><code class="docutils literal notranslate"><span class="pre">StochKitODESolver.get_trajectories()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.stochkit_solvers.StochKitODESolver.name"><code class="docutils literal notranslate"><span class="pre">StochKitODESolver.name</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.stochkit_solvers.StochKitODESolver.run"><code class="docutils literal notranslate"><span class="pre">StochKitODESolver.run()</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l3"><a class="reference internal" href="gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.stochkit_solvers.StochKitSolver"><code class="docutils literal notranslate"><span class="pre">StochKitSolver</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.stochkit_solvers.StochKitSolver.get_trajectories"><code class="docutils literal notranslate"><span class="pre">StochKitSolver.get_trajectories()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.stochkit_solvers.StochKitSolver.name"><code class="docutils literal notranslate"><span class="pre">StochKitSolver.name</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.stochkit_solvers.StochKitSolver.run"><code class="docutils literal notranslate"><span class="pre">StochKitSolver.run()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="gillespy2.solvers.stochkit.html#module-gillespy2.solvers.stochkit">Module contents</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.StochKitODESolver"><code class="docutils literal notranslate"><span class="pre">StochKitODESolver</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.StochKitODESolver.get_trajectories"><code class="docutils literal notranslate"><span class="pre">StochKitODESolver.get_trajectories()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.StochKitODESolver.name"><code class="docutils literal notranslate"><span class="pre">StochKitODESolver.name</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.StochKitODESolver.run"><code class="docutils literal notranslate"><span class="pre">StochKitODESolver.run()</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l3"><a class="reference internal" href="gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.StochKitSolver"><code class="docutils literal notranslate"><span class="pre">StochKitSolver</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.StochKitSolver.get_trajectories"><code class="docutils literal notranslate"><span class="pre">StochKitSolver.get_trajectories()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.StochKitSolver.name"><code class="docutils literal notranslate"><span class="pre">StochKitSolver.name</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.StochKitSolver.run"><code class="docutils literal notranslate"><span class="pre">StochKitSolver.run()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-</ul>
-</li>
 <li class="toctree-l1"><a class="reference internal" href="gillespy2.solvers.utilities.html">gillespy2.solvers.utilities package</a><ul>
 <li class="toctree-l2"><a class="reference internal" href="gillespy2.solvers.utilities.html#submodules">Submodules</a></li>
 <li class="toctree-l2"><a class="reference internal" href="gillespy2.solvers.utilities.html#module-gillespy2.solvers.utilities.Tau">gillespy2.solvers.utilities.Tau module</a><ul>
@@ -1192,7 +1149,7 @@ <h2>Subpackages<a class="headerlink" href="#subpackages" title="Permalink to thi
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/classes/gillespy2.solvers.numpy.html b/docs/build/html/classes/gillespy2.solvers.numpy.html
index dbfe1c9e6..062ddd6ef 100644
--- a/docs/build/html/classes/gillespy2.solvers.numpy.html
+++ b/docs/build/html/classes/gillespy2.solvers.numpy.html
@@ -6,7 +6,7 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="generator" content="Docutils 0.19: https://docutils.sourceforge.io/" />
 
-    <title>gillespy2.solvers.numpy package &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.solvers.numpy package &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../_static/css/gillespy2_alabaster_customizations.css" />
@@ -18,7 +18,7 @@
     <script src="../_static/sphinx_highlight.js"></script>
     <link rel="index" title="Index" href="../genindex.html" />
     <link rel="search" title="Search" href="../search.html" />
-    <link rel="next" title="gillespy2.solvers.stochkit package" href="gillespy2.solvers.stochkit.html" />
+    <link rel="next" title="gillespy2.solvers.utilities package" href="gillespy2.solvers.utilities.html" />
     <link rel="prev" title="gillespy2.solvers.cpp.build package" href="gillespy2.solvers.cpp.build.html" />
    
   <link rel="stylesheet" href="../_static/custom.css" type="text/css" />
@@ -86,7 +86,7 @@ <h3>Related Topics</h3>
   <li><a href="gillespy2.html">gillespy2 package</a><ul>
   <li><a href="gillespy2.solvers.html">gillespy2.solvers package</a><ul>
       <li>Previous: <a href="gillespy2.solvers.cpp.build.html" title="previous chapter">gillespy2.solvers.cpp.build package</a></li>
-      <li>Next: <a href="gillespy2.solvers.stochkit.html" title="next chapter">gillespy2.solvers.stochkit package</a></li>
+      <li>Next: <a href="gillespy2.solvers.utilities.html" title="next chapter">gillespy2.solvers.utilities package</a></li>
   </ul></li>
   </ul></li>
   </ul></li>
@@ -1023,7 +1023,7 @@ <h2>Submodules<a class="headerlink" href="#submodules" title="Permalink to this
           <a href="gillespy2.solvers.cpp.build.html" title="Previous document">gillespy2.solvers.cpp.build package</a>
         </li>
         <li>
-          <a href="gillespy2.solvers.stochkit.html" title="Next document">gillespy2.solvers.stochkit package</a>
+          <a href="gillespy2.solvers.utilities.html" title="Next document">gillespy2.solvers.utilities package</a>
           &rarr;
         </li>
     </ul>
@@ -1035,7 +1035,7 @@ <h2>Submodules<a class="headerlink" href="#submodules" title="Permalink to this
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/classes/gillespy2.solvers.stochkit.html b/docs/build/html/classes/gillespy2.solvers.stochkit.html
index 30239499d..12003fd98 100644
--- a/docs/build/html/classes/gillespy2.solvers.stochkit.html
+++ b/docs/build/html/classes/gillespy2.solvers.stochkit.html
@@ -6,7 +6,7 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="generator" content="Docutils 0.19: https://docutils.sourceforge.io/" />
 
-    <title>gillespy2.solvers.stochkit package &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.solvers.stochkit package &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../_static/css/gillespy2_alabaster_customizations.css" />
@@ -18,8 +18,6 @@
     <script src="../_static/sphinx_highlight.js"></script>
     <link rel="index" title="Index" href="../genindex.html" />
     <link rel="search" title="Search" href="../search.html" />
-    <link rel="next" title="gillespy2.solvers.utilities package" href="gillespy2.solvers.utilities.html" />
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   <link rel="stylesheet" href="../_static/custom.css" type="text/css" />
   
@@ -65,30 +63,14 @@ <h3>Navigation</h3>
 <li class="toctree-l1"><a class="reference internal" href="../tutorials/tut_toggle_switch/tut_toggle_switch.html">Tutorial: ODE vs. SSA</a></li>
 </ul>
 <p class="caption" role="heading"><span class="caption-text">API reference</span></p>
-<ul class="current">
-<li class="toctree-l1 current"><a class="reference internal" href="gillespy2.html">gillespy2 package</a><ul class="current">
-<li class="toctree-l2 current"><a class="reference internal" href="gillespy2.html#subpackages">Subpackages</a><ul class="current">
-<li class="toctree-l3"><a class="reference internal" href="gillespy2.core.html">gillespy2.core package</a></li>
-<li class="toctree-l3"><a class="reference internal" href="gillespy2.sbml.html">gillespy2.sbml package</a></li>
-<li class="toctree-l3 current"><a class="reference internal" href="gillespy2.solvers.html">gillespy2.solvers package</a></li>
-<li class="toctree-l3"><a class="reference internal" href="gillespy2.stochss.html">gillespy2.stochss package</a></li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="gillespy2.html#module-gillespy2">Module contents</a></li>
-</ul>
-</li>
+<ul>
+<li class="toctree-l1"><a class="reference internal" href="gillespy2.html">gillespy2 package</a></li>
 </ul>
 
 <div class="relations">
 <h3>Related Topics</h3>
 <ul>
   <li><a href="../index.html">Documentation overview</a><ul>
-  <li><a href="gillespy2.html">gillespy2 package</a><ul>
-  <li><a href="gillespy2.solvers.html">gillespy2.solvers package</a><ul>
-      <li>Previous: <a href="gillespy2.solvers.numpy.html" title="previous chapter">gillespy2.solvers.numpy package</a></li>
-      <li>Next: <a href="gillespy2.solvers.utilities.html" title="next chapter">gillespy2.solvers.utilities package</a></li>
-  </ul></li>
-  </ul></li>
   </ul></li>
 </ul>
 </div>
@@ -123,387 +105,11 @@ <h1>gillespy2.solvers.stochkit package<a class="headerlink" href="#gillespy2-sol
 <section id="submodules">
 <h2>Submodules<a class="headerlink" href="#submodules" title="Permalink to this heading">¶</a></h2>
 </section>
-<section id="module-gillespy2.solvers.stochkit.stochkit_solvers">
-<span id="gillespy2-solvers-stochkit-stochkit-solvers-module"></span><h2>gillespy2.solvers.stochkit.stochkit_solvers module<a class="headerlink" href="#module-gillespy2.solvers.stochkit.stochkit_solvers" title="Permalink to this heading">¶</a></h2>
-<dl class="py class">
-<dt class="sig sig-object py" id="gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver">
-<em class="property"><span class="pre">class</span><span class="w"> </span></em><span class="sig-prename descclassname"><span class="pre">gillespy2.solvers.stochkit.stochkit_solvers.</span></span><span class="sig-name descname"><span class="pre">StochKitBaseSolver</span></span><a class="reference internal" href="../_modules/gillespy2/solvers/stochkit/stochkit_solvers.html#StochKitBaseSolver"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver" title="Permalink to this definition">¶</a></dt>
-<dd><p>Bases: <a class="reference internal" href="gillespy2.core.html#gillespy2.core.gillespySolver.GillesPySolver" title="gillespy2.core.gillespySolver.GillesPySolver"><code class="xref py py-class docutils literal notranslate"><span class="pre">GillesPySolver</span></code></a></p>
-<dl class="py method">
-<dt class="sig sig-object py" id="gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver.label_trajectories">
-<em class="property"><span class="pre">static</span><span class="w"> </span></em><span class="sig-name descname"><span class="pre">label_trajectories</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">trajectories</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">labels</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="../_modules/gillespy2/solvers/stochkit/stochkit_solvers.html#StochKitBaseSolver.label_trajectories"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver.label_trajectories" title="Permalink to this definition">¶</a></dt>
-<dd></dd></dl>
-
-<dl class="py method">
-<dt class="sig sig-object py" id="gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver.locate_executable">
-<em class="property"><span class="pre">static</span><span class="w"> </span></em><span class="sig-name descname"><span class="pre">locate_executable</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">stochkit_home</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">None</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">algorithm</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">None</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="../_modules/gillespy2/solvers/stochkit/stochkit_solvers.html#StochKitBaseSolver.locate_executable"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver.locate_executable" title="Permalink to this definition">¶</a></dt>
-<dd></dd></dl>
-
-<dl class="py attribute">
-<dt class="sig sig-object py" id="gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver.name">
-<span class="sig-name descname"><span class="pre">name</span></span><em class="property"><span class="w"> </span><span class="p"><span class="pre">=</span></span><span class="w"> </span><span class="pre">'StochKitBaseSolver'</span></em><a class="headerlink" href="#gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver.name" title="Permalink to this definition">¶</a></dt>
-<dd></dd></dl>
-
-<dl class="py method">
-<dt class="sig sig-object py" id="gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver.process_seed">
-<em class="property"><span class="pre">static</span><span class="w"> </span></em><span class="sig-name descname"><span class="pre">process_seed</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">seed</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="../_modules/gillespy2/solvers/stochkit/stochkit_solvers.html#StochKitBaseSolver.process_seed"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver.process_seed" title="Permalink to this definition">¶</a></dt>
-<dd></dd></dl>
-
-<dl class="py attribute">
-<dt class="sig sig-object py" id="gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver.rc">
-<span class="sig-name descname"><span class="pre">rc</span></span><em class="property"><span class="w"> </span><span class="p"><span class="pre">=</span></span><span class="w"> </span><span class="pre">0</span></em><a class="headerlink" href="#gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver.rc" title="Permalink to this definition">¶</a></dt>
-<dd><p>Abstract class for a StochKit solver. This is generally called from within a
-GillesPy Model through the Model.run function. Returns simulation
-trajectories.</p>
-<dl class="field-list simple">
-<dt class="field-odd">Parameters<span class="colon">:</span></dt>
-<dd class="field-odd"><ul class="simple">
-<li><p><strong>model</strong> (<em>GillesPy2.model</em>) – The model on which the solver will operate</p></li>
-<li><p><strong>t</strong> (<em>float</em>) – The end time of the solver</p></li>
-<li><p><strong>number_of_trajectories</strong> – The number of times to sample the chemical master equation. Each</p></li>
-</ul>
-</dd>
-</dl>
-<p>trajectory will be returned at the end of the simulation.
-:type number_of_trajectories: int</p>
-<dl class="field-list simple">
-<dt class="field-odd">Parameters<span class="colon">:</span></dt>
-<dd class="field-odd"><ul class="simple">
-<li><p><strong>increment</strong> (<em>float</em>) – The time step of the solution</p></li>
-<li><p><strong>seed</strong> (<em>int</em>) – The random seed for the simulation. Defaults to None.</p></li>
-<li><p><strong>stochkit_home</strong> – Path to stochkit. This is set automatically upon installation, but</p></li>
-</ul>
-</dd>
-</dl>
-<p>may be overwritten if desired.
-:type stochkit_home: str</p>
-<dl class="field-list simple">
-<dt class="field-odd">Parameters<span class="colon">:</span></dt>
-<dd class="field-odd"><p><strong>algorithm</strong> – The solver by which to simulate the model. ‘ssa’ or ‘tau_leaping’</p>
-</dd>
-</dl>
-<p>are the available options. If ‘ssa’ is chosen, StochKit will choose
-from the available ssa options.
-:type algorithm: str</p>
-<dl class="field-list simple">
-<dt class="field-odd">Parameters<span class="colon">:</span></dt>
-<dd class="field-odd"><ul class="simple">
-<li><p><strong>job_id</strong> (<em>str</em>) – If given, this will be the name of the solver run. Usually not set.</p></li>
-<li><p><strong>extra_args</strong> – Any extra arguments for the stochkit solver. See StochKit2</p></li>
-</ul>
-</dd>
-</dl>
-<p>documentation for details.
-:type extra_args: str</p>
-<dl class="field-list simple">
-<dt class="field-odd">Parameters<span class="colon">:</span></dt>
-<dd class="field-odd"><ul class="simple">
-<li><p><strong>debug</strong> (<em>bool</em>) – Set to True to provide additional debug information about the simulation.</p></li>
-<li><p><strong>show_labels</strong> (<em>str</em>) – Use names of species as index of result object rather than position numbers.</p></li>
-</ul>
-</dd>
-</dl>
-</dd></dl>
-
-<dl class="py method">
-<dt class="sig sig-object py" id="gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver.run">
-<em class="property"><span class="pre">classmethod</span><span class="w"> </span></em><span class="sig-name descname"><span class="pre">run</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">model</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">t</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">20</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">number_of_trajectories</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">1</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">increment</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">0.05</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">seed</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">None</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">stochkit_home</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">None</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">algorithm</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">None</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">job_id</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">None</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">extra_args</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">''</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">debug</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">False</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">profile</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">False</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">show_labels</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">False</span></span></em>, <em class="sig-param"><span class="o"><span class="pre">**</span></span><span class="n"><span class="pre">kwargs</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="../_modules/gillespy2/solvers/stochkit/stochkit_solvers.html#StochKitBaseSolver.run"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver.run" title="Permalink to this definition">¶</a></dt>
-<dd><p>Call out and run the solver. Collect the results.</p>
-</dd></dl>
-
-</dd></dl>
-
-<dl class="py class">
-<dt class="sig sig-object py" id="gillespy2.solvers.stochkit.stochkit_solvers.StochKitODESolver">
-<em class="property"><span class="pre">class</span><span class="w"> </span></em><span class="sig-prename descclassname"><span class="pre">gillespy2.solvers.stochkit.stochkit_solvers.</span></span><span class="sig-name descname"><span class="pre">StochKitODESolver</span></span><a class="reference internal" href="../_modules/gillespy2/solvers/stochkit/stochkit_solvers.html#StochKitODESolver"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#gillespy2.solvers.stochkit.stochkit_solvers.StochKitODESolver" title="Permalink to this definition">¶</a></dt>
-<dd><p>Bases: <a class="reference internal" href="#gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver" title="gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver"><code class="xref py py-class docutils literal notranslate"><span class="pre">StochKitBaseSolver</span></code></a></p>
-<dl class="py method">
-<dt class="sig sig-object py" id="gillespy2.solvers.stochkit.stochkit_solvers.StochKitODESolver.get_trajectories">
-<em class="property"><span class="pre">classmethod</span><span class="w"> </span></em><span class="sig-name descname"><span class="pre">get_trajectories</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">out_dir</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">debug</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">False</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">show_labels</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">False</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="../_modules/gillespy2/solvers/stochkit/stochkit_solvers.html#StochKitODESolver.get_trajectories"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#gillespy2.solvers.stochkit.stochkit_solvers.StochKitODESolver.get_trajectories" title="Permalink to this definition">¶</a></dt>
-<dd></dd></dl>
-
-<dl class="py attribute">
-<dt class="sig sig-object py" id="gillespy2.solvers.stochkit.stochkit_solvers.StochKitODESolver.name">
-<span class="sig-name descname"><span class="pre">name</span></span><em class="property"><span class="w"> </span><span class="p"><span class="pre">=</span></span><span class="w"> </span><span class="pre">'StochKitODESolver'</span></em><a class="headerlink" href="#gillespy2.solvers.stochkit.stochkit_solvers.StochKitODESolver.name" title="Permalink to this definition">¶</a></dt>
-<dd><p>Abstract class for StochKit solver derived from the GillesPySolver class.
-This is generally used to set up the solver.</p>
-<dl class="field-list simple">
-<dt class="field-odd">Parameters<span class="colon">:</span></dt>
-<dd class="field-odd"><ul class="simple">
-<li><p><strong>model</strong> (<em>GillesPy2.model</em>) – The model on which the solver will operate</p></li>
-<li><p><strong>t</strong> (<em>float</em>) – The end time of the solver</p></li>
-<li><p><strong>number_of_trajectories</strong> – The number of times to sample the chemical master equation. Each</p></li>
-</ul>
-</dd>
-</dl>
-<p>trajectory will be returned at the end of the simulation.
-:type number_of_trajectories: int</p>
-<dl class="field-list simple">
-<dt class="field-odd">Parameters<span class="colon">:</span></dt>
-<dd class="field-odd"><ul class="simple">
-<li><p><strong>increment</strong> (<em>float</em>) – The time step of the solution</p></li>
-<li><p><strong>seed</strong> (<em>int</em>) – The random seed for the simulation. Defaults to None.</p></li>
-<li><p><strong>stochkit_home</strong> – Path to stochkit. This is set automatically upon installation, but</p></li>
-</ul>
-</dd>
-</dl>
-<p>may be overwritten if desired.
-:type stochkit_home: str</p>
-<dl class="field-list simple">
-<dt class="field-odd">Parameters<span class="colon">:</span></dt>
-<dd class="field-odd"><p><strong>algorithm</strong> – The solver by which to simulate the model. ‘ssa’ or ‘tau_leaping’</p>
-</dd>
-</dl>
-<p>are the available options. If ‘ssa’ is chosen, StochKit will choose
-from the available ssa options.
-:type algorithm: str</p>
-<dl class="field-list simple">
-<dt class="field-odd">Parameters<span class="colon">:</span></dt>
-<dd class="field-odd"><ul class="simple">
-<li><p><strong>job_id</strong> (<em>str</em>) – If given, this will be the name of the solver run. Usually not set.</p></li>
-<li><p><strong>extra_args</strong> – Any extra arguments for the stochkit solver. See StochKit2</p></li>
-</ul>
-</dd>
-</dl>
-<p>documentation for details.
-:type extra_args: str</p>
-<dl class="field-list simple">
-<dt class="field-odd">Parameters<span class="colon">:</span></dt>
-<dd class="field-odd"><ul class="simple">
-<li><p><strong>debug</strong> (<em>bool</em>) – Set to True to provide additional debug information about the simulation.</p></li>
-<li><p><strong>show_labels</strong> (<em>str</em>) – Use names of species as index of result object rather than position numbers.</p></li>
-</ul>
-</dd>
-</dl>
-</dd></dl>
-
-<dl class="py method">
-<dt class="sig sig-object py" id="gillespy2.solvers.stochkit.stochkit_solvers.StochKitODESolver.run">
-<em class="property"><span class="pre">classmethod</span><span class="w"> </span></em><span class="sig-name descname"><span class="pre">run</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">model</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">t</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">20</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">number_of_trajectories</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">1</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">increment</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">0.05</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">seed</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">None</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">stochkit_home</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">None</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">algorithm</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">'stochkit_ode.py'</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">job_id</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">None</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">debug</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">False</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">profile</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">False</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">show_labels</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">False</span></span></em>, <em class="sig-param"><span class="o"><span class="pre">**</span></span><span class="n"><span class="pre">kwargs</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="../_modules/gillespy2/solvers/stochkit/stochkit_solvers.html#StochKitODESolver.run"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#gillespy2.solvers.stochkit.stochkit_solvers.StochKitODESolver.run" title="Permalink to this definition">¶</a></dt>
-<dd><p>Call out and run the solver. Collect the results.</p>
-</dd></dl>
-
-</dd></dl>
-
-<dl class="py class">
-<dt class="sig sig-object py" id="gillespy2.solvers.stochkit.stochkit_solvers.StochKitSolver">
-<em class="property"><span class="pre">class</span><span class="w"> </span></em><span class="sig-prename descclassname"><span class="pre">gillespy2.solvers.stochkit.stochkit_solvers.</span></span><span class="sig-name descname"><span class="pre">StochKitSolver</span></span><a class="reference internal" href="../_modules/gillespy2/solvers/stochkit/stochkit_solvers.html#StochKitSolver"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#gillespy2.solvers.stochkit.stochkit_solvers.StochKitSolver" title="Permalink to this definition">¶</a></dt>
-<dd><p>Bases: <a class="reference internal" href="#gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver" title="gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver"><code class="xref py py-class docutils literal notranslate"><span class="pre">StochKitBaseSolver</span></code></a></p>
-<dl class="py method">
-<dt class="sig sig-object py" id="gillespy2.solvers.stochkit.stochkit_solvers.StochKitSolver.get_trajectories">
-<em class="property"><span class="pre">classmethod</span><span class="w"> </span></em><span class="sig-name descname"><span class="pre">get_trajectories</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">out_dir</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">debug</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">False</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">show_labels</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">False</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="../_modules/gillespy2/solvers/stochkit/stochkit_solvers.html#StochKitSolver.get_trajectories"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#gillespy2.solvers.stochkit.stochkit_solvers.StochKitSolver.get_trajectories" title="Permalink to this definition">¶</a></dt>
-<dd></dd></dl>
-
-<dl class="py attribute">
-<dt class="sig sig-object py" id="gillespy2.solvers.stochkit.stochkit_solvers.StochKitSolver.name">
-<span class="sig-name descname"><span class="pre">name</span></span><em class="property"><span class="w"> </span><span class="p"><span class="pre">=</span></span><span class="w"> </span><span class="pre">'StochKitSolver'</span></em><a class="headerlink" href="#gillespy2.solvers.stochkit.stochkit_solvers.StochKitSolver.name" title="Permalink to this definition">¶</a></dt>
-<dd><p>Abstract class for StochKit solver derived from the GillesPySolver class.
-This is generally used to set up the solver.</p>
-<dl class="field-list simple">
-<dt class="field-odd">Parameters<span class="colon">:</span></dt>
-<dd class="field-odd"><ul class="simple">
-<li><p><strong>model</strong> (<em>GillesPy2.model</em>) – The model on which the solver will operate</p></li>
-<li><p><strong>t</strong> (<em>float</em>) – The end time of the solver</p></li>
-<li><p><strong>number_of_trajectories</strong> – The number of times to sample the chemical master equation. Each</p></li>
-</ul>
-</dd>
-</dl>
-<p>trajectory will be returned at the end of the simulation.
-:type number_of_trajectories: int</p>
-<dl class="field-list simple">
-<dt class="field-odd">Parameters<span class="colon">:</span></dt>
-<dd class="field-odd"><ul class="simple">
-<li><p><strong>increment</strong> (<em>float</em>) – The time step of the solution</p></li>
-<li><p><strong>seed</strong> (<em>int</em>) – The random seed for the simulation. Defaults to None.</p></li>
-<li><p><strong>stochkit_home</strong> – Path to stochkit. This is set automatically upon installation, but</p></li>
-</ul>
-</dd>
-</dl>
-<p>may be overwritten if desired.
-:type stochkit_home: str</p>
-<dl class="field-list simple">
-<dt class="field-odd">Parameters<span class="colon">:</span></dt>
-<dd class="field-odd"><p><strong>algorithm</strong> – The solver by which to simulate the model. ‘ssa’ or ‘tau_leaping’</p>
-</dd>
-</dl>
-<p>are the available options. If ‘ssa’ is chosen, StochKit will choose
-from the available ssa options.
-:type algorithm: str</p>
-<dl class="field-list simple">
-<dt class="field-odd">Parameters<span class="colon">:</span></dt>
-<dd class="field-odd"><ul class="simple">
-<li><p><strong>job_id</strong> (<em>str</em>) – If given, this will be the name of the solver run. Usually not set.</p></li>
-<li><p><strong>extra_args</strong> – Any extra arguments for the stochkit solver. See StochKit2</p></li>
-</ul>
-</dd>
-</dl>
-<p>documentation for details.
-:type extra_args: str</p>
-<dl class="field-list simple">
-<dt class="field-odd">Parameters<span class="colon">:</span></dt>
-<dd class="field-odd"><ul class="simple">
-<li><p><strong>debug</strong> (<em>bool</em>) – Set to True to provide additional debug information about the simulation.</p></li>
-<li><p><strong>show_labels</strong> (<em>str</em>) – Use names of species as index of result object rather than position numbers.</p></li>
-</ul>
-</dd>
-</dl>
-</dd></dl>
-
-<dl class="py method">
-<dt class="sig sig-object py" id="gillespy2.solvers.stochkit.stochkit_solvers.StochKitSolver.run">
-<em class="property"><span class="pre">classmethod</span><span class="w"> </span></em><span class="sig-name descname"><span class="pre">run</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">model</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">t</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">20</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">number_of_trajectories</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">1</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">increment</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">0.05</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">seed</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">None</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">stochkit_home</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">None</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">algorithm</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">'ssa'</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">job_id</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">None</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">method</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">None</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">debug</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">False</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">show_labels</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">False</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">profile</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">False</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">processes</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">1</span></span></em>, <em class="sig-param"><span class="o"><span class="pre">**</span></span><span class="n"><span class="pre">kwargs</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="../_modules/gillespy2/solvers/stochkit/stochkit_solvers.html#StochKitSolver.run"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#gillespy2.solvers.stochkit.stochkit_solvers.StochKitSolver.run" title="Permalink to this definition">¶</a></dt>
-<dd><p>Call out and run the solver. Collect the results.</p>
-</dd></dl>
-
-</dd></dl>
-
+<section id="gillespy2-solvers-stochkit-stochkit-solvers-module">
+<h2>gillespy2.solvers.stochkit.stochkit_solvers module<a class="headerlink" href="#gillespy2-solvers-stochkit-stochkit-solvers-module" title="Permalink to this heading">¶</a></h2>
 </section>
-<section id="module-gillespy2.solvers.stochkit">
-<span id="module-contents"></span><h2>Module contents<a class="headerlink" href="#module-gillespy2.solvers.stochkit" title="Permalink to this heading">¶</a></h2>
-<dl class="py class">
-<dt class="sig sig-object py" id="gillespy2.solvers.stochkit.StochKitODESolver">
-<em class="property"><span class="pre">class</span><span class="w"> </span></em><span class="sig-prename descclassname"><span class="pre">gillespy2.solvers.stochkit.</span></span><span class="sig-name descname"><span class="pre">StochKitODESolver</span></span><a class="reference internal" href="../_modules/gillespy2/solvers/stochkit/stochkit_solvers.html#StochKitODESolver"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#gillespy2.solvers.stochkit.StochKitODESolver" title="Permalink to this definition">¶</a></dt>
-<dd><p>Bases: <a class="reference internal" href="#gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver" title="gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver"><code class="xref py py-class docutils literal notranslate"><span class="pre">StochKitBaseSolver</span></code></a></p>
-<dl class="py method">
-<dt class="sig sig-object py" id="gillespy2.solvers.stochkit.StochKitODESolver.get_trajectories">
-<em class="property"><span class="pre">classmethod</span><span class="w"> </span></em><span class="sig-name descname"><span class="pre">get_trajectories</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">out_dir</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">debug</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">False</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">show_labels</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">False</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="../_modules/gillespy2/solvers/stochkit/stochkit_solvers.html#StochKitODESolver.get_trajectories"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#gillespy2.solvers.stochkit.StochKitODESolver.get_trajectories" title="Permalink to this definition">¶</a></dt>
-<dd></dd></dl>
-
-<dl class="py attribute">
-<dt class="sig sig-object py" id="gillespy2.solvers.stochkit.StochKitODESolver.name">
-<span class="sig-name descname"><span class="pre">name</span></span><em class="property"><span class="w"> </span><span class="p"><span class="pre">=</span></span><span class="w"> </span><span class="pre">'StochKitODESolver'</span></em><a class="headerlink" href="#gillespy2.solvers.stochkit.StochKitODESolver.name" title="Permalink to this definition">¶</a></dt>
-<dd><p>Abstract class for StochKit solver derived from the GillesPySolver class.
-This is generally used to set up the solver.</p>
-<dl class="field-list simple">
-<dt class="field-odd">Parameters<span class="colon">:</span></dt>
-<dd class="field-odd"><ul class="simple">
-<li><p><strong>model</strong> (<em>GillesPy2.model</em>) – The model on which the solver will operate</p></li>
-<li><p><strong>t</strong> (<em>float</em>) – The end time of the solver</p></li>
-<li><p><strong>number_of_trajectories</strong> – The number of times to sample the chemical master equation. Each</p></li>
-</ul>
-</dd>
-</dl>
-<p>trajectory will be returned at the end of the simulation.
-:type number_of_trajectories: int</p>
-<dl class="field-list simple">
-<dt class="field-odd">Parameters<span class="colon">:</span></dt>
-<dd class="field-odd"><ul class="simple">
-<li><p><strong>increment</strong> (<em>float</em>) – The time step of the solution</p></li>
-<li><p><strong>seed</strong> (<em>int</em>) – The random seed for the simulation. Defaults to None.</p></li>
-<li><p><strong>stochkit_home</strong> – Path to stochkit. This is set automatically upon installation, but</p></li>
-</ul>
-</dd>
-</dl>
-<p>may be overwritten if desired.
-:type stochkit_home: str</p>
-<dl class="field-list simple">
-<dt class="field-odd">Parameters<span class="colon">:</span></dt>
-<dd class="field-odd"><p><strong>algorithm</strong> – The solver by which to simulate the model. ‘ssa’ or ‘tau_leaping’</p>
-</dd>
-</dl>
-<p>are the available options. If ‘ssa’ is chosen, StochKit will choose
-from the available ssa options.
-:type algorithm: str</p>
-<dl class="field-list simple">
-<dt class="field-odd">Parameters<span class="colon">:</span></dt>
-<dd class="field-odd"><ul class="simple">
-<li><p><strong>job_id</strong> (<em>str</em>) – If given, this will be the name of the solver run. Usually not set.</p></li>
-<li><p><strong>extra_args</strong> – Any extra arguments for the stochkit solver. See StochKit2</p></li>
-</ul>
-</dd>
-</dl>
-<p>documentation for details.
-:type extra_args: str</p>
-<dl class="field-list simple">
-<dt class="field-odd">Parameters<span class="colon">:</span></dt>
-<dd class="field-odd"><ul class="simple">
-<li><p><strong>debug</strong> (<em>bool</em>) – Set to True to provide additional debug information about the simulation.</p></li>
-<li><p><strong>show_labels</strong> (<em>str</em>) – Use names of species as index of result object rather than position numbers.</p></li>
-</ul>
-</dd>
-</dl>
-</dd></dl>
-
-<dl class="py method">
-<dt class="sig sig-object py" id="gillespy2.solvers.stochkit.StochKitODESolver.run">
-<em class="property"><span class="pre">classmethod</span><span class="w"> </span></em><span class="sig-name descname"><span class="pre">run</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">model</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">t</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">20</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">number_of_trajectories</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">1</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">increment</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">0.05</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">seed</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">None</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">stochkit_home</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">None</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">algorithm</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">'stochkit_ode.py'</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">job_id</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">None</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">debug</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">False</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">profile</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">False</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">show_labels</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">False</span></span></em>, <em class="sig-param"><span class="o"><span class="pre">**</span></span><span class="n"><span class="pre">kwargs</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="../_modules/gillespy2/solvers/stochkit/stochkit_solvers.html#StochKitODESolver.run"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#gillespy2.solvers.stochkit.StochKitODESolver.run" title="Permalink to this definition">¶</a></dt>
-<dd><p>Call out and run the solver. Collect the results.</p>
-</dd></dl>
-
-</dd></dl>
-
-<dl class="py class">
-<dt class="sig sig-object py" id="gillespy2.solvers.stochkit.StochKitSolver">
-<em class="property"><span class="pre">class</span><span class="w"> </span></em><span class="sig-prename descclassname"><span class="pre">gillespy2.solvers.stochkit.</span></span><span class="sig-name descname"><span class="pre">StochKitSolver</span></span><a class="reference internal" href="../_modules/gillespy2/solvers/stochkit/stochkit_solvers.html#StochKitSolver"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#gillespy2.solvers.stochkit.StochKitSolver" title="Permalink to this definition">¶</a></dt>
-<dd><p>Bases: <a class="reference internal" href="#gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver" title="gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver"><code class="xref py py-class docutils literal notranslate"><span class="pre">StochKitBaseSolver</span></code></a></p>
-<dl class="py method">
-<dt class="sig sig-object py" id="gillespy2.solvers.stochkit.StochKitSolver.get_trajectories">
-<em class="property"><span class="pre">classmethod</span><span class="w"> </span></em><span class="sig-name descname"><span class="pre">get_trajectories</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">out_dir</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">debug</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">False</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">show_labels</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">False</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="../_modules/gillespy2/solvers/stochkit/stochkit_solvers.html#StochKitSolver.get_trajectories"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#gillespy2.solvers.stochkit.StochKitSolver.get_trajectories" title="Permalink to this definition">¶</a></dt>
-<dd></dd></dl>
-
-<dl class="py attribute">
-<dt class="sig sig-object py" id="gillespy2.solvers.stochkit.StochKitSolver.name">
-<span class="sig-name descname"><span class="pre">name</span></span><em class="property"><span class="w"> </span><span class="p"><span class="pre">=</span></span><span class="w"> </span><span class="pre">'StochKitSolver'</span></em><a class="headerlink" href="#gillespy2.solvers.stochkit.StochKitSolver.name" title="Permalink to this definition">¶</a></dt>
-<dd><p>Abstract class for StochKit solver derived from the GillesPySolver class.
-This is generally used to set up the solver.</p>
-<dl class="field-list simple">
-<dt class="field-odd">Parameters<span class="colon">:</span></dt>
-<dd class="field-odd"><ul class="simple">
-<li><p><strong>model</strong> (<em>GillesPy2.model</em>) – The model on which the solver will operate</p></li>
-<li><p><strong>t</strong> (<em>float</em>) – The end time of the solver</p></li>
-<li><p><strong>number_of_trajectories</strong> – The number of times to sample the chemical master equation. Each</p></li>
-</ul>
-</dd>
-</dl>
-<p>trajectory will be returned at the end of the simulation.
-:type number_of_trajectories: int</p>
-<dl class="field-list simple">
-<dt class="field-odd">Parameters<span class="colon">:</span></dt>
-<dd class="field-odd"><ul class="simple">
-<li><p><strong>increment</strong> (<em>float</em>) – The time step of the solution</p></li>
-<li><p><strong>seed</strong> (<em>int</em>) – The random seed for the simulation. Defaults to None.</p></li>
-<li><p><strong>stochkit_home</strong> – Path to stochkit. This is set automatically upon installation, but</p></li>
-</ul>
-</dd>
-</dl>
-<p>may be overwritten if desired.
-:type stochkit_home: str</p>
-<dl class="field-list simple">
-<dt class="field-odd">Parameters<span class="colon">:</span></dt>
-<dd class="field-odd"><p><strong>algorithm</strong> – The solver by which to simulate the model. ‘ssa’ or ‘tau_leaping’</p>
-</dd>
-</dl>
-<p>are the available options. If ‘ssa’ is chosen, StochKit will choose
-from the available ssa options.
-:type algorithm: str</p>
-<dl class="field-list simple">
-<dt class="field-odd">Parameters<span class="colon">:</span></dt>
-<dd class="field-odd"><ul class="simple">
-<li><p><strong>job_id</strong> (<em>str</em>) – If given, this will be the name of the solver run. Usually not set.</p></li>
-<li><p><strong>extra_args</strong> – Any extra arguments for the stochkit solver. See StochKit2</p></li>
-</ul>
-</dd>
-</dl>
-<p>documentation for details.
-:type extra_args: str</p>
-<dl class="field-list simple">
-<dt class="field-odd">Parameters<span class="colon">:</span></dt>
-<dd class="field-odd"><ul class="simple">
-<li><p><strong>debug</strong> (<em>bool</em>) – Set to True to provide additional debug information about the simulation.</p></li>
-<li><p><strong>show_labels</strong> (<em>str</em>) – Use names of species as index of result object rather than position numbers.</p></li>
-</ul>
-</dd>
-</dl>
-</dd></dl>
-
-<dl class="py method">
-<dt class="sig sig-object py" id="gillespy2.solvers.stochkit.StochKitSolver.run">
-<em class="property"><span class="pre">classmethod</span><span class="w"> </span></em><span class="sig-name descname"><span class="pre">run</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">model</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">t</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">20</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">number_of_trajectories</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">1</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">increment</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">0.05</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">seed</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">None</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">stochkit_home</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">None</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">algorithm</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">'ssa'</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">job_id</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">None</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">method</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">None</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">debug</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">False</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">show_labels</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">False</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">profile</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">False</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">processes</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">1</span></span></em>, <em class="sig-param"><span class="o"><span class="pre">**</span></span><span class="n"><span class="pre">kwargs</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="../_modules/gillespy2/solvers/stochkit/stochkit_solvers.html#StochKitSolver.run"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#gillespy2.solvers.stochkit.StochKitSolver.run" title="Permalink to this definition">¶</a></dt>
-<dd><p>Call out and run the solver. Collect the results.</p>
-</dd></dl>
-
-</dd></dl>
-
+<section id="module-contents">
+<h2>Module contents<a class="headerlink" href="#module-contents" title="Permalink to this heading">¶</a></h2>
 </section>
 </section>
 
@@ -513,14 +119,6 @@ <h2>Submodules<a class="headerlink" href="#submodules" title="Permalink to this
                 &nbsp;
   <nav id="rellinks">
     <ul>
-        <li>
-          &larr;
-          <a href="gillespy2.solvers.numpy.html" title="Previous document">gillespy2.solvers.numpy package</a>
-        </li>
-        <li>
-          <a href="gillespy2.solvers.utilities.html" title="Next document">gillespy2.solvers.utilities package</a>
-          &rarr;
-        </li>
     </ul>
   </nav>
               </div>
@@ -530,7 +128,7 @@ <h2>Submodules<a class="headerlink" href="#submodules" title="Permalink to this
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/classes/gillespy2.solvers.utilities.html b/docs/build/html/classes/gillespy2.solvers.utilities.html
index 1e19b7575..895ae6434 100644
--- a/docs/build/html/classes/gillespy2.solvers.utilities.html
+++ b/docs/build/html/classes/gillespy2.solvers.utilities.html
@@ -6,7 +6,7 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="generator" content="Docutils 0.19: https://docutils.sourceforge.io/" />
 
-    <title>gillespy2.solvers.utilities package &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.solvers.utilities package &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../_static/css/gillespy2_alabaster_customizations.css" />
@@ -19,7 +19,7 @@
     <link rel="index" title="Index" href="../genindex.html" />
     <link rel="search" title="Search" href="../search.html" />
     <link rel="next" title="gillespy2.stochss package" href="gillespy2.stochss.html" />
-    <link rel="prev" title="gillespy2.solvers.stochkit package" href="gillespy2.solvers.stochkit.html" />
+    <link rel="prev" title="gillespy2.solvers.numpy package" href="gillespy2.solvers.numpy.html" />
    
   <link rel="stylesheet" href="../_static/custom.css" type="text/css" />
   
@@ -85,7 +85,7 @@ <h3>Related Topics</h3>
   <li><a href="../index.html">Documentation overview</a><ul>
   <li><a href="gillespy2.html">gillespy2 package</a><ul>
   <li><a href="gillespy2.solvers.html">gillespy2.solvers package</a><ul>
-      <li>Previous: <a href="gillespy2.solvers.stochkit.html" title="previous chapter">gillespy2.solvers.stochkit package</a></li>
+      <li>Previous: <a href="gillespy2.solvers.numpy.html" title="previous chapter">gillespy2.solvers.numpy package</a></li>
       <li>Next: <a href="gillespy2.stochss.html" title="next chapter">gillespy2.stochss package</a></li>
   </ul></li>
   </ul></li>
@@ -246,7 +246,7 @@ <h2>Submodules<a class="headerlink" href="#submodules" title="Permalink to this
     <ul>
         <li>
           &larr;
-          <a href="gillespy2.solvers.stochkit.html" title="Previous document">gillespy2.solvers.stochkit package</a>
+          <a href="gillespy2.solvers.numpy.html" title="Previous document">gillespy2.solvers.numpy package</a>
         </li>
         <li>
           <a href="gillespy2.stochss.html" title="Next document">gillespy2.stochss package</a>
@@ -261,7 +261,7 @@ <h2>Submodules<a class="headerlink" href="#submodules" title="Permalink to this
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/classes/gillespy2.stochss.html b/docs/build/html/classes/gillespy2.stochss.html
index e3f3920f0..b84ca9016 100644
--- a/docs/build/html/classes/gillespy2.stochss.html
+++ b/docs/build/html/classes/gillespy2.stochss.html
@@ -6,7 +6,7 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="generator" content="Docutils 0.19: https://docutils.sourceforge.io/" />
 
-    <title>gillespy2.stochss package &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>gillespy2.stochss package &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../_static/css/gillespy2_alabaster_customizations.css" />
@@ -160,7 +160,7 @@ <h2>Submodules<a class="headerlink" href="#submodules" title="Permalink to this
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/genindex.html b/docs/build/html/genindex.html
index ee9d21e00..82430ab09 100644
--- a/docs/build/html/genindex.html
+++ b/docs/build/html/genindex.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>Index &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>Index &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="_static/css/gillespy2_alabaster_customizations.css" />
@@ -860,22 +860,12 @@ <h2 id="G">G</h2>
         <li><a href="classes/gillespy2.solvers.html#gillespy2.solvers.ODECSolver.get_supported_integrator_options">(gillespy2.solvers.ODECSolver static method)</a>
 </li>
         <li><a href="classes/gillespy2.solvers.html#gillespy2.solvers.TauHybridCSolver.get_supported_integrator_options">(gillespy2.solvers.TauHybridCSolver class method)</a>
-</li>
-      </ul></li>
-      <li><a href="classes/gillespy2.solvers.cpp.build.html#gillespy2.solvers.cpp.build.template_gen.SanitizedModel.get_template">get_template() (gillespy2.solvers.cpp.build.template_gen.SanitizedModel method)</a>
-</li>
-      <li><a href="classes/gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.stochkit_solvers.StochKitODESolver.get_trajectories">get_trajectories() (gillespy2.solvers.stochkit.stochkit_solvers.StochKitODESolver class method)</a>
-
-      <ul>
-        <li><a href="classes/gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.stochkit_solvers.StochKitSolver.get_trajectories">(gillespy2.solvers.stochkit.stochkit_solvers.StochKitSolver class method)</a>
-</li>
-        <li><a href="classes/gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.StochKitODESolver.get_trajectories">(gillespy2.solvers.stochkit.StochKitODESolver class method)</a>
-</li>
-        <li><a href="classes/gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.StochKitSolver.get_trajectories">(gillespy2.solvers.stochkit.StochKitSolver class method)</a>
 </li>
       </ul></li>
   </ul></td>
   <td style="width: 33%; vertical-align: top;"><ul>
+      <li><a href="classes/gillespy2.solvers.cpp.build.html#gillespy2.solvers.cpp.build.template_gen.SanitizedModel.get_template">get_template() (gillespy2.solvers.cpp.build.template_gen.SanitizedModel method)</a>
+</li>
       <li><a href="classes/gillespy2.core.html#gillespy2.core.Jsonify.get_translation_table">get_translation_table() (gillespy2.core.Jsonify method)</a>
 
       <ul>
@@ -1150,20 +1140,6 @@ <h2 id="G">G</h2>
 
       <ul>
         <li><a href="classes/gillespy2.solvers.numpy.html#module-gillespy2.solvers.numpy.tau_leaping_solver">module</a>
-</li>
-      </ul></li>
-      <li>
-    gillespy2.solvers.stochkit
-
-      <ul>
-        <li><a href="classes/gillespy2.solvers.stochkit.html#module-gillespy2.solvers.stochkit">module</a>
-</li>
-      </ul></li>
-      <li>
-    gillespy2.solvers.stochkit.stochkit_solvers
-
-      <ul>
-        <li><a href="classes/gillespy2.solvers.stochkit.html#module-gillespy2.solvers.stochkit.stochkit_solvers">module</a>
 </li>
       </ul></li>
       <li>
@@ -1298,8 +1274,6 @@ <h2 id="K">K</h2>
 <h2 id="L">L</h2>
 <table style="width: 100%" class="indextable genindextable"><tr>
   <td style="width: 33%; vertical-align: top;"><ul>
-      <li><a href="classes/gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver.label_trajectories">label_trajectories() (gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver static method)</a>
-</li>
       <li><a href="classes/gillespy2.core.html#gillespy2.core.TimeSpan.linspace">linspace() (gillespy2.core.TimeSpan class method)</a>
 
       <ul>
@@ -1310,8 +1284,6 @@ <h2 id="L">L</h2>
 </li>
   </ul></td>
   <td style="width: 33%; vertical-align: top;"><ul>
-      <li><a href="classes/gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver.locate_executable">locate_executable() (gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver static method)</a>
-</li>
       <li><a href="classes/gillespy2.solvers.cpp.html#gillespy2.solvers.cpp.tau_hybrid_c_solver.TauHybridCSolver.ErrorStatus.LOOP_OVER_INTEGRATE">LOOP_OVER_INTEGRATE (gillespy2.solvers.cpp.tau_hybrid_c_solver.TauHybridCSolver.ErrorStatus attribute)</a>
 
       <ul>
@@ -1435,10 +1407,6 @@ <h2 id="M">M</h2>
         <li><a href="classes/gillespy2.solvers.numpy.html#module-gillespy2.solvers.numpy.tau_hybrid_solver">gillespy2.solvers.numpy.tau_hybrid_solver</a>
 </li>
         <li><a href="classes/gillespy2.solvers.numpy.html#module-gillespy2.solvers.numpy.tau_leaping_solver">gillespy2.solvers.numpy.tau_leaping_solver</a>
-</li>
-        <li><a href="classes/gillespy2.solvers.stochkit.html#module-gillespy2.solvers.stochkit">gillespy2.solvers.stochkit</a>
-</li>
-        <li><a href="classes/gillespy2.solvers.stochkit.html#module-gillespy2.solvers.stochkit.stochkit_solvers">gillespy2.solvers.stochkit.stochkit_solvers</a>
 </li>
         <li><a href="classes/gillespy2.solvers.utilities.html#module-gillespy2.solvers.utilities">gillespy2.solvers.utilities</a>
 </li>
@@ -1513,16 +1481,6 @@ <h2 id="N">N</h2>
         <li><a href="classes/gillespy2.solvers.html#gillespy2.solvers.ODESolver.name">(gillespy2.solvers.ODESolver attribute)</a>
 </li>
         <li><a href="classes/gillespy2.solvers.html#gillespy2.solvers.SSACSolver.name">(gillespy2.solvers.SSACSolver attribute)</a>
-</li>
-        <li><a href="classes/gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver.name">(gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver attribute)</a>
-</li>
-        <li><a href="classes/gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.stochkit_solvers.StochKitODESolver.name">(gillespy2.solvers.stochkit.stochkit_solvers.StochKitODESolver attribute)</a>
-</li>
-        <li><a href="classes/gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.stochkit_solvers.StochKitSolver.name">(gillespy2.solvers.stochkit.stochkit_solvers.StochKitSolver attribute)</a>
-</li>
-        <li><a href="classes/gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.StochKitODESolver.name">(gillespy2.solvers.stochkit.StochKitODESolver attribute)</a>
-</li>
-        <li><a href="classes/gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.StochKitSolver.name">(gillespy2.solvers.stochkit.StochKitSolver attribute)</a>
 </li>
         <li><a href="classes/gillespy2.solvers.html#gillespy2.solvers.TauHybridCSolver.name">(gillespy2.solvers.TauHybridCSolver attribute)</a>
 </li>
@@ -1731,8 +1689,6 @@ <h2 id="P">P</h2>
         <li><a href="classes/gillespy2.core.html#gillespy2.core.model.Model.problem_with_name">(gillespy2.core.model.Model method)</a>
 </li>
       </ul></li>
-      <li><a href="classes/gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver.process_seed">process_seed() (gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver static method)</a>
-</li>
       <li><a href="classes/gillespy2.core.html#gillespy2.core.Jsonify.public_vars">public_vars() (gillespy2.core.Jsonify method)</a>
 
       <ul>
@@ -1783,8 +1739,6 @@ <h2 id="R">R</h2>
         <li><a href="classes/gillespy2.solvers.html#gillespy2.solvers.NumPySSASolver.rc">(gillespy2.solvers.NumPySSASolver attribute)</a>
 </li>
         <li><a href="classes/gillespy2.solvers.html#gillespy2.solvers.ODESolver.rc">(gillespy2.solvers.ODESolver attribute)</a>
-</li>
-        <li><a href="classes/gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver.rc">(gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver attribute)</a>
 </li>
         <li><a href="classes/gillespy2.solvers.html#gillespy2.solvers.TauHybridSolver.rc">(gillespy2.solvers.TauHybridSolver attribute)</a>
 </li>
@@ -1931,16 +1885,6 @@ <h2 id="R">R</h2>
         <li><a href="classes/gillespy2.solvers.html#gillespy2.solvers.ODESolver.run">(gillespy2.solvers.ODESolver method)</a>
 </li>
         <li><a href="classes/gillespy2.solvers.html#gillespy2.solvers.SSACSolver.run">(gillespy2.solvers.SSACSolver method)</a>
-</li>
-        <li><a href="classes/gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver.run">(gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver class method)</a>
-</li>
-        <li><a href="classes/gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.stochkit_solvers.StochKitODESolver.run">(gillespy2.solvers.stochkit.stochkit_solvers.StochKitODESolver class method)</a>
-</li>
-        <li><a href="classes/gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.stochkit_solvers.StochKitSolver.run">(gillespy2.solvers.stochkit.stochkit_solvers.StochKitSolver class method)</a>
-</li>
-        <li><a href="classes/gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.StochKitODESolver.run">(gillespy2.solvers.stochkit.StochKitODESolver class method)</a>
-</li>
-        <li><a href="classes/gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.StochKitSolver.run">(gillespy2.solvers.stochkit.StochKitSolver class method)</a>
 </li>
         <li><a href="classes/gillespy2.solvers.html#gillespy2.solvers.TauHybridCSolver.run">(gillespy2.solvers.TauHybridCSolver method)</a>
 </li>
@@ -2061,12 +2005,12 @@ <h2 id="S">S</h2>
         <li><a href="classes/gillespy2.core.html#gillespy2.core.reaction.Reaction.setType">(gillespy2.core.reaction.Reaction method)</a>
 </li>
       </ul></li>
+  </ul></td>
+  <td style="width: 33%; vertical-align: top;"><ul>
       <li><a href="classes/gillespy2.solvers.cpp.html#gillespy2.solvers.cpp.c_decoder.SimDecoder">SimDecoder (class in gillespy2.solvers.cpp.c_decoder)</a>
 </li>
       <li><a href="classes/gillespy2.core.html#gillespy2.core.SimulationError">SimulationError</a>, <a href="classes/gillespy2.core.html#gillespy2.core.gillespyError.SimulationError">[1]</a>
 </li>
-  </ul></td>
-  <td style="width: 33%; vertical-align: top;"><ul>
       <li><a href="classes/gillespy2.solvers.cpp.html#gillespy2.solvers.cpp.c_solver.SimulationReturnCode">SimulationReturnCode (class in gillespy2.solvers.cpp.c_solver)</a>
 </li>
       <li><a href="classes/gillespy2.core.html#gillespy2.core.SimulationTimeoutError">SimulationTimeoutError</a>, <a href="classes/gillespy2.core.html#gillespy2.core.gillespyError.SimulationTimeoutError">[1]</a>
@@ -2109,20 +2053,6 @@ <h2 id="S">S</h2>
 
       <ul>
         <li><a href="classes/gillespy2.core.html#gillespy2.core.results.Results.stddev_ensemble">(gillespy2.core.results.Results method)</a>
-</li>
-      </ul></li>
-      <li><a href="classes/gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.stochkit_solvers.StochKitBaseSolver">StochKitBaseSolver (class in gillespy2.solvers.stochkit.stochkit_solvers)</a>
-</li>
-      <li><a href="classes/gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.StochKitODESolver">StochKitODESolver (class in gillespy2.solvers.stochkit)</a>
-
-      <ul>
-        <li><a href="classes/gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.stochkit_solvers.StochKitODESolver">(class in gillespy2.solvers.stochkit.stochkit_solvers)</a>
-</li>
-      </ul></li>
-      <li><a href="classes/gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.StochKitSolver">StochKitSolver (class in gillespy2.solvers.stochkit)</a>
-
-      <ul>
-        <li><a href="classes/gillespy2.solvers.stochkit.html#gillespy2.solvers.stochkit.stochkit_solvers.StochKitSolver">(class in gillespy2.solvers.stochkit.stochkit_solvers)</a>
 </li>
       </ul></li>
       <li><a href="classes/gillespy2.core.html#gillespy2.core.StochMLDocument">StochMLDocument (class in gillespy2.core)</a>
@@ -2598,7 +2528,7 @@ <h2 id="W">W</h2>
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/getting_started/basic_usage/basic_usage.html b/docs/build/html/getting_started/basic_usage/basic_usage.html
index c877b8365..2db2c7ecd 100644
--- a/docs/build/html/getting_started/basic_usage/basic_usage.html
+++ b/docs/build/html/getting_started/basic_usage/basic_usage.html
@@ -6,7 +6,7 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="generator" content="Docutils 0.19: https://docutils.sourceforge.io/" />
 
-    <title>Basic usage &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>Basic usage &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../../_static/css/gillespy2_alabaster_customizations.css" />
@@ -257,7 +257,7 @@ <h2>Example of selecting a different solver<a class="headerlink" href="#example-
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/getting_started/installation/installation.html b/docs/build/html/getting_started/installation/installation.html
index fc471dbcf..381d4b33a 100644
--- a/docs/build/html/getting_started/installation/installation.html
+++ b/docs/build/html/getting_started/installation/installation.html
@@ -6,7 +6,7 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="generator" content="Docutils 0.19: https://docutils.sourceforge.io/" />
 
-    <title>Installation &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>Installation &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../../_static/css/gillespy2_alabaster_customizations.css" />
@@ -19,7 +19,7 @@
     <link rel="index" title="Index" href="../../genindex.html" />
     <link rel="search" title="Search" href="../../search.html" />
     <link rel="next" title="Basic usage" href="../basic_usage/basic_usage.html" />
-    <link rel="prev" title="Documentation for GillesPy2 1.8.0" href="../../index.html" />
+    <link rel="prev" title="Documentation for GillesPy2 1.8.1" href="../../index.html" />
    
   <link rel="stylesheet" href="../../_static/custom.css" type="text/css" />
   
@@ -73,7 +73,7 @@ <h3>Navigation</h3>
 <h3>Related Topics</h3>
 <ul>
   <li><a href="../../index.html">Documentation overview</a><ul>
-      <li>Previous: <a href="../../index.html" title="previous chapter">Documentation for GillesPy2 1.8.0</a></li>
+      <li>Previous: <a href="../../index.html" title="previous chapter">Documentation for GillesPy2 1.8.1</a></li>
       <li>Next: <a href="../basic_usage/basic_usage.html" title="next chapter">Basic usage</a></li>
   </ul></li>
 </ul>
@@ -137,7 +137,7 @@ <h2>Alternative methods: using the code repository<a class="headerlink" href="#a
     <ul>
         <li>
           &larr;
-          <a href="../../index.html" title="Previous document">Documentation for GillesPy2 1.8.0</a>
+          <a href="../../index.html" title="Previous document">Documentation for GillesPy2 1.8.1</a>
         </li>
         <li>
           <a href="../basic_usage/basic_usage.html" title="Next document">Basic usage</a>
@@ -152,7 +152,7 @@ <h2>Alternative methods: using the code repository<a class="headerlink" href="#a
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/index.html b/docs/build/html/index.html
index 2e8461a47..325e8f038 100644
--- a/docs/build/html/index.html
+++ b/docs/build/html/index.html
@@ -6,7 +6,7 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="generator" content="Docutils 0.19: https://docutils.sourceforge.io/" />
 
-    <title>Documentation for GillesPy2 1.8.0 &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>Documentation for GillesPy2 1.8.1 &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="_static/css/gillespy2_alabaster_customizations.css" />
@@ -103,7 +103,7 @@ <h3 id="searchlabel">Quick search</h3>
           <div class="body" role="main">
             
   <section id="documentation-for-gillespy2-release">
-<h1>Documentation for GillesPy2 1.8.0<a class="headerlink" href="#documentation-for-gillespy2-release" title="Permalink to this heading">¶</a></h1>
+<h1>Documentation for GillesPy2 1.8.1<a class="headerlink" href="#documentation-for-gillespy2-release" title="Permalink to this heading">¶</a></h1>
 <p>GillesPy2 is an open-source Python package for stochastic simulation of biochemical systems.  It offers an object-oriented approach for creating mathematical models of biological systems, as well as a variety of methods for performing time simulation of those models.  The methods include the <a class="reference external" href="https://en.wikipedia.org/wiki/Gillespie_algorithm">Gillespie direct method (SSA)</a>, several variant stochastic simulation methods including <a class="reference external" href="https://en.wikipedia.org/wiki/Tau-leaping">tau leaping</a>, and numerical integration of ODEs.  The solvers support a variety of user environments, with optimized code for C++, <a class="reference external" href="https://cython.org">Cython</a>, and <a class="reference external" href="https://numpy.org">NumPy</a>.  Models can also be read from files in <a class="reference external" href="https://en.wikipedia.org/wiki/SBML">SBML</a> format.</p>
 <section id="getting-a-copy-of-gillespy2">
 <h2>Getting a copy of GillesPy2<a class="headerlink" href="#getting-a-copy-of-gillespy2" title="Permalink to this heading">¶</a></h2>
@@ -174,7 +174,7 @@ <h2>Indices and tables<a class="headerlink" href="#indices-and-tables" title="Pe
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/objects.inv b/docs/build/html/objects.inv
index 943bc34e9..e1f453ee3 100644
Binary files a/docs/build/html/objects.inv and b/docs/build/html/objects.inv differ
diff --git a/docs/build/html/py-modindex.html b/docs/build/html/py-modindex.html
index ca7c9fcdc..2a087ec1a 100644
--- a/docs/build/html/py-modindex.html
+++ b/docs/build/html/py-modindex.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>Python Module Index &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>Python Module Index &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="_static/css/gillespy2_alabaster_customizations.css" />
@@ -304,16 +304,6 @@ <h1>Python Module Index</h1>
        <td>&#160;&#160;&#160;
        <a href="classes/gillespy2.solvers.numpy.html#module-gillespy2.solvers.numpy.tau_leaping_solver"><code class="xref">gillespy2.solvers.numpy.tau_leaping_solver</code></a></td><td>
        <em></em></td></tr>
-     <tr class="cg-1">
-       <td></td>
-       <td>&#160;&#160;&#160;
-       <a href="classes/gillespy2.solvers.stochkit.html#module-gillespy2.solvers.stochkit"><code class="xref">gillespy2.solvers.stochkit</code></a></td><td>
-       <em></em></td></tr>
-     <tr class="cg-1">
-       <td></td>
-       <td>&#160;&#160;&#160;
-       <a href="classes/gillespy2.solvers.stochkit.html#module-gillespy2.solvers.stochkit.stochkit_solvers"><code class="xref">gillespy2.solvers.stochkit.stochkit_solvers</code></a></td><td>
-       <em></em></td></tr>
      <tr class="cg-1">
        <td></td>
        <td>&#160;&#160;&#160;
@@ -361,7 +351,7 @@ <h1>Python Module Index</h1>
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/search.html b/docs/build/html/search.html
index 3acedc9d1..e076b1a4a 100644
--- a/docs/build/html/search.html
+++ b/docs/build/html/search.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>Search &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>Search &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="_static/css/gillespy2_alabaster_customizations.css" />
@@ -140,7 +140,7 @@ <h1 id="search-documentation">Search</h1>
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/searchindex.js b/docs/build/html/searchindex.js
index 9933af129..f36560790 100644
--- a/docs/build/html/searchindex.js
+++ b/docs/build/html/searchindex.js
@@ -1 +1 @@
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"gillespy2.solvers.numpy.tau_leaping_solver.TauLeapingSolver.pause_event"]], "rc (gillespy2.solvers.numpy.clesolver attribute)": [[8, "gillespy2.solvers.numpy.CLESolver.rc"]], "rc (gillespy2.solvers.numpy.cle_solver.clesolver attribute)": [[8, "gillespy2.solvers.numpy.CLE_solver.CLESolver.rc"]], "rc (gillespy2.solvers.numpy.numpyssasolver attribute)": [[8, "gillespy2.solvers.numpy.NumPySSASolver.rc"]], "rc (gillespy2.solvers.numpy.odesolver attribute)": [[8, "gillespy2.solvers.numpy.ODESolver.rc"]], "rc (gillespy2.solvers.numpy.tauhybridsolver attribute)": [[8, "gillespy2.solvers.numpy.TauHybridSolver.rc"]], "rc (gillespy2.solvers.numpy.tauleapingsolver attribute)": [[8, "gillespy2.solvers.numpy.TauLeapingSolver.rc"]], "rc (gillespy2.solvers.numpy.ode_solver.odesolver attribute)": [[8, "gillespy2.solvers.numpy.ode_solver.ODESolver.rc"]], "rc (gillespy2.solvers.numpy.ssa_solver.numpyssasolver attribute)": [[8, "gillespy2.solvers.numpy.ssa_solver.NumPySSASolver.rc"]], "rc (gillespy2.solvers.numpy.tau_hybrid_solver.tauhybridsolver attribute)": [[8, "gillespy2.solvers.numpy.tau_hybrid_solver.TauHybridSolver.rc"]], "rc (gillespy2.solvers.numpy.tau_leaping_solver.tauleapingsolver attribute)": [[8, "gillespy2.solvers.numpy.tau_leaping_solver.TauLeapingSolver.rc"]], "result (gillespy2.solvers.numpy.clesolver attribute)": [[8, "gillespy2.solvers.numpy.CLESolver.result"]], "result (gillespy2.solvers.numpy.cle_solver.clesolver attribute)": [[8, "gillespy2.solvers.numpy.CLE_solver.CLESolver.result"]], "result (gillespy2.solvers.numpy.numpyssasolver attribute)": [[8, "gillespy2.solvers.numpy.NumPySSASolver.result"]], "result (gillespy2.solvers.numpy.odesolver attribute)": [[8, "gillespy2.solvers.numpy.ODESolver.result"]], "result (gillespy2.solvers.numpy.tauhybridsolver attribute)": [[8, "gillespy2.solvers.numpy.TauHybridSolver.result"]], "result (gillespy2.solvers.numpy.tauleapingsolver attribute)": [[8, "gillespy2.solvers.numpy.TauLeapingSolver.result"]], "result (gillespy2.solvers.numpy.ode_solver.odesolver attribute)": [[8, "gillespy2.solvers.numpy.ode_solver.ODESolver.result"]], "result (gillespy2.solvers.numpy.ssa_solver.numpyssasolver attribute)": [[8, "gillespy2.solvers.numpy.ssa_solver.NumPySSASolver.result"]], "result (gillespy2.solvers.numpy.tau_hybrid_solver.tauhybridsolver attribute)": [[8, "gillespy2.solvers.numpy.tau_hybrid_solver.TauHybridSolver.result"]], "result (gillespy2.solvers.numpy.tau_leaping_solver.tauleapingsolver attribute)": [[8, "gillespy2.solvers.numpy.tau_leaping_solver.TauLeapingSolver.result"]], "run() (gillespy2.solvers.numpy.clesolver method)": [[8, "gillespy2.solvers.numpy.CLESolver.run"]], "run() (gillespy2.solvers.numpy.cle_solver.clesolver method)": [[8, "gillespy2.solvers.numpy.CLE_solver.CLESolver.run"]], "run() (gillespy2.solvers.numpy.numpyssasolver method)": [[8, "gillespy2.solvers.numpy.NumPySSASolver.run"]], "run() (gillespy2.solvers.numpy.odesolver method)": [[8, "gillespy2.solvers.numpy.ODESolver.run"]], "run() (gillespy2.solvers.numpy.tauhybridsolver method)": [[8, "gillespy2.solvers.numpy.TauHybridSolver.run"]], "run() (gillespy2.solvers.numpy.tauleapingsolver method)": [[8, "gillespy2.solvers.numpy.TauLeapingSolver.run"]], "run() (gillespy2.solvers.numpy.ode_solver.odesolver method)": [[8, "gillespy2.solvers.numpy.ode_solver.ODESolver.run"]], "run() (gillespy2.solvers.numpy.ssa_solver.numpyssasolver method)": [[8, "gillespy2.solvers.numpy.ssa_solver.NumPySSASolver.run"]], "run() (gillespy2.solvers.numpy.tau_hybrid_solver.tauhybridsolver method)": [[8, "gillespy2.solvers.numpy.tau_hybrid_solver.TauHybridSolver.run"]], "run() (gillespy2.solvers.numpy.tau_leaping_solver.tauleapingsolver method)": [[8, "gillespy2.solvers.numpy.tau_leaping_solver.TauLeapingSolver.run"]], "stop_event (gillespy2.solvers.numpy.clesolver attribute)": [[8, "gillespy2.solvers.numpy.CLESolver.stop_event"]], "stop_event (gillespy2.solvers.numpy.cle_solver.clesolver attribute)": [[8, "gillespy2.solvers.numpy.CLE_solver.CLESolver.stop_event"]], "stop_event (gillespy2.solvers.numpy.numpyssasolver attribute)": [[8, "gillespy2.solvers.numpy.NumPySSASolver.stop_event"]], "stop_event (gillespy2.solvers.numpy.odesolver attribute)": [[8, "gillespy2.solvers.numpy.ODESolver.stop_event"]], "stop_event (gillespy2.solvers.numpy.tauhybridsolver attribute)": [[8, "gillespy2.solvers.numpy.TauHybridSolver.stop_event"]], "stop_event (gillespy2.solvers.numpy.tauleapingsolver attribute)": [[8, "gillespy2.solvers.numpy.TauLeapingSolver.stop_event"]], "stop_event (gillespy2.solvers.numpy.ode_solver.odesolver attribute)": [[8, "gillespy2.solvers.numpy.ode_solver.ODESolver.stop_event"]], "stop_event (gillespy2.solvers.numpy.ssa_solver.numpyssasolver attribute)": [[8, "gillespy2.solvers.numpy.ssa_solver.NumPySSASolver.stop_event"]], "stop_event (gillespy2.solvers.numpy.tau_hybrid_solver.tauhybridsolver attribute)": [[8, "gillespy2.solvers.numpy.tau_hybrid_solver.TauHybridSolver.stop_event"]], "stop_event (gillespy2.solvers.numpy.tau_leaping_solver.tauleapingsolver attribute)": [[8, "gillespy2.solvers.numpy.tau_leaping_solver.TauLeapingSolver.stop_event"]], "change_param_values() (in module gillespy2.solvers.utilities.solverutils)": [[10, "gillespy2.solvers.utilities.solverutils.change_param_values"]], "check_cpp_support() (in module gillespy2.solvers.utilities.cpp_support_test)": [[10, "gillespy2.solvers.utilities.cpp_support_test.check_cpp_support"]], "dependency_grapher() (in module gillespy2.solvers.utilities.solverutils)": [[10, "gillespy2.solvers.utilities.solverutils.dependency_grapher"]], "gillespy2.solvers.utilities": [[10, "module-gillespy2.solvers.utilities"]], "gillespy2.solvers.utilities.tau": [[10, "module-gillespy2.solvers.utilities.Tau"]], "gillespy2.solvers.utilities.cpp_support_test": [[10, "module-gillespy2.solvers.utilities.cpp_support_test"]], "gillespy2.solvers.utilities.solverutils": [[10, "module-gillespy2.solvers.utilities.solverutils"]], "initialize() (in module gillespy2.solvers.utilities.tau)": [[10, "gillespy2.solvers.utilities.Tau.initialize"]], "numpy_initialization() (in module gillespy2.solvers.utilities.solverutils)": [[10, "gillespy2.solvers.utilities.solverutils.numpy_initialization"]], "numpy_resume() (in module gillespy2.solvers.utilities.solverutils)": [[10, "gillespy2.solvers.utilities.solverutils.numpy_resume"]], "numpy_trajectory_base_initialization() (in module gillespy2.solvers.utilities.solverutils)": [[10, "gillespy2.solvers.utilities.solverutils.numpy_trajectory_base_initialization"]], "select() (in module gillespy2.solvers.utilities.tau)": [[10, "gillespy2.solvers.utilities.Tau.select"]], "species_parse() (in module gillespy2.solvers.utilities.solverutils)": [[10, "gillespy2.solvers.utilities.solverutils.species_parse"]], "update_species_init_values() (in module gillespy2.solvers.utilities.solverutils)": [[10, "gillespy2.solvers.utilities.solverutils.update_species_init_values"]], "export() (in module gillespy2.stochss.stochssexport)": [[11, "gillespy2.stochss.StochSSexport.export"]], "gillespy2.stochss": [[11, "module-gillespy2.stochss"]], "gillespy2.stochss.stochssexport": [[11, "module-gillespy2.stochss.StochSSexport"]]}})
\ No newline at end of file
diff --git a/docs/build/html/tutorials/tut_michaelis_menten/tut_michaelis_menten.html b/docs/build/html/tutorials/tut_michaelis_menten/tut_michaelis_menten.html
index 13e4805ad..23ad3bf34 100644
--- a/docs/build/html/tutorials/tut_michaelis_menten/tut_michaelis_menten.html
+++ b/docs/build/html/tutorials/tut_michaelis_menten/tut_michaelis_menten.html
@@ -6,7 +6,7 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="generator" content="Docutils 0.19: https://docutils.sourceforge.io/" />
 
-    <title>Tutorial: using solvers &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>Tutorial: using solvers &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../../_static/css/gillespy2_alabaster_customizations.css" />
@@ -120,7 +120,7 @@ <h1>Tutorial: using solvers<a class="headerlink" href="#tutorial-using-solvers"
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/tutorials/tut_sbml/tut_sbml.html b/docs/build/html/tutorials/tut_sbml/tut_sbml.html
index 9f54c2c5b..ed7b393c9 100644
--- a/docs/build/html/tutorials/tut_sbml/tut_sbml.html
+++ b/docs/build/html/tutorials/tut_sbml/tut_sbml.html
@@ -6,7 +6,7 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="generator" content="Docutils 0.19: https://docutils.sourceforge.io/" />
 
-    <title>Tutorial: using SBML &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>Tutorial: using SBML &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../../_static/css/gillespy2_alabaster_customizations.css" />
@@ -120,7 +120,7 @@ <h1>Tutorial: using SBML<a class="headerlink" href="#tutorial-using-sbml" title=
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/docs/build/html/tutorials/tut_toggle_switch/tut_toggle_switch.html b/docs/build/html/tutorials/tut_toggle_switch/tut_toggle_switch.html
index 0ca3ea7dd..bc1270d7d 100644
--- a/docs/build/html/tutorials/tut_toggle_switch/tut_toggle_switch.html
+++ b/docs/build/html/tutorials/tut_toggle_switch/tut_toggle_switch.html
@@ -6,7 +6,7 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="generator" content="Docutils 0.19: https://docutils.sourceforge.io/" />
 
-    <title>Tutorial: ODE vs. SSA &#8212; GillesPy2 1.8.0 documentation</title>
+    <title>Tutorial: ODE vs. SSA &#8212; GillesPy2 1.8.1 documentation</title>
     <link rel="stylesheet" type="text/css" href="../../_static/pygments.css" />
     <link rel="stylesheet" type="text/css" href="../../_static/alabaster.css" />
     <link rel="stylesheet" type="text/css" href="../../_static/css/gillespy2_alabaster_customizations.css" />
@@ -189,7 +189,7 @@ <h1>Tutorial: ODE vs. SSA<a class="headerlink" href="#tutorial-ode-vs-ssa" title
     <div class="clearer"></div>
   </div>
     <div class="footer">
-      &copy;Copyright (C) 2017-2022.
+      &copy;Copyright (C) 2017-2023.
       
       |
       Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
diff --git a/gillespy2/__init__.py b/gillespy2/__init__.py
index 49d0ad48f..0ebfafcfe 100644
--- a/gillespy2/__init__.py
+++ b/gillespy2/__init__.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/__version__.py b/gillespy2/__version__.py
index 6977ef915..cc8f6f68b 100644
--- a/gillespy2/__version__.py
+++ b/gillespy2/__version__.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
@@ -22,7 +22,7 @@
 # =============================================================================
 
 
-__version__      = '1.8.0'
+__version__      = '1.8.1'
 
 __title__        = 'GillesPy2'
 __description__  = 'Python interface for Gillespie-style biochemical simulations'
@@ -31,4 +31,4 @@
 __author__       = 'See AUTHORS'
 __email__        = 'bdrawert@unca.edu'
 __license__      = 'GPL'
-__copyright__    = 'Copyright (C) 2017-2022'
+__copyright__    = 'Copyright (C) 2017-2023'
diff --git a/gillespy2/core/__init__.py b/gillespy2/core/__init__.py
index 8182306ac..d635313f2 100644
--- a/gillespy2/core/__init__.py
+++ b/gillespy2/core/__init__.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/core/assignmentrule.py b/gillespy2/core/assignmentrule.py
index 281d9c01c..eb5373ccc 100644
--- a/gillespy2/core/assignmentrule.py
+++ b/gillespy2/core/assignmentrule.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/core/cleanup.py b/gillespy2/core/cleanup.py
index 012709747..0a21fd759 100644
--- a/gillespy2/core/cleanup.py
+++ b/gillespy2/core/cleanup.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/core/events.py b/gillespy2/core/events.py
index b3fcacb03..fc984a39d 100644
--- a/gillespy2/core/events.py
+++ b/gillespy2/core/events.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/core/functiondefinition.py b/gillespy2/core/functiondefinition.py
index 153cb13ff..a71510851 100644
--- a/gillespy2/core/functiondefinition.py
+++ b/gillespy2/core/functiondefinition.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/core/gillespyError.py b/gillespy2/core/gillespyError.py
index 91d04d3b3..26f055589 100644
--- a/gillespy2/core/gillespyError.py
+++ b/gillespy2/core/gillespyError.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/core/gillespySolver.py b/gillespy2/core/gillespySolver.py
index ab856bfb4..c6c0cdf32 100644
--- a/gillespy2/core/gillespySolver.py
+++ b/gillespy2/core/gillespySolver.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/core/jsonify.py b/gillespy2/core/jsonify.py
index b5a1a2021..ab5ffa09c 100644
--- a/gillespy2/core/jsonify.py
+++ b/gillespy2/core/jsonify.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/core/liveGraphing.py b/gillespy2/core/liveGraphing.py
index 1b6690bf4..c086b4796 100644
--- a/gillespy2/core/liveGraphing.py
+++ b/gillespy2/core/liveGraphing.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/core/model.py b/gillespy2/core/model.py
index 9a188809a..afc8646be 100644
--- a/gillespy2/core/model.py
+++ b/gillespy2/core/model.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
@@ -1051,7 +1051,7 @@ def get_all_function_definitions(self):
 
     def timespan(self, time_span):
         """
-        Set the time span of simulation. StochKit does not support non-uniform
+        Set the time span of simulation. GillesPy2 does not support non-uniform
         timespans.
 
         :param time_span: Evenly-spaced list of times at which to sample the species populations
@@ -1357,7 +1357,7 @@ def validate_reactants_and_products(self, reactions):
 
 class StochMLDocument():
     """ Serializiation and deserialization of a Model to/from
-        the native StochKit2 XML format. """
+        the native XML format. """
 
     def __init__(self):
         # The root element
@@ -1367,7 +1367,7 @@ def __init__(self):
     @classmethod
     def from_model(cls, model):
         """
-        Creates an StochKit XML document from an exisiting Model object.
+        Creates an XML document from an exisiting Model object.
         This method assumes that all the parameters in the model are already
         resolved to scalar floats (see Model.resolveParamters).
 
@@ -1442,7 +1442,7 @@ def from_model(cls, model):
 
     @classmethod
     def from_file(cls, filepath):
-        """ Intializes the document from an exisiting native StochKit XML
+        """ Intializes the document from an exisiting native XML
         file read from disk. """
         tree = eTree.parse(filepath)
         root = tree.getroot()
@@ -1452,7 +1452,7 @@ def from_file(cls, filepath):
 
     @classmethod
     def from_string(cls, string):
-        """ Intializes the document from an exisiting native StochKit XML
+        """ Intializes the document from an exisiting native XML
         file read from disk. """
         root = eTree.fromString(string)
 
@@ -1602,8 +1602,8 @@ def to_model(self, name):
                     try:
                         kwargs['rate'] = model.listOfParameters[ratename]
                     except KeyError:
-                        # No paramter name is given. This is a valid use case
-                        # in StochKit. We generate a name for the paramter,
+                        # No paramter name is given. This is a valid use case.
+                        # We generate a name for the paramter,
                         # and create a new parameter instance. The parameter's
                         # value should now be found in 'ratename'.
                         generated_rate_name = "Reaction_" + name + \
@@ -1688,7 +1688,7 @@ def __reaction_to_element(self, reaction, model_volume):
         description_element.text = self.annotation
         sml_reac.append(description_element)
 
-        # StochKit2 wants a rate for mass-action propensites
+        # Need a rate for mass-action propensites
         if reaction.massaction and model_volume == 1.0:
             rate_element = eTree.Element('Rate')
             # A mass-action reactions should only have one parameter
diff --git a/gillespy2/core/parameter.py b/gillespy2/core/parameter.py
index 15793caac..74a8a5839 100644
--- a/gillespy2/core/parameter.py
+++ b/gillespy2/core/parameter.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/core/raterule.py b/gillespy2/core/raterule.py
index 987d6be2c..61fbce8f9 100644
--- a/gillespy2/core/raterule.py
+++ b/gillespy2/core/raterule.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/core/reaction.py b/gillespy2/core/reaction.py
index 1666d0b32..e4d214742 100644
--- a/gillespy2/core/reaction.py
+++ b/gillespy2/core/reaction.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/core/results.py b/gillespy2/core/results.py
index bbfddb343..5f339ada4 100644
--- a/gillespy2/core/results.py
+++ b/gillespy2/core/results.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/core/sortableobject.py b/gillespy2/core/sortableobject.py
index a723ae58b..8b5002b57 100644
--- a/gillespy2/core/sortableobject.py
+++ b/gillespy2/core/sortableobject.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/core/species.py b/gillespy2/core/species.py
index 8ffbb97ae..e98af25f3 100644
--- a/gillespy2/core/species.py
+++ b/gillespy2/core/species.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/core/timespan.py b/gillespy2/core/timespan.py
index e1a4a3691..07b74c0a9 100644
--- a/gillespy2/core/timespan.py
+++ b/gillespy2/core/timespan.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
@@ -131,6 +131,6 @@ def validate(self):
         isuniform = np.isclose(other_diff, first_diff).all()
 
         if not isuniform:
-            raise TimespanError("StochKit only supports uniform timespans.")
+            raise TimespanError("GillesPy2 only supports uniform timespans.")
         if first_diff == 0 or np.count_nonzero(other_diff) != len(other_diff):
             raise TimespanError("Timespan can't contain a single repeating value.")
diff --git a/gillespy2/sbml/SBMLexport.py b/gillespy2/sbml/SBMLexport.py
index a254ea607..1f777e183 100644
--- a/gillespy2/sbml/SBMLexport.py
+++ b/gillespy2/sbml/SBMLexport.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/sbml/SBMLimport.py b/gillespy2/sbml/SBMLimport.py
index ac47d84cc..578956fd8 100644
--- a/gillespy2/sbml/SBMLimport.py
+++ b/gillespy2/sbml/SBMLimport.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/sbml/__init__.py b/gillespy2/sbml/__init__.py
index 2f43e0f4c..797e1168e 100644
--- a/gillespy2/sbml/__init__.py
+++ b/gillespy2/sbml/__init__.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/__init__.py b/gillespy2/solvers/__init__.py
index a0597d125..36cf85baf 100644
--- a/gillespy2/solvers/__init__.py
+++ b/gillespy2/solvers/__init__.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/__init__.py b/gillespy2/solvers/cpp/__init__.py
index d7fef515d..ce7eee6df 100644
--- a/gillespy2/solvers/cpp/__init__.py
+++ b/gillespy2/solvers/cpp/__init__.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/build/SConstruct b/gillespy2/solvers/cpp/build/SConstruct
index 31aa953d8..6f2b729fe 100644
--- a/gillespy2/solvers/cpp/build/SConstruct
+++ b/gillespy2/solvers/cpp/build/SConstruct
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/build/__init__.py b/gillespy2/solvers/cpp/build/__init__.py
index 2f43e0f4c..797e1168e 100644
--- a/gillespy2/solvers/cpp/build/__init__.py
+++ b/gillespy2/solvers/cpp/build/__init__.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/build/build_engine.py b/gillespy2/solvers/cpp/build/build_engine.py
index 00416f332..05b5a3e3b 100644
--- a/gillespy2/solvers/cpp/build/build_engine.py
+++ b/gillespy2/solvers/cpp/build/build_engine.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
@@ -18,6 +18,7 @@
 import shutil
 import tempfile
 import platform
+from importlib.util import find_spec
 from pathlib import Path
 from typing import Union
 
@@ -65,8 +66,12 @@ def get_missing_dependencies(cls) -> "list[str]":
         :returns: A list of missing dependencies.
         """
 
-        dependencies = ["g++", "make"]
+        dependencies = ["g++", "scons"]
         missing = [(dep) for dep in dependencies if shutil.which(dep) is None]
+        # SCons can either be an executable or a Python package
+        # If the executable is not found, default to the Python package
+        if "scons" in missing and find_spec("SCons") is not None:
+            missing.remove("scons")
 
         return missing
 
diff --git a/gillespy2/solvers/cpp/build/expression.py b/gillespy2/solvers/cpp/build/expression.py
index 068b91486..e78248302 100644
--- a/gillespy2/solvers/cpp/build/expression.py
+++ b/gillespy2/solvers/cpp/build/expression.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/build/make.py b/gillespy2/solvers/cpp/build/make.py
index 5e72f5b93..85fa218f2 100644
--- a/gillespy2/solvers/cpp/build/make.py
+++ b/gillespy2/solvers/cpp/build/make.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
@@ -17,11 +17,14 @@
 import os
 import subprocess
 
+from importlib.util import find_spec
 from pathlib import Path
+import shutil
 import sys
 
 from gillespy2.core import log
 from gillespy2.core import gillespyError
+from gillespy2.core import BuildError
 
 class Make():
     def __init__(self, makefile: str, output_dir: str, obj_dir: str = None, template_dir: str = None):
@@ -58,6 +61,15 @@ def __init__(self, makefile: str, output_dir: str, obj_dir: str = None, template
 
         self.output_file = Path(self.output_dir, self.output_file)
 
+        # SCons can either be an executable or a Python package.
+        scons_exe = shutil.which("scons")
+        if scons_exe is None:
+            self.scons_cmd = [str(Path(sys.executable).resolve()), "-m", "SCons"]
+        elif find_spec("SCons") is not None:
+            self.scons_cmd = [str(Path(scons_exe).resolve())]
+        else:
+            raise BuildError("SCons must be installed in order to compile solver with C++")
+
     def prebuild(self):
         self.__execute("build")
 
@@ -82,14 +94,14 @@ def __execute(self, target: str, **kwargs):
         make_args = [(f"{key.upper()}={value}") for key, value in args_dict.items()]
 
         # Create the make command.
-        scons_cmd = [str(Path(sys.executable).resolve()), "-m", "SCons"]
-        make_cmd = [*scons_cmd, f"-C{str(self.output_dir.resolve())}", f"-f{str(self.makefile)}"] + make_args
+        make_cmd = [*self.scons_cmd, f"-C{str(self.output_dir.resolve())}", f"-f{str(self.makefile)}"] + make_args
 
         try:
             result = subprocess.run(make_cmd, stdout=subprocess.PIPE, stderr=subprocess.PIPE)
 
         except KeyboardInterrupt:
-            log.warning(f"Makefile was interrupted during execution of target: '{target}', unexpected behavior may occur.")
+            log.warning(
+                    f"Makefile was interrupted during execution of target: '{target}', unexpected behavior may occur.")
 
         if result.returncode == 0 and os.path.exists(self.output_file):
             return
diff --git a/gillespy2/solvers/cpp/build/template_gen.py b/gillespy2/solvers/cpp/build/template_gen.py
index f9f9b9618..929e2457a 100644
--- a/gillespy2/solvers/cpp/build/template_gen.py
+++ b/gillespy2/solvers/cpp/build/template_gen.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
@@ -14,16 +14,15 @@
 # You should have received a copy of the GNU General Public License
 # along with this program.  If not, see <http://www.gnu.org/licenses/>.
 
+import math
 from collections import OrderedDict
 from typing import Optional
 from gillespy2.core import Species, Reaction, Parameter, Model, RateRule
 from gillespy2.solvers.cpp.build.expression import Expression
+from gillespy2.solvers.utilities.solverutils import species_parse
 from gillespy2.core import log
 from gillespy2.core.gillespyError import SimulationError
 
-import math
-
-
 class SanitizedModel:
     """
     Utility class for preparing a model to be passed to a C++ solver.
@@ -72,7 +71,7 @@ def __init__(self, model: Model, variable=False):
             # ORDER IS IMPORTANT HERE!
             # All "system" namespace entries should always be first.
             # Otherwise, user-defined identifiers (like, for example, "gamma") might get overwritten.
-            **{name: name for name in math.__dict__.keys()},
+            **{name: name for name in math.__dict__},
             **self.function_map,
             **self.species_names,
             **self.parameter_names,
@@ -89,6 +88,7 @@ def __init__(self, model: Model, variable=False):
         self.reactions: "OrderedDict[str, dict[str, int]]" = OrderedDict()
         self.reaction_reactants: "OrderedDict[str, dict[str, int]]" = OrderedDict()
         self.reaction_products: "OrderedDict[str, dict[str, int]]" = OrderedDict()
+        self.reaction_props_deps: "OrderedDict[str, [int]]" = OrderedDict()
         # Rate Rules: maps sanitized species names to their corresponding rate rule expression.
         self.rate_rules: "OrderedDict[str, str]" = OrderedDict()
         # Options: custom definitions that can be supplied by the solver, maps macros to their definitions.
@@ -126,6 +126,7 @@ def use_reaction(self, reaction: "Reaction") -> "SanitizedModel":
         self.reactions[reaction.name] = {spec: int(0) for spec in self.species_names.values()}
         self.reaction_reactants[reaction.name] = {spec: int(0) for spec in self.species_names.values()}
         self.reaction_products[reaction.name] = {spec: int(0) for spec in self.species_names.values()}
+        self.reaction_props_deps[reaction.name] = {spec: int(0) for spec in self.species_names.values()}
         for reactant, stoich_value in reaction.reactants.items():
             reactant = self.species_names[reactant.name]
             self.reactions[reaction.name][reactant] -= int(stoich_value)
@@ -136,6 +137,10 @@ def use_reaction(self, reaction: "Reaction") -> "SanitizedModel":
             self.reactions[reaction.name][product] += int(stoich_value)
             self.reaction_products[reaction.name][product] = int(stoich_value)
 
+        parsed_species = [spec.name for spec in species_parse(self.model, reaction.propensity_function)]
+        for species, san_species in self.species_names.items():
+            if species in parsed_species:
+                self.reaction_props_deps[reaction.name][san_species] = 1
         return self
 
     def use_rate_rule(self, rate_rule: "RateRule") -> "SanitizedModel":
@@ -407,6 +412,7 @@ def template_def_reactions(model: SanitizedModel, ode=False) -> "dict[str, str]"
     reaction_set = OrderedDict()
     reactants_set = OrderedDict()
     products_set = OrderedDict()
+    props_deps_set = OrderedDict()
 
     for rxn_name, reaction in model.reactions.items():
         stoich = [str(int(reaction[species])) for species in model.species_names.values()]
@@ -417,11 +423,15 @@ def template_def_reactions(model: SanitizedModel, ode=False) -> "dict[str, str]"
     for rxn_name, reaction_products in model.reaction_products.items():
         products_count = [str(int(reaction_products[species])) for species in model.species_names.values()]
         products_set[rxn_name] = f"{{{','.join(products_count)}}}"
+    for rxn_name, reaction_props_deps in model.reaction_props_deps.items():
+        props_deps_count = [str(int(reaction_props_deps[species])) for species in model.species_names.values()]
+        props_deps_set[rxn_name] = f"{{{','.join(props_deps_count)}}}"
 
     reaction_names = " ".join([f"REACTION_NAME({rxn})" for rxn in reaction_set.keys()])
     reaction_set = f"{{{','.join(reaction_set.values())}}}"
     reactants_set = f"{{{','.join(reactants_set.values())}}}"
     products_set = f"{{{','.join(products_set.values())}}}"
+    props_deps_set = f"{{{','.join(props_deps_set.values())}}}"
 
     return {
         "GPY_NUM_REACTIONS": num_reactions,
@@ -429,6 +439,7 @@ def template_def_reactions(model: SanitizedModel, ode=False) -> "dict[str, str]"
         "GPY_REACTIONS": reaction_set,
         "GPY_REACTION_REACTANTS": reactants_set,
         "GPY_REACTION_PRODUCTS": products_set,
+        "GPY_REACTION_PROPS_DEPS": props_deps_set
     }
 
 
diff --git a/gillespy2/solvers/cpp/c_base/SConscript b/gillespy2/solvers/cpp/c_base/SConscript
index 6c6eaf2fe..ee8130afd 100644
--- a/gillespy2/solvers/cpp/c_base/SConscript
+++ b/gillespy2/solvers/cpp/c_base/SConscript
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/c_base/Sundials/SConscript b/gillespy2/solvers/cpp/c_base/Sundials/SConscript
index 4fba0a24a..b9a1afbd0 100644
--- a/gillespy2/solvers/cpp/c_base/Sundials/SConscript
+++ b/gillespy2/solvers/cpp/c_base/Sundials/SConscript
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/c_base/Tau/SConscript b/gillespy2/solvers/cpp/c_base/Tau/SConscript
index e0857120b..b5271edbb 100644
--- a/gillespy2/solvers/cpp/c_base/Tau/SConscript
+++ b/gillespy2/solvers/cpp/c_base/Tau/SConscript
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/c_base/Tau/tau.cpp b/gillespy2/solvers/cpp/c_base/Tau/tau.cpp
index bcac5b44c..eddf76660 100644
--- a/gillespy2/solvers/cpp/c_base/Tau/tau.cpp
+++ b/gillespy2/solvers/cpp/c_base/Tau/tau.cpp
@@ -1,6 +1,6 @@
 /*
  * GillesPy2 is a modeling toolkit for biochemical simulation.
- * Copyright (C) 2019-2022 GillesPy2 developers.
+ * Copyright (C) 2019-2023 GillesPy2 developers.
  * 
  * This program is free software: you can redistribute it and/or modify
  * it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/c_base/Tau/tau.h b/gillespy2/solvers/cpp/c_base/Tau/tau.h
index bb9b9a96e..644574c83 100644
--- a/gillespy2/solvers/cpp/c_base/Tau/tau.h
+++ b/gillespy2/solvers/cpp/c_base/Tau/tau.h
@@ -1,6 +1,6 @@
 /*
  * GillesPy2 is a modeling toolkit for biochemical simulation.
- * Copyright (C) 2019-2022 GillesPy2 developers.
+ * Copyright (C) 2019-2023 GillesPy2 developers.
  * 
  * This program is free software: you can redistribute it and/or modify
  * it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/c_base/arg_parser.cpp b/gillespy2/solvers/cpp/c_base/arg_parser.cpp
index a1fe500cd..4cde153f1 100644
--- a/gillespy2/solvers/cpp/c_base/arg_parser.cpp
+++ b/gillespy2/solvers/cpp/c_base/arg_parser.cpp
@@ -1,6 +1,6 @@
 /*
  * GillesPy2 is a modeling toolkit for biochemical simulation.
- * Copyright (C) 2019-2022 GillesPy2 developers.
+ * Copyright (C) 2019-2023 GillesPy2 developers.
  * 
  * This program is free software: you can redistribute it and/or modify
  * it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/c_base/arg_parser.h b/gillespy2/solvers/cpp/c_base/arg_parser.h
index 1b4c72a2d..8b63d7927 100644
--- a/gillespy2/solvers/cpp/c_base/arg_parser.h
+++ b/gillespy2/solvers/cpp/c_base/arg_parser.h
@@ -1,6 +1,6 @@
 /*
  * GillesPy2 is a modeling toolkit for biochemical simulation.
- * Copyright (C) 2019-2022 GillesPy2 developers.
+ * Copyright (C) 2019-2023 GillesPy2 developers.
  * 
  * This program is free software: you can redistribute it and/or modify
  * it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/c_base/model.cpp b/gillespy2/solvers/cpp/c_base/model.cpp
index 675a5ed33..4c3403c80 100644
--- a/gillespy2/solvers/cpp/c_base/model.cpp
+++ b/gillespy2/solvers/cpp/c_base/model.cpp
@@ -1,6 +1,6 @@
 /*
  * GillesPy2 is a modeling toolkit for biochemical simulation.
- * Copyright (C) 2019-2022 GillesPy2 developers.
+ * Copyright (C) 2019-2023 GillesPy2 developers.
  * 
  * This program is free software: you can redistribute it and/or modify
  * it under the terms of the GNU General Public License as published by
@@ -48,11 +48,13 @@ namespace Gillespy {
             reactions[reaction].species_change = std::make_unique<int[]>(number_species);
             reactions[reaction].reactants_change = std::make_unique<int[]>(number_species);
             reactions[reaction].products_change = std::make_unique<int[]>(number_species);
+            reactions[reaction].props_deps = std::make_unique<int[]>(number_species);
 
             for (unsigned int species = 0; species < number_species; species++) {
                 reactions[reaction].species_change[species] = 0;
                 reactions[reaction].reactants_change[species] = 0;
                 reactions[reaction].products_change[species] = 0;
+                reactions[reaction].props_deps[species] = 0;
             }
 
             reactions[reaction].affected_reactions = std::vector<unsigned int>();
@@ -70,8 +72,7 @@ namespace Gillespy {
         for (unsigned int r1 = 0; r1 < number_reactions; r1++) {
             for (unsigned int r2 = 0; r2 < number_reactions; r2++) {
                 for (unsigned int s = 0; s < number_species; s++) {
-                     if(reactions[r1].species_change[s]  != 0  &&
-                        reactions[r2].reactants_change[s] > 0 ){
+                     if(reactions[r1].species_change[s]  != 0  && reactions[r2].props_deps[s] ){
                         reactions[r1].affected_reactions.push_back(r2);
                     }
                 }
diff --git a/gillespy2/solvers/cpp/c_base/model.h b/gillespy2/solvers/cpp/c_base/model.h
index 3e65c8f51..9ce57a4cc 100644
--- a/gillespy2/solvers/cpp/c_base/model.h
+++ b/gillespy2/solvers/cpp/c_base/model.h
@@ -1,6 +1,6 @@
 /*
  * GillesPy2 is a modeling toolkit for biochemical simulation.
- * Copyright (C) 2019-2022 GillesPy2 developers.
+ * Copyright (C) 2019-2023 GillesPy2 developers.
  * 
  * This program is free software: you can redistribute it and/or modify
  * it under the terms of the GNU General Public License as published by
@@ -74,6 +74,7 @@ namespace Gillespy
         std::unique_ptr<int[]> species_change;
         std::unique_ptr<int[]> reactants_change;
         std::unique_ptr<int[]> products_change;
+        std::unique_ptr<int[]> props_deps;
 
         inline static double propensity(
                 ReactionId reaction_id,
diff --git a/gillespy2/solvers/cpp/c_base/ode_cpp_solver/ODESimulation.cpp b/gillespy2/solvers/cpp/c_base/ode_cpp_solver/ODESimulation.cpp
index bdf087903..5733a9c09 100644
--- a/gillespy2/solvers/cpp/c_base/ode_cpp_solver/ODESimulation.cpp
+++ b/gillespy2/solvers/cpp/c_base/ode_cpp_solver/ODESimulation.cpp
@@ -1,6 +1,6 @@
 /*
  * GillesPy2 is a modeling toolkit for biochemical simulation.
- * Copyright (C) 2019-2022 GillesPy2 developers.
+ * Copyright (C) 2019-2023 GillesPy2 developers.
  * 
  * This program is free software: you can redistribute it and/or modify
  * it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/c_base/ode_cpp_solver/ODESolver.cpp b/gillespy2/solvers/cpp/c_base/ode_cpp_solver/ODESolver.cpp
index 13e9cb609..7ce77f8c6 100644
--- a/gillespy2/solvers/cpp/c_base/ode_cpp_solver/ODESolver.cpp
+++ b/gillespy2/solvers/cpp/c_base/ode_cpp_solver/ODESolver.cpp
@@ -1,6 +1,6 @@
 /*
  * GillesPy2 is a modeling toolkit for biochemical simulation.
- * Copyright (C) 2019-2022 GillesPy2 developers.
+ * Copyright (C) 2019-2023 GillesPy2 developers.
  * 
  * This program is free software: you can redistribute it and/or modify
  * it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/c_base/ode_cpp_solver/ODESolver.h b/gillespy2/solvers/cpp/c_base/ode_cpp_solver/ODESolver.h
index c5deb0fcc..866572b6c 100644
--- a/gillespy2/solvers/cpp/c_base/ode_cpp_solver/ODESolver.h
+++ b/gillespy2/solvers/cpp/c_base/ode_cpp_solver/ODESolver.h
@@ -1,6 +1,6 @@
 /*
  * GillesPy2 is a modeling toolkit for biochemical simulation.
- * Copyright (C) 2019-2022 GillesPy2 developers.
+ * Copyright (C) 2019-2023 GillesPy2 developers.
  * 
  * This program is free software: you can redistribute it and/or modify
  * it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/c_base/ode_cpp_solver/SConscript b/gillespy2/solvers/cpp/c_base/ode_cpp_solver/SConscript
index 581fe879a..8902f5e8f 100644
--- a/gillespy2/solvers/cpp/c_base/ode_cpp_solver/SConscript
+++ b/gillespy2/solvers/cpp/c_base/ode_cpp_solver/SConscript
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/c_base/ssa_cpp_solver/SConscript b/gillespy2/solvers/cpp/c_base/ssa_cpp_solver/SConscript
index def0d843e..4e07d6957 100644
--- a/gillespy2/solvers/cpp/c_base/ssa_cpp_solver/SConscript
+++ b/gillespy2/solvers/cpp/c_base/ssa_cpp_solver/SConscript
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/c_base/ssa_cpp_solver/SSASimulation.cpp b/gillespy2/solvers/cpp/c_base/ssa_cpp_solver/SSASimulation.cpp
index 6df10be7f..de22dc1df 100644
--- a/gillespy2/solvers/cpp/c_base/ssa_cpp_solver/SSASimulation.cpp
+++ b/gillespy2/solvers/cpp/c_base/ssa_cpp_solver/SSASimulation.cpp
@@ -1,6 +1,6 @@
 /*
  * GillesPy2 is a modeling toolkit for biochemical simulation.
- * Copyright (C) 2019-2022 GillesPy2 developers.
+ * Copyright (C) 2019-2023 GillesPy2 developers.
  * 
  * This program is free software: you can redistribute it and/or modify
  * it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/c_base/ssa_cpp_solver/SSASolver.cpp b/gillespy2/solvers/cpp/c_base/ssa_cpp_solver/SSASolver.cpp
index 9a801cec4..412bdd8f0 100644
--- a/gillespy2/solvers/cpp/c_base/ssa_cpp_solver/SSASolver.cpp
+++ b/gillespy2/solvers/cpp/c_base/ssa_cpp_solver/SSASolver.cpp
@@ -1,6 +1,6 @@
 /*
  * GillesPy2 is a modeling toolkit for biochemical simulation.
- * Copyright (C) 2019-2022 GillesPy2 developers.
+ * Copyright (C) 2019-2023 GillesPy2 developers.
  * 
  * This program is free software: you can redistribute it and/or modify
  * it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/c_base/ssa_cpp_solver/SSASolver.h b/gillespy2/solvers/cpp/c_base/ssa_cpp_solver/SSASolver.h
index 7aed30668..351594137 100644
--- a/gillespy2/solvers/cpp/c_base/ssa_cpp_solver/SSASolver.h
+++ b/gillespy2/solvers/cpp/c_base/ssa_cpp_solver/SSASolver.h
@@ -1,6 +1,6 @@
 /*
  * GillesPy2 is a modeling toolkit for biochemical simulation.
- * Copyright (C) 2019-2022 GillesPy2 developers.
+ * Copyright (C) 2019-2023 GillesPy2 developers.
  * 
  * This program is free software: you can redistribute it and/or modify
  * it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/HybridModel.cpp b/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/HybridModel.cpp
index 4eb3bd9fe..9589a83a4 100644
--- a/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/HybridModel.cpp
+++ b/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/HybridModel.cpp
@@ -1,6 +1,6 @@
 /*
  * GillesPy2 is a modeling toolkit for biochemical simulation.
- * Copyright (C) 2019-2022 GillesPy2 developers.
+ * Copyright (C) 2019-2023 GillesPy2 developers.
  * 
  * This program is free software: you can redistribute it and/or modify
  * it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/HybridModel.h b/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/HybridModel.h
index 4c2b33845..26be03d46 100644
--- a/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/HybridModel.h
+++ b/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/HybridModel.h
@@ -1,6 +1,6 @@
 /*
  * GillesPy2 is a modeling toolkit for biochemical simulation.
- * Copyright (C) 2019-2022 GillesPy2 developers.
+ * Copyright (C) 2019-2023 GillesPy2 developers.
  * 
  * This program is free software: you can redistribute it and/or modify
  * it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/SConscript b/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/SConscript
index 6bd11076b..89d56da1d 100644
--- a/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/SConscript
+++ b/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/SConscript
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/TauHybridSimulation.cpp b/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/TauHybridSimulation.cpp
index f9d636b80..da29c9277 100644
--- a/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/TauHybridSimulation.cpp
+++ b/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/TauHybridSimulation.cpp
@@ -1,6 +1,6 @@
 /*
  * GillesPy2 is a modeling toolkit for biochemical simulation.
- * Copyright (C) 2019-2022 GillesPy2 developers.
+ * Copyright (C) 2019-2023 GillesPy2 developers.
  * 
  * This program is free software: you can redistribute it and/or modify
  * it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/TauHybridSolver.cpp b/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/TauHybridSolver.cpp
index 6503dd867..64a21bdf5 100644
--- a/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/TauHybridSolver.cpp
+++ b/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/TauHybridSolver.cpp
@@ -1,6 +1,6 @@
 /*
  * GillesPy2 is a modeling toolkit for biochemical simulation.
- * Copyright (C) 2019-2022 GillesPy2 developers.
+ * Copyright (C) 2019-2023 GillesPy2 developers.
  * 
  * This program is free software: you can redistribute it and/or modify
  * it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/TauHybridSolver.h b/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/TauHybridSolver.h
index c3eaeeca2..e2fad29b2 100644
--- a/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/TauHybridSolver.h
+++ b/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/TauHybridSolver.h
@@ -1,6 +1,6 @@
 /*
  * GillesPy2 is a modeling toolkit for biochemical simulation.
- * Copyright (C) 2019-2022 GillesPy2 developers.
+ * Copyright (C) 2019-2023 GillesPy2 developers.
  * 
  * This program is free software: you can redistribute it and/or modify
  * it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/hybrid_template.cpp b/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/hybrid_template.cpp
index 2e7f2abb8..deaa92e12 100644
--- a/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/hybrid_template.cpp
+++ b/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/hybrid_template.cpp
@@ -1,6 +1,6 @@
 /*
  * GillesPy2 is a modeling toolkit for biochemical simulation.
- * Copyright (C) 2019-2022 GillesPy2 developers.
+ * Copyright (C) 2019-2023 GillesPy2 developers.
  * 
  * This program is free software: you can redistribute it and/or modify
  * it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/hybrid_template.h b/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/hybrid_template.h
index 7b7f196ef..01df28e34 100644
--- a/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/hybrid_template.h
+++ b/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/hybrid_template.h
@@ -1,6 +1,6 @@
 /*
  * GillesPy2 is a modeling toolkit for biochemical simulation.
- * Copyright (C) 2019-2022 GillesPy2 developers.
+ * Copyright (C) 2019-2023 GillesPy2 developers.
  * 
  * This program is free software: you can redistribute it and/or modify
  * it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/integrator.cpp b/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/integrator.cpp
index 4e9da117f..4d6809cea 100644
--- a/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/integrator.cpp
+++ b/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/integrator.cpp
@@ -1,6 +1,6 @@
 /*
  * GillesPy2 is a modeling toolkit for biochemical simulation.
- * Copyright (C) 2019-2022 GillesPy2 developers.
+ * Copyright (C) 2019-2023 GillesPy2 developers.
  * 
  * This program is free software: you can redistribute it and/or modify
  * it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/integrator.h b/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/integrator.h
index efb680bb1..1aa0a1e4a 100644
--- a/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/integrator.h
+++ b/gillespy2/solvers/cpp/c_base/tau_hybrid_cpp_solver/integrator.h
@@ -1,6 +1,6 @@
 /*
  * GillesPy2 is a modeling toolkit for biochemical simulation.
- * Copyright (C) 2019-2022 GillesPy2 developers.
+ * Copyright (C) 2019-2023 GillesPy2 developers.
  * 
  * This program is free software: you can redistribute it and/or modify
  * it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/c_base/tau_leaping_cpp_solver/SConscript b/gillespy2/solvers/cpp/c_base/tau_leaping_cpp_solver/SConscript
index 789ed1ab3..5c26e8a7b 100644
--- a/gillespy2/solvers/cpp/c_base/tau_leaping_cpp_solver/SConscript
+++ b/gillespy2/solvers/cpp/c_base/tau_leaping_cpp_solver/SConscript
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/c_base/tau_leaping_cpp_solver/TauLeapingSimulation.cpp b/gillespy2/solvers/cpp/c_base/tau_leaping_cpp_solver/TauLeapingSimulation.cpp
index f9840c18f..c1642c8d9 100644
--- a/gillespy2/solvers/cpp/c_base/tau_leaping_cpp_solver/TauLeapingSimulation.cpp
+++ b/gillespy2/solvers/cpp/c_base/tau_leaping_cpp_solver/TauLeapingSimulation.cpp
@@ -1,6 +1,6 @@
 /*
  * GillesPy2 is a modeling toolkit for biochemical simulation.
- * Copyright (C) 2019-2022 GillesPy2 developers.
+ * Copyright (C) 2019-2023 GillesPy2 developers.
  * 
  * This program is free software: you can redistribute it and/or modify
  * it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/c_base/tau_leaping_cpp_solver/TauLeapingSolver.cpp b/gillespy2/solvers/cpp/c_base/tau_leaping_cpp_solver/TauLeapingSolver.cpp
index 13a28a525..bea501868 100644
--- a/gillespy2/solvers/cpp/c_base/tau_leaping_cpp_solver/TauLeapingSolver.cpp
+++ b/gillespy2/solvers/cpp/c_base/tau_leaping_cpp_solver/TauLeapingSolver.cpp
@@ -1,6 +1,6 @@
 /*
  * GillesPy2 is a modeling toolkit for biochemical simulation.
- * Copyright (C) 2019-2022 GillesPy2 developers.
+ * Copyright (C) 2019-2023 GillesPy2 developers.
  * 
  * This program is free software: you can redistribute it and/or modify
  * it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/c_base/tau_leaping_cpp_solver/TauLeapingSolver.h b/gillespy2/solvers/cpp/c_base/tau_leaping_cpp_solver/TauLeapingSolver.h
index fbc8dfc55..6e753cedd 100644
--- a/gillespy2/solvers/cpp/c_base/tau_leaping_cpp_solver/TauLeapingSolver.h
+++ b/gillespy2/solvers/cpp/c_base/tau_leaping_cpp_solver/TauLeapingSolver.h
@@ -1,6 +1,6 @@
 /*
  * GillesPy2 is a modeling toolkit for biochemical simulation.
- * Copyright (C) 2019-2022 GillesPy2 developers.
+ * Copyright (C) 2019-2023 GillesPy2 developers.
  * 
  * This program is free software: you can redistribute it and/or modify
  * it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/c_base/template/template.cpp b/gillespy2/solvers/cpp/c_base/template/template.cpp
index d5727f395..00f09700a 100644
--- a/gillespy2/solvers/cpp/c_base/template/template.cpp
+++ b/gillespy2/solvers/cpp/c_base/template/template.cpp
@@ -1,6 +1,6 @@
 /*
  * GillesPy2 is a modeling toolkit for biochemical simulation.
- * Copyright (C) 2019-2022 GillesPy2 developers.
+ * Copyright (C) 2019-2023 GillesPy2 developers.
  * 
  * This program is free software: you can redistribute it and/or modify
  * it under the terms of the GNU General Public License as published by
@@ -51,6 +51,7 @@ namespace Gillespy
     int reactions[GPY_NUM_REACTIONS][GPY_NUM_SPECIES] = GPY_REACTIONS;
     int reaction_reactants[GPY_NUM_REACTIONS][GPY_NUM_SPECIES] = GPY_REACTION_REACTANTS;
     int reaction_products[GPY_NUM_REACTIONS][GPY_NUM_SPECIES] = GPY_REACTION_PRODUCTS;
+    int reaction_props_deps[GPY_NUM_REACTIONS][GPY_NUM_SPECIES] = GPY_REACTION_PROPS_DEPS;
     std::string r_names[GPY_NUM_REACTIONS] = 
     {
         #define REACTION_NAME(name) #name,
@@ -245,6 +246,7 @@ namespace Gillespy
                 model.reactions[rxn_i].species_change[spec_i] = reactions[rxn_i][spec_i];
                 model.reactions[rxn_i].reactants_change[spec_i] = reaction_reactants[rxn_i][spec_i];
                 model.reactions[rxn_i].products_change[spec_i] = reaction_products[rxn_i][spec_i];
+                model.reactions[rxn_i].props_deps[spec_i] = reaction_props_deps[rxn_i][spec_i];
             }
         }
 
diff --git a/gillespy2/solvers/cpp/c_base/template/template.h b/gillespy2/solvers/cpp/c_base/template/template.h
index 42d676737..51fd2f41d 100644
--- a/gillespy2/solvers/cpp/c_base/template/template.h
+++ b/gillespy2/solvers/cpp/c_base/template/template.h
@@ -1,6 +1,6 @@
 /*
  * GillesPy2 is a modeling toolkit for biochemical simulation.
- * Copyright (C) 2019-2022 GillesPy2 developers.
+ * Copyright (C) 2019-2023 GillesPy2 developers.
  * 
  * This program is free software: you can redistribute it and/or modify
  * it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/c_base/template/template_defaults.h b/gillespy2/solvers/cpp/c_base/template/template_defaults.h
index d466b1a58..15a94b906 100644
--- a/gillespy2/solvers/cpp/c_base/template/template_defaults.h
+++ b/gillespy2/solvers/cpp/c_base/template/template_defaults.h
@@ -1,6 +1,6 @@
 /*
  * GillesPy2 is a modeling toolkit for biochemical simulation.
- * Copyright (C) 2019-2022 GillesPy2 developers.
+ * Copyright (C) 2019-2023 GillesPy2 developers.
  * 
  * This program is free software: you can redistribute it and/or modify
  * it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/c_base/template/template_definitions.h b/gillespy2/solvers/cpp/c_base/template/template_definitions.h
index 51c9962ed..96605ddd5 100644
--- a/gillespy2/solvers/cpp/c_base/template/template_definitions.h
+++ b/gillespy2/solvers/cpp/c_base/template/template_definitions.h
@@ -1,6 +1,6 @@
 /*
  * GillesPy2 is a modeling toolkit for biochemical simulation.
- * Copyright (C) 2019-2022 GillesPy2 developers.
+ * Copyright (C) 2019-2023 GillesPy2 developers.
  * 
  * This program is free software: you can redistribute it and/or modify
  * it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/c_base/template/template_params.h b/gillespy2/solvers/cpp/c_base/template/template_params.h
index 1de45a1eb..178643aa1 100644
--- a/gillespy2/solvers/cpp/c_base/template/template_params.h
+++ b/gillespy2/solvers/cpp/c_base/template/template_params.h
@@ -1,6 +1,6 @@
 /*
  * GillesPy2 is a modeling toolkit for biochemical simulation.
- * Copyright (C) 2019-2022 GillesPy2 developers.
+ * Copyright (C) 2019-2023 GillesPy2 developers.
  * 
  * This program is free software: you can redistribute it and/or modify
  * it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/c_decoder.py b/gillespy2/solvers/cpp/c_decoder.py
index c163d78b2..d418884bb 100644
--- a/gillespy2/solvers/cpp/c_decoder.py
+++ b/gillespy2/solvers/cpp/c_decoder.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/c_solver.py b/gillespy2/solvers/cpp/c_solver.py
index 551dd26bc..5a1d51721 100644
--- a/gillespy2/solvers/cpp/c_solver.py
+++ b/gillespy2/solvers/cpp/c_solver.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
@@ -68,7 +68,7 @@ def __init__(self, model: Model = None, output_directory: str = None, delete_dir
 
         if len(BuildEngine.get_missing_dependencies()) > 0:
             raise gillespyError.SimulationError(
-                "Please install/configure 'g++' and 'make' on your system, to ensure that GillesPy2 C solvers will run properly."
+                "Please install/configure 'g++' and 'scons' on your system, to ensure that GillesPy2 C solvers will run properly."
             )
 
         if platform.system() == "Windows" and " " in gillespy2.__file__:
diff --git a/gillespy2/solvers/cpp/ode_c_solver.py b/gillespy2/solvers/cpp/ode_c_solver.py
index bbc0fdfcb..7278a0fe7 100644
--- a/gillespy2/solvers/cpp/ode_c_solver.py
+++ b/gillespy2/solvers/cpp/ode_c_solver.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/ssa_c_solver.py b/gillespy2/solvers/cpp/ssa_c_solver.py
index c41d08161..52253d603 100644
--- a/gillespy2/solvers/cpp/ssa_c_solver.py
+++ b/gillespy2/solvers/cpp/ssa_c_solver.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/cpp/tau_leaping_c_solver.py b/gillespy2/solvers/cpp/tau_leaping_c_solver.py
index 815bd818a..303c2024f 100644
--- a/gillespy2/solvers/cpp/tau_leaping_c_solver.py
+++ b/gillespy2/solvers/cpp/tau_leaping_c_solver.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/numpy/CLE_solver.py b/gillespy2/solvers/numpy/CLE_solver.py
index 6ec3515a6..73c7049c5 100644
--- a/gillespy2/solvers/numpy/CLE_solver.py
+++ b/gillespy2/solvers/numpy/CLE_solver.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/numpy/__init__.py b/gillespy2/solvers/numpy/__init__.py
index b409e2c11..af7b5a2f9 100644
--- a/gillespy2/solvers/numpy/__init__.py
+++ b/gillespy2/solvers/numpy/__init__.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/numpy/ode_solver.py b/gillespy2/solvers/numpy/ode_solver.py
index 6631d066c..7ba728a87 100644
--- a/gillespy2/solvers/numpy/ode_solver.py
+++ b/gillespy2/solvers/numpy/ode_solver.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/numpy/ssa_solver.py b/gillespy2/solvers/numpy/ssa_solver.py
index 3deefd483..5c885e1a0 100644
--- a/gillespy2/solvers/numpy/ssa_solver.py
+++ b/gillespy2/solvers/numpy/ssa_solver.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/numpy/tau_hybrid_solver.py b/gillespy2/solvers/numpy/tau_hybrid_solver.py
index f02fcc0bd..647bf08b4 100644
--- a/gillespy2/solvers/numpy/tau_hybrid_solver.py
+++ b/gillespy2/solvers/numpy/tau_hybrid_solver.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/numpy/tau_leaping_solver.py b/gillespy2/solvers/numpy/tau_leaping_solver.py
index b73e5555e..61974a2c7 100644
--- a/gillespy2/solvers/numpy/tau_leaping_solver.py
+++ b/gillespy2/solvers/numpy/tau_leaping_solver.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/stochkit/__init__.py b/gillespy2/solvers/stochkit/__init__.py
deleted file mode 100644
index 47b845eac..000000000
--- a/gillespy2/solvers/stochkit/__init__.py
+++ /dev/null
@@ -1,19 +0,0 @@
-# GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
-
-# This program is free software: you can redistribute it and/or modify
-# it under the terms of the GNU General Public License as published by
-# the Free Software Foundation, either version 3 of the License, or
-# (at your option) any later version.
-
-# This program is distributed in the hope that it will be useful,
-# but WITHOUT ANY WARRANTY; without even the implied warranty of
-# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
-# GNU General Public License for more details.
-
-# You should have received a copy of the GNU General Public License
-# along with this program.  If not, see <http://www.gnu.org/licenses/>.
-
-from gillespy2.solvers.stochkit.stochkit_solvers import StochKitSolver, StochKitODESolver
-
-__all__ = ['StochKitSolver', 'StochKitODESolver']
diff --git a/gillespy2/solvers/stochkit/stochkit_solvers.py b/gillespy2/solvers/stochkit/stochkit_solvers.py
deleted file mode 100644
index cd9c81655..000000000
--- a/gillespy2/solvers/stochkit/stochkit_solvers.py
+++ /dev/null
@@ -1,390 +0,0 @@
-# GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
-
-# This program is free software: you can redistribute it and/or modify
-# it under the terms of the GNU General Public License as published by
-# the Free Software Foundation, either version 3 of the License, or
-# (at your option) any later version.
-
-# This program is distributed in the hope that it will be useful,
-# but WITHOUT ANY WARRANTY; without even the implied warranty of
-# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
-# GNU General Public License for more details.
-
-# You should have received a copy of the GNU General Public License
-# along with this program.  If not, see <http://www.gnu.org/licenses/>.
-
-import numpy as np
-import random
-import tempfile
-import os
-import uuid
-import subprocess
-import shutil
-from gillespy2.core import GillesPySolver, Model, log
-from gillespy2.core.gillespyError import SimulationError, InvalidModelError
-
-
-class StochKitBaseSolver(GillesPySolver):
-    name = "StochKitBaseSolver"
-    rc = 0
-    """
-    Abstract class for a StochKit solver. This is generally called from within a
-    GillesPy Model through the Model.run function. Returns simulation
-    trajectories.
-
-
-    :param model: The model on which the solver will operate
-    :type model: GillesPy2.model
-    
-    :param t: The end time of the solver
-    :type t: float
-    
-    :param number_of_trajectories: The number of times to sample the chemical master equation. Each
-    trajectory will be returned at the end of the simulation.
-    :type number_of_trajectories: int
-    
-    :param increment: The time step of the solution
-    :type increment: float
-    
-    :param seed: The random seed for the simulation. Defaults to None.
-    :type seed: int
-    
-    :param stochkit_home: Path to stochkit. This is set automatically upon installation, but
-    may be overwritten if desired.
-    :type stochkit_home: str
-    
-    :param algorithm: The solver by which to simulate the model. 'ssa' or 'tau_leaping'
-    are the available options. If 'ssa' is chosen, StochKit will choose
-    from the available ssa options.
-    :type algorithm: str
-    
-    :param job_id: If given, this will be the name of the solver run. Usually not set.
-    :type job_id: str
-    
-    :param extra_args:  Any extra arguments for the stochkit solver. See StochKit2
-    documentation for details.
-    :type extra_args: str
-    
-    :param debug: Set to True to provide additional debug information about the simulation.
-    :type debug: bool
-    
-    :param show_labels: Use names of species as index of result object rather than position numbers.
-    :type show_labels: str
-    """
-    @classmethod
-    def run(cls, model, t=20, number_of_trajectories=1, increment=0.05, seed=None,
-            stochkit_home=None, algorithm=None, job_id=None, extra_args='',
-            debug=False, profile=False, show_labels=False, **kwargs):
-        """
-        Call out and run the solver. Collect the results.
-        """
-        if len(kwargs) > 0:
-            for key in kwargs:
-                log.warning('Unsupported keyword argument to solver: {0}'.format(key))
-
-        if algorithm is None:
-            raise SimulationError("No algorithm selected")
-
-        # We write all StochKit input and output files to a temporary folder
-        prefix_base_dir = tempfile.mkdtemp()
-        prefix_out_dir = os.path.join(prefix_base_dir, 'output')
-        os.mkdir(prefix_out_dir)
-
-        if job_id is None:
-            job_id = str(uuid.uuid4())
-
-        if isinstance(model, Model):
-            # Write a temporary StochKit2 input file.
-            outfile = os.path.join(prefix_base_dir, "temp_input_{0}.xml".format(job_id))
-            with open(outfile, 'w') as model_file_handle:
-                model_file_handle.write(model.serialize())
-        elif isinstance(model, str):
-            outfile = model
-        else:
-            raise InvalidModelError('Model must be either a GillesPy Model instance or an xml file name.')
-
-        executable = cls.locate_executable(stochkit_home=stochkit_home, algorithm=algorithm)
-
-        if executable is None:
-            raise SimulationError("stochkit executable '{0}' not found. \
-                Make sure it is your path, or set STOCHKIT_HOME environment \
-                variable'".format(algorithm))
-
-        # Assemble argument list for StochKit
-        out_dir = os.path.join(prefix_out_dir, job_id)
-
-        if increment is None:
-            increment = t / 20.0
-        num_output_points = round(t / increment)
-
-        # Assemble the argument list
-        args = '--model {0} --out-dir {1} -t {2} -i {3}'.format(outfile, out_dir, t, int(num_output_points))
-
-        directories = os.listdir(prefix_out_dir)
-        if os.path.isdir(out_dir):
-            if debug:
-                print('Ensemble {0} already existed, using --force.'.format(job_id))
-            args += ' --force'
-
-        # If we are using local mode, shell out and run StochKit
-        # (SSA or Tau-leaping or ODE)
-        cmd = ' '.join([executable, args, extra_args])
-        if debug:
-            print("cmd: {0}".format(cmd))
-
-        # Execute
-        try:
-            handle = subprocess.Popen(cmd, stdout=subprocess.PIPE, stderr=subprocess.PIPE, shell=True)
-            return_code = handle.wait()
-        except OSError as e:
-            raise SimulationError("Solver execution failed: {0}\n{1}".format(cmd, e))
-
-        try:
-            stderr = handle.stderr.read()
-        except Exception as e:
-            stderr = 'Error reading stderr: {0}'.format(e)
-        try:
-            stdout = handle.stdout.read()
-        except Exception as e:
-            stdout = 'Error reading stdout: {0}'.format(e)
-
-        if return_code != 0:
-            raise SimulationError("Solver execution failed: '{0}' output: {1}{2}".format(cmd, stdout, stderr))
-
-        try:
-            # Get data using solver specific function
-            trajectories = cls.get_trajectories(out_dir, debug=debug, show_labels=show_labels)
-            if len(trajectories) == 0:
-                raise SimulationError("Solver execution failed: '{0}' output: {1}{2}".format(cmd, stdout, stderr))
-            if show_labels:
-                labels, trajectories = trajectories
-                trajectories = cls.label_trajectories(trajectories, labels)
-            return trajectories, cls.rc
-        except Exception as e:
-            compile_log_file = os.path.join(prefix_base_dir, 'temp_input_{0}_generated_code'.format(job_id),
-                                            'compile-log.txt')
-            log_file = os.path.join(prefix_out_dir, job_id, 'log.txt')
-            for file_name in [compile_log_file, log_file]:
-                if os.path.isfile(file_name):
-                    with open(file_name) as f:
-                        error = f.read()
-                    raise SimulationError("Error running simulation: {0}\n{1}\n".format(file_name, error))
-
-            raise SimulationError("Error using solver.get_trajectories('{0}'): {1}".format(out_dir, e))
-        finally:
-            # Clean up
-            if debug:
-                print("prefix_base_dir={0}".format(prefix_base_dir))
-                print("STDOUT: {0}".format(stdout))
-                print("STDERR: {0}".format(stderr))
-            else:
-                shutil.rmtree(prefix_base_dir)
-
-    @staticmethod
-    def locate_executable(stochkit_home=None, algorithm=None):
-        # Algorithm, SSA or Tau-leaping?
-        executable = None
-        if stochkit_home is not None:
-            if os.path.isfile(os.path.join(stochkit_home, algorithm)):
-                executable = os.path.join(stochkit_home, algorithm)
-            else:
-                raise SimulationError("stochkit executable '{0}' not found \
-                stochkit_home={1}".format(algorithm, stochkit_home))
-        elif os.environ.get('STOCHKIT_HOME') is not None:
-            if os.path.isfile(os.path.join(os.environ.get('STOCHKIT_HOME'),
-                                           algorithm)):
-                executable = os.path.join(os.environ.get('STOCHKIT_HOME'),
-                                          algorithm)
-        if executable is None:
-            # try to find the executable in the path
-            if os.environ.get('PATH') is not None:
-                for directory in os.environ.get('PATH').split(os.pathsep):
-                    if os.path.isfile(os.path.join(directory, algorithm)):
-                        executable = os.path.join(directory, algorithm)
-                        break
-        return executable
-
-    @staticmethod
-    def process_seed(seed):
-        if seed is None:
-            seed = random.randint(0, 2147483647)
-        # StochKit breaks for long ints
-        if seed.bit_length() >= 32:
-            seed = seed & ((1 << 32) - 1)
-            if seed > (1 << 31) - 1:
-                seed -= 1 << 32
-        return seed
-
-    @staticmethod
-    def label_trajectories(trajectories, labels):
-        results = []
-        for r in trajectories:
-            ret = {}
-            for n, l in enumerate(labels):
-                ret[l] = r[:, n]
-            results.append(ret)
-        return results
-
-
-class StochKitSolver(StochKitBaseSolver):
-    name = 'StochKitSolver'
-    """
-    Abstract class for StochKit solver derived from the GillesPySolver class.
-    This is generally used to set up the solver.
-
-
-    :param model: The model on which the solver will operate
-    :type model: GillesPy2.model
-
-    :param t: The end time of the solver
-    :type t: float
-
-    :param number_of_trajectories: The number of times to sample the chemical master equation. Each
-    trajectory will be returned at the end of the simulation.
-    :type number_of_trajectories: int
-
-    :param increment: The time step of the solution
-    :type increment: float
-
-    :param seed: The random seed for the simulation. Defaults to None.
-    :type seed: int
-
-    :param stochkit_home: Path to stochkit. This is set automatically upon installation, but
-    may be overwritten if desired.
-    :type stochkit_home: str
-
-    :param algorithm: The solver by which to simulate the model. 'ssa' or 'tau_leaping'
-    are the available options. If 'ssa' is chosen, StochKit will choose
-    from the available ssa options.
-    :type algorithm: str
-
-    :param job_id: If given, this will be the name of the solver run. Usually not set.
-    :type job_id: str
-
-    :param extra_args:  Any extra arguments for the stochkit solver. See StochKit2
-    documentation for details.
-    :type extra_args: str
-
-    :param debug: Set to True to provide additional debug information about the simulation.
-    :type debug: bool
-
-    :param show_labels: Use names of species as index of result object rather than position numbers.
-    :type show_labels: str
-    """
-    @classmethod
-    def run(cls, model, t=20, number_of_trajectories=1, increment=0.05, seed=None,
-            stochkit_home=None, algorithm='ssa', job_id=None, method=None,
-            debug=False, show_labels=False, profile=False, processes=1, **kwargs):
-
-        # all this is specific to StochKit
-        if model.units == "concentration":
-            raise SimulationError("StochKit can only simulate population \
-                                  models, please convert to population-based model for \
-                                  stochastic simulation. Use solver = StochKitODESolver \
-                                  instead to simulate a concentration model deterministically.")
-
-        seed = super().process_seed(seed)
-
-        # We keep all the trajectories by default.
-        args = ' -p {0} --keep-trajectories --label --seed {1} --realizations {2}'.format(processes, seed, number_of_trajectories)
-
-        if method is not None:  # This only works for StochKit 2.1
-            args += ' --method ' + str(method)
-
-        return super().run(model=model, t=t, number_of_trajectories=number_of_trajectories, increment=increment, seed=seed, stochkit_home=stochkit_home,
-                           algorithm=algorithm, job_id=job_id, debug=debug, show_labels=show_labels, extra_args=args)
-
-    @classmethod
-    def get_trajectories(cls, out_dir, debug=False, show_labels=False):
-        if debug:
-            print("StochKitSolver.get_trajectories(out_dir={0}".format(out_dir))
-        # Collect all the output data
-        trajectories = []
-        trajectory_directory = os.path.join(out_dir, 'trajectories')
-        for filename in os.listdir(trajectory_directory):
-            if 'trajectory' in filename:
-                filename = os.path.join(trajectory_directory, filename)
-                trajectories.append(np.loadtxt(filename, skiprows=1))
-            else:
-                raise SimulationError("Couldn't identify file '{0}' found in \
-                                        output folder".format(filename))
-        if show_labels:
-            with open(os.path.join(trajectory_directory, 'trajectory0.txt'), 'r') as fd:
-                headers = fd.readline()
-            return headers.split(), trajectories
-        return trajectories
-
-
-class StochKitODESolver(StochKitBaseSolver):
-    name = "StochKitODESolver"
-    """
-    Abstract class for StochKit solver derived from the GillesPySolver class.
-    This is generally used to set up the solver.
-
-
-    :param model: The model on which the solver will operate
-    :type model: GillesPy2.model
-
-    :param t: The end time of the solver
-    :type t: float
-
-    :param number_of_trajectories: The number of times to sample the chemical master equation. Each
-    trajectory will be returned at the end of the simulation.
-    :type number_of_trajectories: int
-
-    :param increment: The time step of the solution
-    :type increment: float
-
-    :param seed: The random seed for the simulation. Defaults to None.
-    :type seed: int
-
-    :param stochkit_home: Path to stochkit. This is set automatically upon installation, but
-    may be overwritten if desired.
-    :type stochkit_home: str
-
-    :param algorithm: The solver by which to simulate the model. 'ssa' or 'tau_leaping'
-    are the available options. If 'ssa' is chosen, StochKit will choose
-    from the available ssa options.
-    :type algorithm: str
-
-    :param job_id: If given, this will be the name of the solver run. Usually not set.
-    :type job_id: str
-
-    :param extra_args:  Any extra arguments for the stochkit solver. See StochKit2
-    documentation for details.
-    :type extra_args: str
-
-    :param debug: Set to True to provide additional debug information about the simulation.
-    :type debug: bool
-
-    :param show_labels: Use names of species as index of result object rather than position numbers.
-    :type show_labels: str
-    """
-
-    @classmethod
-    def run(cls, model, t=20, number_of_trajectories=1,
-            increment=0.05, seed=None, stochkit_home=None,
-            algorithm='stochkit_ode.py',
-            job_id=None, debug=False, profile=False, show_labels=False, **kwargs):
-        return super().run(model, t, number_of_trajectories, increment, seed, stochkit_home,
-                           algorithm, job_id, debug=debug, show_labels=show_labels)
-
-    @classmethod
-    def get_trajectories(cls, out_dir, debug=False, show_labels=False):
-        if debug:
-            print("StochKitODESolver.get_trajectories(out_dir={0}".format(out_dir))
-        # Collect all the output data
-        trajectories = []
-        with open(os.path.join(out_dir, 'output.txt'), 'r') as fd:
-            fd.readline()
-            headers = fd.readline()
-            fd.readline()
-            data = [[float(x) for x in fd.readline().split()]]
-            fd.readline()
-            for line in fd:
-                data.append([float(x) for x in line.split()])
-        trajectories.append(np.array(data))
-        if show_labels:
-            return headers.split(), trajectories
-        return trajectories
diff --git a/gillespy2/solvers/utilities/Tau.py b/gillespy2/solvers/utilities/Tau.py
index 880da3c66..8eff84973 100644
--- a/gillespy2/solvers/utilities/Tau.py
+++ b/gillespy2/solvers/utilities/Tau.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/utilities/__init__.py b/gillespy2/solvers/utilities/__init__.py
index 2f43e0f4c..797e1168e 100644
--- a/gillespy2/solvers/utilities/__init__.py
+++ b/gillespy2/solvers/utilities/__init__.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/utilities/cpp_support_test.py b/gillespy2/solvers/utilities/cpp_support_test.py
index c7a7e0168..bbdb96233 100644
--- a/gillespy2/solvers/utilities/cpp_support_test.py
+++ b/gillespy2/solvers/utilities/cpp_support_test.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/solvers/utilities/solverutils.py b/gillespy2/solvers/utilities/solverutils.py
index 04e5f9678..a808ee91b 100644
--- a/gillespy2/solvers/utilities/solverutils.py
+++ b/gillespy2/solvers/utilities/solverutils.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/stochss/StochSSexport.py b/gillespy2/stochss/StochSSexport.py
index f295b3c8e..6e672215c 100644
--- a/gillespy2/stochss/StochSSexport.py
+++ b/gillespy2/stochss/StochSSexport.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/gillespy2/stochss/__init__.py b/gillespy2/stochss/__init__.py
index 2f43e0f4c..797e1168e 100644
--- a/gillespy2/stochss/__init__.py
+++ b/gillespy2/stochss/__init__.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/setup.py b/setup.py
index 792be2711..7ea5c7e88 100644
--- a/setup.py
+++ b/setup.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/TestBattery.py b/test/TestBattery.py
index 3510ed515..a07f4c0d5 100644
--- a/test/TestBattery.py
+++ b/test/TestBattery.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/TimingData.ipynb b/test/TimingData.ipynb
deleted file mode 100644
index 1803c9669..000000000
--- a/test/TimingData.ipynb
+++ /dev/null
@@ -1,448 +0,0 @@
-{
- "cells": [
-  {
-   "cell_type": "markdown",
-   "metadata": {},
-   "source": [
-    "# Timing Data"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": 1,
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "from time_solvers import timed_trials, plot_solver_run_times\n",
-    "import numpy as np\n",
-    "import matplotlib.pyplot as plt\n",
-    "import sys\n",
-    "sys.path.append('../')\n",
-    "import gillespy2\n",
-    "import os\n",
-    "if 'STOCHKIT_HOME' not in os.environ:\n",
-    "    os.environ['STOCHKIT_HOME'] = \"/home/smatthe2/StochKit\""
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": 2,
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "#Helper method for gathering imported items of a specific type:\n",
-    "def imported_classes(match_type):\n",
-    "    items = []\n",
-    "    key, value = None, None\n",
-    "    for key, value in globals().items():\n",
-    "        if isinstance(value, type) and issubclass(value, match_type) and value not in items:\n",
-    "            items.append(value)\n",
-    "    return items"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": 3,
-   "metadata": {},
-   "outputs": [
-    {
-     "name": "stdout",
-     "output_type": "stream",
-     "text": [
-      "\n",
-      "-----\n",
-      "Imported models:\n",
-      "1:\tVilar2002_Oscillator\n"
-     ]
-    }
-   ],
-   "source": [
-    "# from example_models import *\n",
-    "# #Trichloroethylene, LacOperon, Schlogl, MichaelisMenten, ToggleSwitch, Example, Tyson2StateOscillator\n",
-    "# models = [MichaelisMenten(), Example(), Trichloroethylene()]#model() for model in imported_classes(gillespy2.Model)]\n",
-    "model_map = {}\n",
-    "try:\n",
-    "    from urllib2 import urlopen\n",
-    "except ImportError:\n",
-    "    from urllib.request import urlopen\n",
-    "import tempfile\n",
-    "sbml_file = 'https://www.ebi.ac.uk/biomodels/model/download/BIOMD0000000035.2?filename=BIOMD0000000035_url.xml'\n",
-    "response = urlopen(sbml_file)\n",
-    "tmp = tempfile.NamedTemporaryFile(delete = False)\n",
-    "tmp.write(response.read())\n",
-    "tmp.close()\n",
-    "######\n",
-    "\n",
-    "sbml_model, errors = gillespy2.import_SBML(tmp.name)\n",
-    "sbml_model.units = 'population'\n",
-    "sbml_model.timespan(np.linspace(0, 5, 101))\n",
-    "model_map[sbml_model] = tmp.name\n",
-    "print(os.linesep.join([error for error, code in errors]))\n",
-    "print(\"-----\")\n",
-    "\n",
-    "######\n",
-    "models = [sbml_model]\n",
-    "print('Imported models:')\n",
-    "for i, model in enumerate(models):\n",
-    "    print('{}:\\t{}'.format(i+1, model.name))"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": 4,
-   "metadata": {},
-   "outputs": [
-    {
-     "name": "stdout",
-     "output_type": "stream",
-     "text": [
-      "Imported solvers:\n",
-      "1:\tSSACSolver\n",
-      "2:\tStochKitSolver\n",
-      "3:\tRRSolver\n"
-     ]
-    }
-   ],
-   "source": [
-    "# from gillespy2.solvers.numpy import *\n",
-    "#BasicODESolver, BasicRootSolver, BasicTauLeapingSolver, NumPySSASolver, TauLeapingSolver\n",
-    "\n",
-    "#CythonSSASolver\n",
-    "from gillespy2 import SSACSolver\n",
-    "#SSACSolver\n",
-    "from gillespy2.solvers.stochkit import *\n",
-    "#StochKitODESolver, StochKitSolver\n",
-    "solvers = imported_classes(gillespy2.GillesPySolver)\n",
-    "# solvers.remove(ODESolver)\n",
-    "solvers.remove(StochKitODESolver)\n",
-    "# solvers.remove(StochKitSolver)\n",
-    "# solvers.remove(SSACSolver)\n",
-    "\n",
-    "#Here we pretend that roadrunner is a gillespy2 solver that can be precompiled for fair comparison\n",
-    "class RRSolver(SSACSolver):\n",
-    "    __name__ = 'RoadRunner'\n",
-    "    name = 'RoadRunner'\n",
-    "    model = None\n",
-    "    solver = None\n",
-    "    delete_directory = False\n",
-    "    results = []\n",
-    "    def __init__(self, sbml_model):\n",
-    "        try:\n",
-    "            import roadrunner\n",
-    "        except:\n",
-    "            raise Exception('Could not import Roadrunner')\n",
-    "        self.sbml_file = model_map[sbml_model]\n",
-    "        self.solver = roadrunner.RoadRunner(self.sbml_file)\n",
-    "        self.solver.setIntegrator('gillespie')\n",
-    "    @classmethod\n",
-    "    def run(self, model, t=20, number_of_trajectories=1, increment=0.05, resume=None, **kwargs):\n",
-    "        if self is None or self.model is None:\n",
-    "            self = RRSolver(model)\n",
-    "        for i in range(number_of_trajectories):\n",
-    "            self.results.append(self.solver.simulate())\n",
-    "            self.solver.reset()\n",
-    "        return self.results, 0\n",
-    "    \n",
-    "\n",
-    "solvers.append(RRSolver) # Include Roadrunner in comparison\n",
-    "print('Imported solvers:')\n",
-    "for i, solver in enumerate(solvers):\n",
-    "    print('{}:\\t{}'.format(i+1, solver.__name__))"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {
-    "scrolled": false
-   },
-   "outputs": [
-    {
-     "name": "stdout",
-     "output_type": "stream",
-     "text": [
-      "[1, 2, 4, 8, 16, 32, 64, 128, 256, 512, 1024]\n"
-     ]
-    },
-    {
-     "name": "stderr",
-     "output_type": "stream",
-     "text": [
-      "Model: Vilar2002_Oscillator, Solver: SSACSolver, Trajectories: 1: 100%|██████████| 30/30 [00:00<00:00, 52.49it/s]\n",
-      "Model: Vilar2002_Oscillator, Solver: SSACSolver, Trajectories: 2: 100%|██████████| 30/30 [00:00<00:00, 32.72it/s]\n",
-      "Model: Vilar2002_Oscillator, Solver: SSACSolver, Trajectories: 4: 100%|██████████| 30/30 [00:01<00:00, 19.42it/s]\n",
-      "Model: Vilar2002_Oscillator, Solver: SSACSolver, Trajectories: 8: 100%|██████████| 30/30 [00:02<00:00, 10.42it/s]\n",
-      "Model: Vilar2002_Oscillator, Solver: SSACSolver, Trajectories: 16: 100%|██████████| 30/30 [00:05<00:00,  5.41it/s]\n",
-      "Model: Vilar2002_Oscillator, Solver: SSACSolver, Trajectories: 32: 100%|██████████| 30/30 [00:10<00:00,  2.76it/s]\n",
-      "Model: Vilar2002_Oscillator, Solver: SSACSolver, Trajectories: 64: 100%|██████████| 30/30 [00:20<00:00,  1.46it/s]\n",
-      "Model: Vilar2002_Oscillator, Solver: SSACSolver, Trajectories: 128: 100%|██████████| 30/30 [00:41<00:00,  1.37s/it]\n",
-      "Model: Vilar2002_Oscillator, Solver: SSACSolver, Trajectories: 256: 100%|██████████| 30/30 [01:22<00:00,  2.74s/it]\n",
-      "Model: Vilar2002_Oscillator, Solver: SSACSolver, Trajectories: 512: 100%|██████████| 30/30 [02:46<00:00,  5.56s/it]\n",
-      "Model: Vilar2002_Oscillator, Solver: SSACSolver, Trajectories: 1024: 100%|██████████| 30/30 [05:46<00:00, 11.54s/it]\n",
-      "Model: Vilar2002_Oscillator, Solver: StochKitSolver, Trajectories: 1: 100%|██████████| 30/30 [04:59<00:00, 10.00s/it]\n",
-      "Model: Vilar2002_Oscillator, Solver: StochKitSolver, Trajectories: 2: 100%|██████████| 30/30 [04:54<00:00,  9.83s/it]\n",
-      "Model: Vilar2002_Oscillator, Solver: StochKitSolver, Trajectories: 4: 100%|██████████| 30/30 [04:56<00:00,  9.88s/it]\n",
-      "Model: Vilar2002_Oscillator, Solver: StochKitSolver, Trajectories: 8: 100%|██████████| 30/30 [05:02<00:00, 10.09s/it]\n",
-      "Model: Vilar2002_Oscillator, Solver: StochKitSolver, Trajectories: 16: 100%|██████████| 30/30 [05:01<00:00, 10.03s/it]\n",
-      "Model: Vilar2002_Oscillator, Solver: StochKitSolver, Trajectories: 32: 100%|██████████| 30/30 [05:04<00:00, 10.14s/it]\n",
-      "Model: Vilar2002_Oscillator, Solver: StochKitSolver, Trajectories: 64: 100%|██████████| 30/30 [05:12<00:00, 10.40s/it]\n",
-      "Model: Vilar2002_Oscillator, Solver: StochKitSolver, Trajectories: 128: 100%|██████████| 30/30 [05:48<00:00, 11.62s/it]\n",
-      "Model: Vilar2002_Oscillator, Solver: StochKitSolver, Trajectories: 256: 100%|██████████| 30/30 [06:11<00:00, 12.37s/it]\n",
-      "Model: Vilar2002_Oscillator, Solver: StochKitSolver, Trajectories: 512: 100%|██████████| 30/30 [07:13<00:00, 14.46s/it]\n",
-      "Model: Vilar2002_Oscillator, Solver: StochKitSolver, Trajectories: 1024: 100%|██████████| 30/30 [09:06<00:00, 18.23s/it]\n",
-      "Model: Vilar2002_Oscillator, Solver: RoadRunner, Trajectories: 1: 100%|██████████| 30/30 [00:02<00:00, 12.85it/s]\n",
-      "Model: Vilar2002_Oscillator, Solver: RoadRunner, Trajectories: 2: 100%|██████████| 30/30 [00:04<00:00,  7.16it/s]\n",
-      "Model: Vilar2002_Oscillator, Solver: RoadRunner, Trajectories: 4: 100%|██████████| 30/30 [00:07<00:00,  3.88it/s]\n",
-      "Model: Vilar2002_Oscillator, Solver: RoadRunner, Trajectories: 8: 100%|██████████| 30/30 [00:15<00:00,  1.99it/s]\n",
-      "Model: Vilar2002_Oscillator, Solver: RoadRunner, Trajectories: 16: 100%|██████████| 30/30 [01:55<00:00,  3.84s/it]\n",
-      "Model: Vilar2002_Oscillator, Solver: RoadRunner, Trajectories: 32:  20%|██        | 6/30 [00:14<00:59,  2.48s/it]"
-     ]
-    }
-   ],
-   "source": [
-    "trajectories = [2**i for i in range(11)]\n",
-    "print(trajectories)\n",
-    "timing_data = timed_trials(models, solvers, trajectories, number_trials=30, output_file='timing_data.pkl')"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "#Ideally, we can run the timed tests once and save the results for later in a .pkl file\n",
-    "import pickle\n",
-    "with open('timing_data.pkl', 'rb') as f:\n",
-    "    timing_data = pickle.load(f)\n",
-    "    \n"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "%matplotlib inline\n",
-    "styles = {\n",
-    "    'StochKitSolver' : 'r*-',\n",
-    "    'SSACSolver' : 'g*-',\n",
-    "    'CythonSSASolver' : 'b*-',\n",
-    "    'NumPySSASolver' : 'k*-',\n",
-    "    'BasicTauHybridSolver' : 'y*-',\n",
-    "    'BasicTauLeapingSolver' : 'm*-'\n",
-    "}\n",
-    "plot_solver_run_times(timing_data, line_styles=styles)"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "plot_solver_run_times(timing_data, line_styles=styles, ylabel='Log(seconds)', transformation=np.log)"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "plot_solver_run_times(timing_data, line_styles=styles, ylabel='Relative Speed to Stochkit', baseline_solver_name=StochKitSolver.name)"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "import matplotlib.pyplot as plt\n",
-    "ylabel='Average run time (s)'\n",
-    "reduce=np.mean\n",
-    "line_styles=styles"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {
-    "scrolled": false
-   },
-   "outputs": [],
-   "source": [
-    "model_names = timing_data.keys()\n",
-    "for model in model_names:\n",
-    "    plt.figure(figsize=(10,8))\n",
-    "    plt.title('{} Timing Results'.format(model))\n",
-    "    plt.xlabel('Trajectories', fontsize=16)\n",
-    "    plt.ylabel(ylabel, fontsize=16)\n",
-    "    baseline = None\n",
-    "    #if baseline_solver_name is not None:\n",
-    "    #    baseline = reduce(timing_data[model][baseline_solver_name][:, 1:], axis=1)\n",
-    "    #    if transformation is not None:\n",
-    "    #        baseline = transformation(times)\n",
-    "    solver_names = timing_data[model].keys()\n",
-    "    for solver in solver_names:\n",
-    "        trajectories = timing_data[model][solver][:,0]\n",
-    "        times = reduce(timing_data[model][solver][:, 1:], axis=1)\n",
-    "        #if transformation is not None:\n",
-    "        #    times = transformation(times)\n",
-    "        #if baseline is not None:\n",
-    "        #    times = np.divide(baseline, times)\n",
-    "        if solver in line_styles:\n",
-    "            plt.plot(trajectories, times, line_styles[solver], label=solver)\n",
-    "        else:\n",
-    "            plt.plot(trajectories, times, label=solver)\n",
-    "    plt.legend(loc='best', fontsize=16)\n"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "ylabel='Average run time (s)'\n",
-    "reduce=np.mean\n",
-    "line_styles={\n",
-    "    'StochKitSolver' : 'r*-',\n",
-    "    'SSACSolver' : 'g*-',\n",
-    "    'CythonSSASolver' : 'b*-',\n",
-    "    'NumPySSASolver' : 'k*-',\n",
-    "    'BasicTauHybridSolver' : 'y*-',\n",
-    "    'BasicTauLeapingSolver' : 'm*-'\n",
-    "}\n",
-    "model_names = timing_data.keys()\n",
-    "for model in model_names:\n",
-    "    plt.figure(figsize=(10,8))\n",
-    "    plt.title('{} Timing Results'.format(model))\n",
-    "    plt.xlabel('Trajectories', fontsize=16)\n",
-    "    plt.ylabel(ylabel, fontsize=16)\n",
-    "    baseline = None\n",
-    "    #if baseline_solver_name is not None:\n",
-    "    #    baseline = reduce(timing_data[model][baseline_solver_name][:, 1:], axis=1)\n",
-    "    #    if transformation is not None:\n",
-    "    #        baseline = transformation(times)\n",
-    "    #solver_names = timing_data[model].keys()\n",
-    "    solver_names = ['StochKitSolver', 'NumPySSASolver', 'SSACSolver']\n",
-    "    for solver in solver_names:\n",
-    "        trajectories = timing_data[model][solver][:,0]\n",
-    "        times = reduce(timing_data[model][solver][:, 1:], axis=1)\n",
-    "        #if transformation is not None:\n",
-    "        #    times = transformation(times)\n",
-    "        #if baseline is not None:\n",
-    "        #    times = np.divide(baseline, times)\n",
-    "        if solver in line_styles:\n",
-    "            plt.plot(trajectories, times, line_styles[solver], label=solver)\n",
-    "        else:\n",
-    "            plt.plot(trajectories, times, label=solver)\n",
-    "    plt.legend(loc='best', fontsize=16)\n"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "solver1 = RRSolver(sbml_model)"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "import roadrunner\n",
-    "rr = roadrunner.RoadRunner(tmp.name)"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "rr.reset()\n",
-    "rr.setIntegrator('gillespie')\n",
-    "rr.simulate(0, 5)"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "rr.plot()"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "res.plot()"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": 2,
-   "metadata": {},
-   "outputs": [
-    {
-     "ename": "NameError",
-     "evalue": "name 'tmp' is not defined",
-     "output_type": "error",
-     "traceback": [
-      "\u001b[0;31m---------------------------------------------------------------------------\u001b[0m",
-      "\u001b[0;31mNameError\u001b[0m                                 Traceback (most recent call last)",
-      "\u001b[0;32m<ipython-input-2-7427e45bfd2e>\u001b[0m in \u001b[0;36m<module>\u001b[0;34m\u001b[0m\n\u001b[1;32m      1\u001b[0m \u001b[0;32mimport\u001b[0m \u001b[0mos\u001b[0m\u001b[0;34m\u001b[0m\u001b[0;34m\u001b[0m\u001b[0m\n\u001b[0;32m----> 2\u001b[0;31m \u001b[0mos\u001b[0m\u001b[0;34m.\u001b[0m\u001b[0mremove\u001b[0m\u001b[0;34m(\u001b[0m\u001b[0mtmp\u001b[0m\u001b[0;34m.\u001b[0m\u001b[0mname\u001b[0m\u001b[0;34m)\u001b[0m\u001b[0;34m\u001b[0m\u001b[0;34m\u001b[0m\u001b[0m\n\u001b[0m",
-      "\u001b[0;31mNameError\u001b[0m: name 'tmp' is not defined"
-     ]
-    }
-   ],
-   "source": [
-    "os.remove(tmp.name)"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {},
-   "outputs": [],
-   "source": []
-  }
- ],
- "metadata": {
-  "@webio": {
-   "lastCommId": null,
-   "lastKernelId": null
-  },
-  "kernelspec": {
-   "display_name": "Python 3",
-   "language": "python",
-   "name": "python3"
-  },
-  "language_info": {
-   "codemirror_mode": {
-    "name": "ipython",
-    "version": 3
-   },
-   "file_extension": ".py",
-   "mimetype": "text/x-python",
-   "name": "python",
-   "nbconvert_exporter": "python",
-   "pygments_lexer": "ipython3",
-   "version": "3.6.9"
-  }
- },
- "nbformat": 4,
- "nbformat_minor": 2
-}
diff --git a/test/example_models.py b/test/example_models.py
index cc1582fd0..f401ec89f 100644
--- a/test/example_models.py
+++ b/test/example_models.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/pause_model.py b/test/pause_model.py
index dbb3b17ff..7c5670a6d 100644
--- a/test/pause_model.py
+++ b/test/pause_model.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/profiling/__init__.py b/test/profiling/__init__.py
index 2f43e0f4c..797e1168e 100644
--- a/test/profiling/__init__.py
+++ b/test/profiling/__init__.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/profiling/c_profiler.py b/test/profiling/c_profiler.py
index b68cefd28..5768633bb 100644
--- a/test/profiling/c_profiler.py
+++ b/test/profiling/c_profiler.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/profiling/performance_data.py b/test/profiling/performance_data.py
index e61b33e05..d98589fda 100644
--- a/test/profiling/performance_data.py
+++ b/test/profiling/performance_data.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/profiling/python_profiler.py b/test/profiling/python_profiler.py
index 4fc3b1fc7..b36f524f3 100644
--- a/test/profiling/python_profiler.py
+++ b/test/profiling/python_profiler.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/run_integration_tests.py b/test/run_integration_tests.py
index 7bc3dfe1f..0f7a3f25c 100644
--- a/test/run_integration_tests.py
+++ b/test/run_integration_tests.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/run_system_tests.py b/test/run_system_tests.py
index 12ba5e09a..8f90e425a 100644
--- a/test/run_system_tests.py
+++ b/test/run_system_tests.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/run_unit_tests.py b/test/run_unit_tests.py
index 9e1b856ff..78290cbf4 100644
--- a/test/run_unit_tests.py
+++ b/test/run_unit_tests.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/test_SBML.py b/test/test_SBML.py
index 0bf4a7518..92d600bde 100644
--- a/test/test_SBML.py
+++ b/test/test_SBML.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/test_StochML.py b/test/test_StochML.py
index ce4f46b7e..b617bcecc 100644
--- a/test/test_StochML.py
+++ b/test/test_StochML.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/test_all_solvers.py b/test/test_all_solvers.py
index 24ecdd13a..243b21d06 100644
--- a/test/test_all_solvers.py
+++ b/test/test_all_solvers.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/test_build_engine.py b/test/test_build_engine.py
index e134cb78b..81eb72c15 100644
--- a/test/test_build_engine.py
+++ b/test/test_build_engine.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/test_c_decode.py b/test/test_c_decode.py
index 46c0037aa..6f655afeb 100644
--- a/test/test_c_decode.py
+++ b/test/test_c_decode.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/test_c_solver_perf.py b/test/test_c_solver_perf.py
index ee5c069c7..f41799f50 100644
--- a/test/test_c_solver_perf.py
+++ b/test/test_c_solver_perf.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/test_c_solvers.py b/test/test_c_solvers.py
index 357bbe2ee..c0998c944 100644
--- a/test/test_c_solvers.py
+++ b/test/test_c_solvers.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/test_check_cpp_support.py b/test/test_check_cpp_support.py
index b21a1c6b2..803c0e12b 100644
--- a/test/test_check_cpp_support.py
+++ b/test/test_check_cpp_support.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/test_empty_model.py b/test/test_empty_model.py
index 11da42cc4..e7e8aa6bb 100644
--- a/test/test_empty_model.py
+++ b/test/test_empty_model.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/test_example_models.py b/test/test_example_models.py
index 9123692bc..f3eac315f 100644
--- a/test/test_example_models.py
+++ b/test/test_example_models.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/test_hybrid_c_events.py b/test/test_hybrid_c_events.py
index 852664b5d..bc165e3a5 100644
--- a/test/test_hybrid_c_events.py
+++ b/test/test_hybrid_c_events.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/test_hybrid_event_round.py b/test/test_hybrid_event_round.py
index 7c3fc06fa..444333ef1 100644
--- a/test/test_hybrid_event_round.py
+++ b/test/test_hybrid_event_round.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/test_hybrid_negative_state.py b/test/test_hybrid_negative_state.py
index e12642334..75eef2e45 100644
--- a/test/test_hybrid_negative_state.py
+++ b/test/test_hybrid_negative_state.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/test_hybrid_solver.py b/test/test_hybrid_solver.py
index 22bd61f5a..27761964c 100644
--- a/test/test_hybrid_solver.py
+++ b/test/test_hybrid_solver.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/test_hybrid_solver_opioid_model.py b/test/test_hybrid_solver_opioid_model.py
index 261cbb13c..8ddd939eb 100644
--- a/test/test_hybrid_solver_opioid_model.py
+++ b/test/test_hybrid_solver_opioid_model.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/test_jsonify.py b/test/test_jsonify.py
index 39e5ecc26..9be488aec 100644
--- a/test/test_jsonify.py
+++ b/test/test_jsonify.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/test_model.py b/test/test_model.py
index 291e01626..b2808e108 100644
--- a/test/test_model.py
+++ b/test/test_model.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/test_notebooks.py b/test/test_notebooks.py
index 9dd02b52e..9de7c43ed 100644
--- a/test/test_notebooks.py
+++ b/test/test_notebooks.py
@@ -1,6 +1,6 @@
 
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/test_numpy_ssa_solver.py b/test/test_numpy_ssa_solver.py
index b9bedf953..29866039a 100644
--- a/test/test_numpy_ssa_solver.py
+++ b/test/test_numpy_ssa_solver.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/test_ode_c_solver.py b/test/test_ode_c_solver.py
index 6dab311dc..d3a46301d 100644
--- a/test/test_ode_c_solver.py
+++ b/test/test_ode_c_solver.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/test_ode_solver.py b/test/test_ode_solver.py
index 5b49d155a..14ddbb62f 100644
--- a/test/test_ode_solver.py
+++ b/test/test_ode_solver.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/test_pause_resume.py b/test/test_pause_resume.py
index 158b1f831..01f034597 100644
--- a/test/test_pause_resume.py
+++ b/test/test_pause_resume.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/test_propensity_parser.py b/test/test_propensity_parser.py
index 2c58e834b..ec4a7f41a 100644
--- a/test/test_propensity_parser.py
+++ b/test/test_propensity_parser.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/test_python_solver_perf.py b/test/test_python_solver_perf.py
index 7502cafde..fab21f59c 100644
--- a/test/test_python_solver_perf.py
+++ b/test/test_python_solver_perf.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/test_results.py b/test/test_results.py
index 0543f10f0..a2c37d2e1 100644
--- a/test/test_results.py
+++ b/test/test_results.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/test_run_output.py b/test/test_run_output.py
index b1280e657..579180123 100644
--- a/test/test_run_output.py
+++ b/test/test_run_output.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/test_simple_model.py b/test/test_simple_model.py
index 36a393c67..029c12088 100644
--- a/test/test_simple_model.py
+++ b/test/test_simple_model.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/test_ssa_c_solver.py b/test/test_ssa_c_solver.py
index ae74924af..f04daa15d 100644
--- a/test/test_ssa_c_solver.py
+++ b/test/test_ssa_c_solver.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/test_sys_init.py b/test/test_sys_init.py
index 8ea600f3c..11d88697b 100644
--- a/test/test_sys_init.py
+++ b/test/test_sys_init.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/test_tau_leaping_c_solver.py b/test/test_tau_leaping_c_solver.py
index a4eb3fa1a..ab7350096 100644
--- a/test/test_tau_leaping_c_solver.py
+++ b/test/test_tau_leaping_c_solver.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/test_tau_leaping_solver.py b/test/test_tau_leaping_solver.py
index edf426081..aa8fa6ead 100644
--- a/test/test_tau_leaping_solver.py
+++ b/test/test_tau_leaping_solver.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/test_telegraph_model.py b/test/test_telegraph_model.py
index ac71e63c4..1d302242e 100644
--- a/test/test_telegraph_model.py
+++ b/test/test_telegraph_model.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/test_variable_solvers.py b/test/test_variable_solvers.py
index 2cb8c5827..78d08ad97 100644
--- a/test/test_variable_solvers.py
+++ b/test/test_variable_solvers.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/time_solvers.py b/test/time_solvers.py
deleted file mode 100644
index 3c8946942..000000000
--- a/test/time_solvers.py
+++ /dev/null
@@ -1,124 +0,0 @@
-# GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
-
-# This program is free software: you can redistribute it and/or modify
-# it under the terms of the GNU General Public License as published by
-# the Free Software Foundation, either version 3 of the License, or
-# (at your option) any later version.
-
-# This program is distributed in the hope that it will be useful,
-# but WITHOUT ANY WARRANTY; without even the implied warranty of
-# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
-# GNU General Public License for more details.
-
-# You should have received a copy of the GNU General Public License
-# along with this program.  If not, see <http://www.gnu.org/licenses/>.
-
-import sys
-sys.path.insert(0,'..')
-
-try:
-    from tqdm import tqdm, trange
-except ImportError:
-    raise ImportError('tqdm is required. Please install it.')
-from itertools import product
-from timeit import default_timer as timer
-import matplotlib.pyplot as plt
-import os.path
-import numpy as np
-import pickle
-import gillespy2
-#BasicSSASolver
-from gillespy2.solvers.numpy import *
-#BasicODESolver, BasicRootSolver, BasicTauLeapingSolver, NumPySSASolver, TauLeapingSolver
-from gillespy2.solvers.cpp import *
-#SSACSolver
-from gillespy2.solvers.auto import *
-#SSASolver
-from gillespy2.solvers.stochkit import *
-#StochKitODESolver, StochKitSolver
-
-
-def timed_trials(models, solvers, trajectories, number_trials=30, override_number_trials={}, precompile_solvers=True,
-                 output_file=None):
-    """
-    Runs a series of timed trials with a given set of GillesPy models and solvers.
-    :param models: the list of models for the timed trials.
-    :param solvers: the list of solvers for the timed trials.
-    :param trajectories: the list of trajectories to time each model-solver combination on.
-    :param number_trials: the number of times to run each model-solver-trajectory combination.
-    :param override_number_trials: if specified, overrides the number of trials for specific solvers.
-    :param precompile_solvers: whether or not to precompile solvers which may benefit from it (SSACSolver).
-    :param output_file: if specified, file location where timing results will be stored using pickle.
-    :return: A multi-dimensional dictionary which takes keys [model.name][solver.name] and returns NumPy arrays of the
-    shape (len(trajectories), number_trials).
-    """
-    timing_data = {}
-    for model in models:
-        timing_data[model.name] = {}
-    for model, solver in product(models, solvers):
-        trials = number_trials
-        if solver.name in override_number_trials:
-            trials = override_number_trials[solver.name]
-        if precompile_solvers and issubclass(solver, SSACSolver):
-            solver = solver(model)
-        timing_data[model.name][solver.name] = np.zeros((len(trajectories), 1+trials))
-        for trajectory_i, trajectory in enumerate(trajectories):
-            times = timing_data[model.name][solver.name][trajectory_i]
-            times[0] = trajectory
-            for i in trange(trials, desc = 'Model: {}, Solver: {}, Trajectories: {}'.format(model.name, solver.name, trajectory)):
-                start = timer()
-                solver = solver(model=model)
-                model.run(solver=solver, number_of_trajectories=trajectory)
-                stop = timer()
-                times[1+i] = stop - start
-            if output_file is not None:
-                with open(output_file, 'wb') as f:
-                    pickle.dump(timing_data, f)
-    return timing_data
-
-
-def plot_solver_run_times(timing_data, ylabel='Average seconds', reduce=np.mean, line_styles={}, transformation=None,
-                          model_names=None, solver_names=None, baseline_solver_name=None, output_directory=None):
-    """
-    Plots matplotlib graphs comparing each solver's execution time for each model.
-    :param timing_data: the timing data returned from a call to timed_trials().
-    :param ylabel: label for the y axis.
-    :param reduce: how to reduce the times for each model-solver-trajectory set, defaults to mean.
-    :param line_styles: if specified, a dictionary denoting how to style lines for specific solvers.
-    :param transformation: if specified, a function which will be called on the set of times for each solver.
-    :param model_names: if specified, a list for a subset of the model names in the timing data to plot.
-    :param solver_names: if specified, a list for a subset of the solver names in the timing data to plot.
-    :param baseline_solver_name: if specified, timing results will be divided by the times of this solver.
-    :param output_directory: if specified, plots will be saved in this folder.
-    :return:
-    """
-    if model_names is None:
-        model_names = timing_data.keys()
-    for model in model_names:
-        plt.figure()
-        plt.title('{} Timing Results'.format(model))
-        plt.xlabel('Trajectories')
-        plt.ylabel(ylabel)
-        baseline = None
-        if baseline_solver_name is not None:
-            baseline = reduce(timing_data[model][baseline_solver_name][:, 1:], axis=1)
-            if transformation is not None:
-                baseline = transformation(times)
-        if solver_names is None:
-            solver_names = timing_data[model].keys()
-        for solver in solver_names:
-            trajectories = timing_data[model][solver][:,0]
-            times = reduce(timing_data[model][solver][:, 1:], axis=1)
-            if transformation is not None:
-                times = transformation(times)
-            if baseline is not None:
-                times = np.divide(baseline, times)
-            if solver in line_styles:
-                plt.plot(trajectories, times, line_styles[solver], label=solver)
-            else:
-                plt.plot(trajectories, times, label=solver)
-        plt.legend(loc='best')
-        if output_directory is not None:
-            filename = '{}TimingResults{}.png'.format(model, ylabel.replace(' ', '_'))
-            plt.savefig(os.path.join(output_directory, filename))
diff --git a/test/unit_tests/test_model.py b/test/unit_tests/test_model.py
index 1ddaa3b11..0c777ba4d 100644
--- a/test/unit_tests/test_model.py
+++ b/test/unit_tests/test_model.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/unit_tests/test_parameter.py b/test/unit_tests/test_parameter.py
index 46fb16987..a23e69335 100644
--- a/test/unit_tests/test_parameter.py
+++ b/test/unit_tests/test_parameter.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/unit_tests/test_reaction.py b/test/unit_tests/test_reaction.py
index ce7c8080c..bacb176b1 100644
--- a/test/unit_tests/test_reaction.py
+++ b/test/unit_tests/test_reaction.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/unit_tests/test_species.py b/test/unit_tests/test_species.py
index 4d32211b6..032ae1bf1 100644
--- a/test/unit_tests/test_species.py
+++ b/test/unit_tests/test_species.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
diff --git a/test/unit_tests/test_timespan.py b/test/unit_tests/test_timespan.py
index f70ff0e7e..0fbd61ae3 100644
--- a/test/unit_tests/test_timespan.py
+++ b/test/unit_tests/test_timespan.py
@@ -1,5 +1,5 @@
 # GillesPy2 is a modeling toolkit for biochemical simulation.
-# Copyright (C) 2019-2022 GillesPy2 developers.
+# Copyright (C) 2019-2023 GillesPy2 developers.
 
 # This program is free software: you can redistribute it and/or modify
 # it under the terms of the GNU General Public License as published by
