diff --git a/docs/build/doctrees/dicts.doctree b/docs/build/doctrees/dicts.doctree
index 1bf524a0565c4889bac0b97ac985f9c6b9fdbbe8..41e35e9209ff0f2dc4d323d43ff86d9e5fc61c29 100644
Binary files a/docs/build/doctrees/dicts.doctree and b/docs/build/doctrees/dicts.doctree differ
diff --git a/docs/build/doctrees/ensemble.doctree b/docs/build/doctrees/ensemble.doctree
index 35fb91e203f93f967f3b473a8044a0cffaa7f566..28b84dd301160769761b733c3c96264a28137b96 100644
Binary files a/docs/build/doctrees/ensemble.doctree and b/docs/build/doctrees/ensemble.doctree differ
diff --git a/docs/build/doctrees/environment.pickle b/docs/build/doctrees/environment.pickle
index 21833e8797ae9ca577eab8b6c4fedd653f1d64e8..608b87d150a31c4a7839459d5767c5a8a051ee40 100644
Binary files a/docs/build/doctrees/environment.pickle and b/docs/build/doctrees/environment.pickle differ
diff --git a/docs/build/doctrees/population_extensions/gridcode.doctree b/docs/build/doctrees/population_extensions/gridcode.doctree
index 06ff4f17237507ee941da7bc730a1e0bc31310cc..b15ef530e4f7ca5f5602657124ccf3a57a52270f 100644
Binary files a/docs/build/doctrees/population_extensions/gridcode.doctree and b/docs/build/doctrees/population_extensions/gridcode.doctree differ
diff --git a/docs/build/html/_images/test_coverage.svg b/docs/build/html/_images/test_coverage.svg
index d76f04f02a173e1c79189ce9e75fcc71f7519589..6d68f472b0f880260c3f22f1fc057e768f16f432 100644
--- a/docs/build/html/_images/test_coverage.svg
+++ b/docs/build/html/_images/test_coverage.svg
@@ -9,13 +9,13 @@
</mask>
<g mask="url(#a)">
<path fill="#555" d="M0 0h63v20H0z"/>
- <path fill="#fe7d37" d="M63 0h36v20H63z"/>
+ <path fill="#dfb317" d="M63 0h36v20H63z"/>
<path fill="url(#b)" d="M0 0h99v20H0z"/>
</g>
<g fill="#fff" text-anchor="middle" font-family="DejaVu Sans,Verdana,Geneva,sans-serif" font-size="11">
<text x="31.5" y="15" fill="#010101" fill-opacity=".3">coverage</text>
<text x="31.5" y="14">coverage</text>
- <text x="80" y="15" fill="#010101" fill-opacity=".3">51%</text>
- <text x="80" y="14">51%</text>
+ <text x="80" y="15" fill="#010101" fill-opacity=".3">64%</text>
+ <text x="80" y="14">64%</text>
</g>
</svg>
diff --git a/docs/build/html/_modules/binarycpython/utils/custom_logging_functions.html b/docs/build/html/_modules/binarycpython/utils/custom_logging_functions.html
index 0192f47c847c6766e410adc9e8843a18512e2755..22c46847393726f26d3ccea2852211a25d7e1166 100644
--- a/docs/build/html/_modules/binarycpython/utils/custom_logging_functions.html
+++ b/docs/build/html/_modules/binarycpython/utils/custom_logging_functions.html
@@ -551,7 +551,7 @@
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/_modules/binarycpython/utils/dicts.html b/docs/build/html/_modules/binarycpython/utils/dicts.html
index fedae4dc4d8b099a657ba2ee4e0e5973fbe03e67..906af63f2471ede6025bfec434c8f2abff796526 100644
--- a/docs/build/html/_modules/binarycpython/utils/dicts.html
+++ b/docs/build/html/_modules/binarycpython/utils/dicts.html
@@ -76,30 +76,34 @@
<span class="sd">"""</span>
<span class="kn">import</span> <span class="nn">collections</span>
+<span class="kn">from</span> <span class="nn">typing</span> <span class="kn">import</span> <span class="n">Union</span>
<span class="kn">import</span> <span class="nn">astropy.units</span> <span class="k">as</span> <span class="nn">u</span>
<span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>
-<div class="viewcode-block" id="keys_to_floats"><a class="viewcode-back" href="../../../dicts.html#binarycpython.utils.dicts.keys_to_floats">[docs]</a><span class="k">def</span> <span class="nf">keys_to_floats</span><span class="p">(</span><span class="n">json_data</span><span class="p">):</span>
+<span class="c1"># Define all numerical types</span>
+
+<span class="n">ALLOWED_NUMERICAL_TYPES</span> <span class="o">=</span> <span class="p">(</span><span class="nb">int</span><span class="p">,</span> <span class="nb">float</span><span class="p">,</span> <span class="nb">complex</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">number</span><span class="p">)</span>
+<span class="n">UNION_ALLOWED_NUMERICAL_TYPES</span> <span class="o">=</span> <span class="n">Union</span><span class="p">[</span><span class="nb">int</span><span class="p">,</span> <span class="nb">float</span><span class="p">,</span> <span class="nb">complex</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">number</span><span class="p">]</span>
+
+<div class="viewcode-block" id="keys_to_floats"><a class="viewcode-back" href="../../../dicts.html#binarycpython.utils.dicts.keys_to_floats">[docs]</a><span class="k">def</span> <span class="nf">keys_to_floats</span><span class="p">(</span><span class="n">input_dict</span><span class="p">:</span> <span class="nb">dict</span><span class="p">)</span> <span class="o">-></span> <span class="nb">dict</span><span class="p">:</span>
<span class="sd">"""</span>
<span class="sd"> Function to convert all the keys of the dictionary to float to float</span>
<span class="sd"> we need to convert keys to floats:</span>
-<span class="sd"> this is ~ a factor 10 faster than David's recursive_change_key_to_float routine, probably because this version only does the float conversion, nothing else.</span>
-<span class="sd"> """</span>
-
- <span class="c1"># assumes nested dicts ...</span>
- <span class="c1"># new_data = {}</span>
+<span class="sd"> this is ~ a factor 10 faster than David's ``recursive_change_key_to_float`` routine, probably because this version only does the float conversion, nothing else.</span>
+<span class="sd"> </span>
+<span class="sd"> Args:</span>
+<span class="sd"> input_dict: dict of which we want to turn all the keys to float types if possible</span>
- <span class="c1"># but this copies the variable type, but has some</span>
- <span class="c1"># pointless copying</span>
- <span class="c1"># new_data = copy.copy(json_data)</span>
- <span class="c1"># new_data.clear()</span>
+<span class="sd"> Returns:</span>
+<span class="sd"> new_dict: dict of which the keys have been turned to float types where possible</span>
+<span class="sd"> """</span>
<span class="c1"># this adopts the type correctly *and* is fast</span>
- <span class="n">new_data</span> <span class="o">=</span> <span class="nb">type</span><span class="p">(</span><span class="n">json_data</span><span class="p">)()</span>
+ <span class="n">new_dict</span> <span class="o">=</span> <span class="nb">type</span><span class="p">(</span><span class="n">input_dict</span><span class="p">)()</span>
- <span class="k">for</span> <span class="n">k</span><span class="p">,</span> <span class="n">v</span> <span class="ow">in</span> <span class="n">json_data</span><span class="o">.</span><span class="n">items</span><span class="p">():</span>
+ <span class="k">for</span> <span class="n">k</span><span class="p">,</span> <span class="n">v</span> <span class="ow">in</span> <span class="n">input_dict</span><span class="o">.</span><span class="n">items</span><span class="p">():</span>
<span class="c1"># convert key to a float, if we can</span>
<span class="c1"># otherwise leave as is</span>
<span class="k">try</span><span class="p">:</span>
@@ -110,7 +114,7 @@
<span class="c1"># act on value(s)</span>
<span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">v</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
<span class="c1"># list data</span>
- <span class="n">new_data</span><span class="p">[</span><span class="n">newkey</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span>
+ <span class="n">new_dict</span><span class="p">[</span><span class="n">newkey</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span>
<span class="n">keys_to_floats</span><span class="p">(</span><span class="n">item</span><span class="p">)</span>
<span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">item</span><span class="p">,</span> <span class="n">collections</span><span class="o">.</span><span class="n">abc</span><span class="o">.</span><span class="n">Mapping</span><span class="p">)</span>
<span class="k">else</span> <span class="n">item</span>
@@ -118,20 +122,27 @@
<span class="p">]</span>
<span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">v</span><span class="p">,</span> <span class="n">collections</span><span class="o">.</span><span class="n">abc</span><span class="o">.</span><span class="n">Mapping</span><span class="p">):</span>
<span class="c1"># dict, ordereddict, etc. data</span>
- <span class="n">new_data</span><span class="p">[</span><span class="n">newkey</span><span class="p">]</span> <span class="o">=</span> <span class="n">keys_to_floats</span><span class="p">(</span><span class="n">v</span><span class="p">)</span>
+ <span class="n">new_dict</span><span class="p">[</span><span class="n">newkey</span><span class="p">]</span> <span class="o">=</span> <span class="n">keys_to_floats</span><span class="p">(</span><span class="n">v</span><span class="p">)</span>
<span class="k">else</span><span class="p">:</span>
<span class="c1"># assume all other data are scalars</span>
- <span class="n">new_data</span><span class="p">[</span><span class="n">newkey</span><span class="p">]</span> <span class="o">=</span> <span class="n">v</span>
+ <span class="n">new_dict</span><span class="p">[</span><span class="n">newkey</span><span class="p">]</span> <span class="o">=</span> <span class="n">v</span>
- <span class="k">return</span> <span class="n">new_data</span></div>
+ <span class="k">return</span> <span class="n">new_dict</span></div>
-<div class="viewcode-block" id="recursive_change_key_to_float"><a class="viewcode-back" href="../../../dicts.html#binarycpython.utils.dicts.recursive_change_key_to_float">[docs]</a><span class="k">def</span> <span class="nf">recursive_change_key_to_float</span><span class="p">(</span><span class="n">input_dict</span><span class="p">):</span>
+<div class="viewcode-block" id="recursive_change_key_to_float"><a class="viewcode-back" href="../../../dicts.html#binarycpython.utils.dicts.recursive_change_key_to_float">[docs]</a><span class="k">def</span> <span class="nf">recursive_change_key_to_float</span><span class="p">(</span><span class="n">input_dict</span><span class="p">:</span> <span class="nb">dict</span><span class="p">)</span> <span class="o">-></span> <span class="nb">dict</span><span class="p">:</span>
<span class="sd">"""</span>
<span class="sd"> Function to recursively change the key to float</span>
<span class="sd"> This only works if the dict contains just sub-dicts or numbers/strings.</span>
+
<span class="sd"> Does not work with lists as values</span>
+
+<span class="sd"> Args:</span>
+<span class="sd"> input_dict: dict of which we want to turn all the keys to float types if possible</span>
+
+<span class="sd"> Returns:</span>
+<span class="sd"> new_dict: dict of which the keys have been turned to float types where possible</span>
<span class="sd"> """</span>
<span class="n">new_dict</span> <span class="o">=</span> <span class="n">collections</span><span class="o">.</span><span class="n">OrderedDict</span><span class="p">()</span>
@@ -153,26 +164,36 @@
<span class="k">return</span> <span class="n">new_dict</span></div>
-<div class="viewcode-block" id="recursive_change_key_to_string"><a class="viewcode-back" href="../../../dicts.html#binarycpython.utils.dicts.recursive_change_key_to_string">[docs]</a><span class="k">def</span> <span class="nf">recursive_change_key_to_string</span><span class="p">(</span><span class="n">input_dict</span><span class="p">,</span> <span class="n">custom_format</span><span class="o">=</span><span class="s2">"</span><span class="si">{:g}</span><span class="s2">"</span><span class="p">):</span>
+<div class="viewcode-block" id="recursive_change_key_to_string"><a class="viewcode-back" href="../../../dicts.html#binarycpython.utils.dicts.recursive_change_key_to_string">[docs]</a><span class="k">def</span> <span class="nf">recursive_change_key_to_string</span><span class="p">(</span><span class="n">input_dict</span><span class="p">:</span> <span class="nb">dict</span><span class="p">,</span> <span class="n">custom_format</span><span class="p">:</span> <span class="nb">str</span> <span class="o">=</span> <span class="s2">"</span><span class="si">{:g}</span><span class="s2">"</span><span class="p">):</span>
<span class="sd">"""</span>
-<span class="sd"> Function to recursively change the key back to a string but this time in a format that we decide</span>
+<span class="sd"> Function to recursively change the key back to a string but this time in a format that we decide. We'll try to turn a string key into a float key before formatting the key</span>
+
+<span class="sd"> Args:</span>
+<span class="sd"> input_dict: dict of which we want to turn all the keys to string types (with a custom format)</span>
+<span class="sd"> custom_format: custom format used when turning the key to strings</span>
+
+<span class="sd"> Returns:</span>
+<span class="sd"> new_dict: dict of which the keys have been turned to string types where possible</span>
<span class="sd"> """</span>
<span class="n">new_dict</span> <span class="o">=</span> <span class="n">collections</span><span class="o">.</span><span class="n">OrderedDict</span><span class="p">()</span>
<span class="k">for</span> <span class="n">key</span> <span class="ow">in</span> <span class="n">input_dict</span><span class="p">:</span>
+ <span class="c1"># Try to turn into a float</span>
+ <span class="k">try</span><span class="p">:</span>
+ <span class="n">string_key</span> <span class="o">=</span> <span class="nb">float</span><span class="p">(</span><span class="n">key</span><span class="p">)</span>
+ <span class="k">except</span> <span class="ne">ValueError</span><span class="p">:</span>
+ <span class="n">string_key</span> <span class="o">=</span> <span class="n">key</span>
+
+ <span class="c1"># Turn into string with new format</span>
+ <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">string_key</span><span class="p">,</span> <span class="nb">str</span><span class="p">):</span>
+ <span class="n">string_key</span> <span class="o">=</span> <span class="n">custom_format</span><span class="o">.</span><span class="n">format</span><span class="p">(</span><span class="n">string_key</span><span class="p">)</span>
+
+ <span class="c1"># If dictionary type, call function again</span>
<span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">input_dict</span><span class="p">[</span><span class="n">key</span><span class="p">],</span> <span class="p">(</span><span class="nb">dict</span><span class="p">,</span> <span class="n">collections</span><span class="o">.</span><span class="n">OrderedDict</span><span class="p">)):</span>
- <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">key</span><span class="p">,</span> <span class="p">(</span><span class="nb">int</span><span class="p">,</span> <span class="nb">float</span><span class="p">)):</span>
- <span class="n">string_key</span> <span class="o">=</span> <span class="n">custom_format</span><span class="o">.</span><span class="n">format</span><span class="p">(</span><span class="n">key</span><span class="p">)</span>
- <span class="n">new_dict</span><span class="p">[</span><span class="n">string_key</span><span class="p">]</span> <span class="o">=</span> <span class="n">recursive_change_key_to_string</span><span class="p">(</span><span class="n">input_dict</span><span class="p">[</span><span class="n">key</span><span class="p">])</span>
- <span class="k">else</span><span class="p">:</span>
- <span class="n">new_dict</span><span class="p">[</span><span class="n">key</span><span class="p">]</span> <span class="o">=</span> <span class="n">recursive_change_key_to_string</span><span class="p">(</span><span class="n">input_dict</span><span class="p">[</span><span class="n">key</span><span class="p">])</span>
+ <span class="n">new_dict</span><span class="p">[</span><span class="n">string_key</span><span class="p">]</span> <span class="o">=</span> <span class="n">recursive_change_key_to_string</span><span class="p">(</span><span class="n">input_dict</span><span class="p">[</span><span class="n">key</span><span class="p">],</span> <span class="n">custom_format</span><span class="p">)</span>
<span class="k">else</span><span class="p">:</span>
- <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">key</span><span class="p">,</span> <span class="p">(</span><span class="nb">int</span><span class="p">,</span> <span class="nb">float</span><span class="p">)):</span>
- <span class="n">string_key</span> <span class="o">=</span> <span class="n">custom_format</span><span class="o">.</span><span class="n">format</span><span class="p">(</span><span class="n">key</span><span class="p">)</span>
- <span class="n">new_dict</span><span class="p">[</span><span class="n">string_key</span><span class="p">]</span> <span class="o">=</span> <span class="n">input_dict</span><span class="p">[</span><span class="n">key</span><span class="p">]</span>
- <span class="k">else</span><span class="p">:</span>
- <span class="n">new_dict</span><span class="p">[</span><span class="n">key</span><span class="p">]</span> <span class="o">=</span> <span class="n">input_dict</span><span class="p">[</span><span class="n">key</span><span class="p">]</span>
+ <span class="n">new_dict</span><span class="p">[</span><span class="n">string_key</span><span class="p">]</span> <span class="o">=</span> <span class="n">input_dict</span><span class="p">[</span><span class="n">key</span><span class="p">]</span>
<span class="k">return</span> <span class="n">new_dict</span></div>
@@ -203,22 +224,22 @@
<span class="k">return</span> <span class="n">dic</span><span class="p">[</span><span class="n">keys</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]]</span>
-<span class="k">def</span> <span class="nf">_recursive_normalize_floats</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">d</span><span class="p">,</span> <span class="n">const</span><span class="p">,</span> <span class="n">parent</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">ignore</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+<span class="k">def</span> <span class="nf">_recursive_normalize_floats</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">input_dict</span><span class="p">,</span> <span class="n">factor</span><span class="p">,</span> <span class="n">parent</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">ignore</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
<span class="sd">"""</span>
-<span class="sd"> function to walk through the dictionary, multiplying only float values by a const</span>
+<span class="sd"> Function to walk through the dictionary, multiplying only float values by a factor</span>
<span class="sd"> """</span>
<span class="k">if</span> <span class="ow">not</span> <span class="n">parent</span><span class="p">:</span>
- <span class="n">parent</span> <span class="o">=</span> <span class="n">d</span>
+ <span class="n">parent</span> <span class="o">=</span> <span class="n">input_dict</span>
- <span class="k">for</span> <span class="n">k</span><span class="p">,</span> <span class="n">v</span> <span class="ow">in</span> <span class="n">d</span><span class="o">.</span><span class="n">items</span><span class="p">():</span>
+ <span class="k">for</span> <span class="n">k</span><span class="p">,</span> <span class="n">v</span> <span class="ow">in</span> <span class="n">input_dict</span><span class="o">.</span><span class="n">items</span><span class="p">():</span>
<span class="k">if</span> <span class="n">ignore</span> <span class="ow">and</span> <span class="n">k</span> <span class="ow">in</span> <span class="n">ignore</span><span class="p">:</span>
<span class="k">continue</span>
<span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">v</span><span class="p">,</span> <span class="nb">float</span><span class="p">):</span>
<span class="n">path</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">k</span><span class="p">)</span>
- <span class="c1"># must be a float, multiply by the constant</span>
- <span class="n">_nested_set</span><span class="p">(</span><span class="n">parent</span><span class="p">,</span> <span class="n">path</span><span class="p">,</span> <span class="n">v</span> <span class="o">*</span> <span class="n">const</span><span class="p">)</span>
+ <span class="c1"># must be a float, multiply by the factor</span>
+ <span class="n">_nested_set</span><span class="p">(</span><span class="n">parent</span><span class="p">,</span> <span class="n">path</span><span class="p">,</span> <span class="n">v</span> <span class="o">*</span> <span class="n">factor</span><span class="p">)</span>
<span class="n">path</span><span class="o">.</span><span class="n">pop</span><span class="p">()</span>
<span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">v</span><span class="p">,</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">path</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">k</span><span class="p">)</span>
@@ -233,7 +254,7 @@
<span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">v</span><span class="p">,</span> <span class="n">collections</span><span class="o">.</span><span class="n">abc</span><span class="o">.</span><span class="n">Mapping</span><span class="p">):</span>
<span class="n">path</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">k</span><span class="p">)</span>
<span class="c1"># nested dict</span>
- <span class="n">_recursive_normalize_floats</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">v</span><span class="p">,</span> <span class="n">const</span><span class="p">,</span> <span class="n">parent</span><span class="o">=</span><span class="n">parent</span><span class="p">)</span>
+ <span class="n">_recursive_normalize_floats</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">v</span><span class="p">,</span> <span class="n">factor</span><span class="p">,</span> <span class="n">parent</span><span class="o">=</span><span class="n">parent</span><span class="p">)</span>
<span class="n">path</span><span class="o">.</span><span class="n">pop</span><span class="p">()</span>
<span class="k">else</span><span class="p">:</span>
<span class="nb">print</span><span class="p">(</span>
@@ -243,17 +264,17 @@
<span class="p">)</span>
-<div class="viewcode-block" id="multiply_float_values"><a class="viewcode-back" href="../../../dicts.html#binarycpython.utils.dicts.multiply_float_values">[docs]</a><span class="k">def</span> <span class="nf">multiply_float_values</span><span class="p">(</span><span class="n">d</span><span class="p">,</span> <span class="n">const</span><span class="p">,</span> <span class="n">ignore</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+<div class="viewcode-block" id="multiply_float_values"><a class="viewcode-back" href="../../../dicts.html#binarycpython.utils.dicts.multiply_float_values">[docs]</a><span class="k">def</span> <span class="nf">multiply_float_values</span><span class="p">(</span><span class="n">input_dict</span><span class="p">,</span> <span class="n">factor</span><span class="p">,</span> <span class="n">ignore</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
<span class="sd">"""</span>
<span class="sd"> A function to recursively multiply values of a (nested) dictionary that are floats by a constant. Nested dictionaries call this function recursively.</span>
<span class="sd"> Args:</span>
-<span class="sd"> d: the dictionary</span>
-<span class="sd"> const: the constant that multiplies float values</span>
+<span class="sd"> input_dict: the dictionary</span>
+<span class="sd"> factor: the constant that multiplies float values</span>
<span class="sd"> """</span>
<span class="n">path</span> <span class="o">=</span> <span class="p">[]</span>
- <span class="n">_recursive_normalize_floats</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">d</span><span class="p">,</span> <span class="n">const</span><span class="p">,</span> <span class="n">parent</span><span class="o">=</span><span class="n">d</span><span class="p">,</span> <span class="n">ignore</span><span class="o">=</span><span class="n">ignore</span><span class="p">)</span></div>
+ <span class="n">_recursive_normalize_floats</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">input_dict</span><span class="p">,</span> <span class="n">factor</span><span class="p">,</span> <span class="n">parent</span><span class="o">=</span><span class="n">input_dict</span><span class="p">,</span> <span class="n">ignore</span><span class="o">=</span><span class="n">ignore</span><span class="p">)</span></div>
<div class="viewcode-block" id="subtract_dicts"><a class="viewcode-back" href="../../../dicts.html#binarycpython.utils.dicts.subtract_dicts">[docs]</a><span class="k">def</span> <span class="nf">subtract_dicts</span><span class="p">(</span><span class="n">dict_1</span><span class="p">:</span> <span class="nb">dict</span><span class="p">,</span> <span class="n">dict_2</span><span class="p">:</span> <span class="nb">dict</span><span class="p">)</span> <span class="o">-></span> <span class="nb">dict</span><span class="p">:</span>
@@ -281,15 +302,12 @@
<span class="sd"> dict_2: second dictionary</span>
<span class="sd"> Returns:</span>
-<span class="sd"> Subtracted dictionary, i.e. ``dict_1 - dict_2`` </span>
+<span class="sd"> Subtracted dictionary, i.e. ``dict_1 - dict_2``</span>
<span class="sd"> """</span>
<span class="c1"># Set up new dict</span>
<span class="n">new_dict</span> <span class="o">=</span> <span class="p">{}</span>
- <span class="c1"># Define allowed numerical types</span>
- <span class="n">ALLOWED_NUMERICAL_TYPES</span> <span class="o">=</span> <span class="p">(</span><span class="nb">float</span><span class="p">,</span> <span class="nb">int</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span>
-
<span class="c1">#</span>
<span class="n">keys_1</span> <span class="o">=</span> <span class="n">dict_1</span><span class="o">.</span><span class="n">keys</span><span class="p">()</span>
<span class="n">keys_2</span> <span class="o">=</span> <span class="n">dict_2</span><span class="o">.</span><span class="n">keys</span><span class="p">()</span>
@@ -464,9 +482,15 @@
<span class="k">return</span> <span class="n">structure_dict</span></div>
-<div class="viewcode-block" id="count_keys_recursive"><a class="viewcode-back" href="../../../dicts.html#binarycpython.utils.dicts.count_keys_recursive">[docs]</a><span class="k">def</span> <span class="nf">count_keys_recursive</span><span class="p">(</span><span class="n">input_dict</span><span class="p">):</span>
+<div class="viewcode-block" id="count_keys_recursive"><a class="viewcode-back" href="../../../dicts.html#binarycpython.utils.dicts.count_keys_recursive">[docs]</a><span class="k">def</span> <span class="nf">count_keys_recursive</span><span class="p">(</span><span class="n">input_dict</span><span class="p">:</span> <span class="nb">dict</span><span class="p">)</span> <span class="o">-></span> <span class="nb">int</span><span class="p">:</span>
<span class="sd">"""</span>
-<span class="sd"> Function to count the total number of keys in a dictionary</span>
+<span class="sd"> Function to recursively count the total number of keys in a dictionary.</span>
+
+<span class="sd"> Args:</span>
+<span class="sd"> input_dict: dictionary that we want to know the total amount of keys from.</span>
+
+<span class="sd"> Returns:</span>
+<span class="sd"> local_count: total amount of keys within the input_dict.</span>
<span class="sd"> """</span>
<span class="n">local_count</span> <span class="o">=</span> <span class="mi">0</span>
@@ -474,6 +498,7 @@
<span class="n">local_count</span> <span class="o">+=</span> <span class="mi">1</span>
<span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">input_dict</span><span class="p">[</span><span class="n">key</span><span class="p">],</span> <span class="p">(</span><span class="nb">dict</span><span class="p">,</span> <span class="n">collections</span><span class="o">.</span><span class="n">OrderedDict</span><span class="p">)):</span>
<span class="n">local_count</span> <span class="o">+=</span> <span class="n">count_keys_recursive</span><span class="p">(</span><span class="n">input_dict</span><span class="p">[</span><span class="n">key</span><span class="p">])</span>
+
<span class="k">return</span> <span class="n">local_count</span></div>
@@ -532,8 +557,8 @@
<span class="c1"># If they keys are not the same, it depends on their type whether we still deal with them at all, or just raise an error</span>
<span class="k">if</span> <span class="ow">not</span> <span class="nb">type</span><span class="p">(</span><span class="n">dict_1</span><span class="p">[</span><span class="n">key</span><span class="p">])</span> <span class="ow">is</span> <span class="nb">type</span><span class="p">(</span><span class="n">dict_2</span><span class="p">[</span><span class="n">key</span><span class="p">]):</span>
<span class="c1"># Exceptions: numbers can be added</span>
- <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">dict_1</span><span class="p">[</span><span class="n">key</span><span class="p">],</span> <span class="p">(</span><span class="nb">int</span><span class="p">,</span> <span class="nb">float</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">))</span> <span class="ow">and</span> <span class="nb">isinstance</span><span class="p">(</span>
- <span class="n">dict_2</span><span class="p">[</span><span class="n">key</span><span class="p">],</span> <span class="p">(</span><span class="nb">int</span><span class="p">,</span> <span class="nb">float</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span>
+ <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">dict_1</span><span class="p">[</span><span class="n">key</span><span class="p">],</span> <span class="n">ALLOWED_NUMERICAL_TYPES</span><span class="p">)</span> <span class="ow">and</span> <span class="nb">isinstance</span><span class="p">(</span>
+ <span class="n">dict_2</span><span class="p">[</span><span class="n">key</span><span class="p">],</span> <span class="n">ALLOWED_NUMERICAL_TYPES</span>
<span class="p">):</span>
<span class="n">new_dict</span><span class="p">[</span><span class="n">key</span><span class="p">]</span> <span class="o">=</span> <span class="n">dict_1</span><span class="p">[</span><span class="n">key</span><span class="p">]</span> <span class="o">+</span> <span class="n">dict_2</span><span class="p">[</span><span class="n">key</span><span class="p">]</span>
@@ -685,9 +710,7 @@
<span class="c1"># See whether the types are actually the same</span>
<span class="k">if</span> <span class="ow">not</span> <span class="nb">type</span><span class="p">(</span><span class="n">dict_1</span><span class="p">[</span><span class="n">key</span><span class="p">])</span> <span class="ow">is</span> <span class="nb">type</span><span class="p">(</span><span class="n">dict_2</span><span class="p">[</span><span class="n">key</span><span class="p">]):</span>
<span class="c1"># Exceptions:</span>
- <span class="k">if</span> <span class="p">(</span><span class="nb">type</span><span class="p">(</span><span class="n">dict_1</span><span class="p">[</span><span class="n">key</span><span class="p">])</span> <span class="ow">in</span> <span class="p">[</span><span class="nb">int</span><span class="p">,</span> <span class="nb">float</span><span class="p">])</span> <span class="ow">and</span> <span class="p">(</span>
- <span class="nb">type</span><span class="p">(</span><span class="n">dict_2</span><span class="p">[</span><span class="n">key</span><span class="p">])</span> <span class="ow">in</span> <span class="p">[</span><span class="nb">int</span><span class="p">,</span> <span class="nb">float</span><span class="p">]</span>
- <span class="p">):</span>
+ <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">dict_1</span><span class="p">[</span><span class="n">key</span><span class="p">],</span> <span class="n">ALLOWED_NUMERICAL_TYPES</span><span class="p">)</span> <span class="ow">and</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">dict_2</span><span class="p">[</span><span class="n">key</span><span class="p">],</span> <span class="n">ALLOWED_NUMERICAL_TYPES</span><span class="p">):</span>
<span class="n">new_dict</span><span class="p">[</span><span class="n">key</span><span class="p">]</span> <span class="o">=</span> <span class="n">dict_2</span><span class="p">[</span><span class="n">key</span><span class="p">]</span>
<span class="k">else</span><span class="p">:</span>
@@ -716,11 +739,20 @@
<span class="k">return</span> <span class="n">new_dict</span></div>
-<div class="viewcode-block" id="multiply_values_dict"><a class="viewcode-back" href="../../../dicts.html#binarycpython.utils.dicts.multiply_values_dict">[docs]</a><span class="k">def</span> <span class="nf">multiply_values_dict</span><span class="p">(</span><span class="n">input_dict</span><span class="p">,</span> <span class="n">factor</span><span class="p">):</span>
+<div class="viewcode-block" id="multiply_values_dict"><a class="viewcode-back" href="../../../dicts.html#binarycpython.utils.dicts.multiply_values_dict">[docs]</a><span class="k">def</span> <span class="nf">multiply_values_dict</span><span class="p">(</span><span class="n">input_dict</span><span class="p">:</span> <span class="nb">dict</span><span class="p">,</span> <span class="n">factor</span><span class="p">:</span> <span class="n">UNION_ALLOWED_NUMERICAL_TYPES</span><span class="p">):</span>
<span class="sd">"""</span>
<span class="sd"> Function that goes over dictionary recursively and multiplies the value if possible by a factor</span>
-<span class="sd"> If the key equals "general_info", the multiplication gets skipped</span>
+<span class="sd"> If the key equals "general_info", the multiplication gets skipped.</span>
+
+<span class="sd"> This function changes the values in-place, so the original dict is modified</span>
+
+<span class="sd"> Args:</span>
+<span class="sd"> input_dict: dictionary of which we want to multiply the values by <factor></span>
+<span class="sd"> factor: factor that we want to multiply the values with</span>
+
+<span class="sd"> Returns:</span>
+<span class="sd"> multiplied_dict: dict containing the multiplied keys. This is the same object as we passed as input.</span>
<span class="sd"> """</span>
<span class="k">for</span> <span class="n">key</span> <span class="ow">in</span> <span class="n">input_dict</span><span class="p">:</span>
@@ -734,7 +766,7 @@
<span class="k">return</span> <span class="n">input_dict</span></div>
-<div class="viewcode-block" id="custom_sort_dict"><a class="viewcode-back" href="../../../dicts.html#binarycpython.utils.dicts.custom_sort_dict">[docs]</a><span class="k">def</span> <span class="nf">custom_sort_dict</span><span class="p">(</span><span class="n">input_dict</span><span class="p">):</span>
+<div class="viewcode-block" id="custom_sort_dict"><a class="viewcode-back" href="../../../dicts.html#binarycpython.utils.dicts.custom_sort_dict">[docs]</a><span class="k">def</span> <span class="nf">custom_sort_dict</span><span class="p">(</span><span class="n">input_dict</span><span class="p">:</span> <span class="nb">dict</span><span class="p">)</span> <span class="o">-></span> <span class="nb">dict</span><span class="p">:</span>
<span class="sd">"""</span>
<span class="sd"> Returns a dictionary that is ordered, but can handle numbers better than normal OrderedDict</span>
@@ -744,6 +776,9 @@
<span class="sd"> This is done until all the keys are sorted.</span>
<span class="sd"> All objects other than dictionary types are directly return as they are</span>
+
+<span class="sd"> Args:</span>
+<span class="sd"> input_dict: object which will be sorted (and returned as a new object) if its a dictionary, otherwise it will be returned without change.</span>
<span class="sd"> """</span>
<span class="c1"># If the new input is a dictionary, then try to sort it</span>
@@ -873,16 +908,24 @@
<span class="k">return</span> <span class="n">opts</span></div>
-<div class="viewcode-block" id="normalize_dict"><a class="viewcode-back" href="../../../dicts.html#binarycpython.utils.dicts.normalize_dict">[docs]</a><span class="k">def</span> <span class="nf">normalize_dict</span><span class="p">(</span><span class="n">result_dict</span><span class="p">):</span>
+<div class="viewcode-block" id="normalize_dict"><a class="viewcode-back" href="../../../dicts.html#binarycpython.utils.dicts.normalize_dict">[docs]</a><span class="k">def</span> <span class="nf">normalize_dict</span><span class="p">(</span><span class="n">result_dict</span><span class="p">:</span> <span class="nb">dict</span><span class="p">)</span> <span class="o">-></span> <span class="nb">dict</span><span class="p">:</span>
<span class="sd">"""</span>
-<span class="sd"> Function to normalise a dictionary</span>
+<span class="sd"> Function to normalise a dictionary by summing all the values and dividing each term by the total. Designed for dictionary containing only positive values.</span>
+
+<span class="sd"> Args:</span>
+<span class="sd"> result_dict: dictionary where values should be positive number objects</span>
+
+<span class="sd"> Returns:</span>
+<span class="sd"> normalized_dict: dictionary where the values are normalised to sum to 1</span>
<span class="sd"> """</span>
+ <span class="n">normalized_dict</span> <span class="o">=</span> <span class="p">{}</span>
+
<span class="n">sum_result</span> <span class="o">=</span> <span class="nb">sum</span><span class="p">(</span><span class="nb">list</span><span class="p">(</span><span class="n">result_dict</span><span class="o">.</span><span class="n">values</span><span class="p">()))</span>
<span class="k">for</span> <span class="n">key</span> <span class="ow">in</span> <span class="n">result_dict</span><span class="o">.</span><span class="n">keys</span><span class="p">():</span>
- <span class="n">result_dict</span><span class="p">[</span><span class="n">key</span><span class="p">]</span> <span class="o">=</span> <span class="n">result_dict</span><span class="p">[</span><span class="n">key</span><span class="p">]</span> <span class="o">/</span> <span class="n">sum_result</span>
+ <span class="n">normalized_dict</span><span class="p">[</span><span class="n">key</span><span class="p">]</span> <span class="o">=</span> <span class="n">result_dict</span><span class="p">[</span><span class="n">key</span><span class="p">]</span> <span class="o">/</span> <span class="n">sum_result</span>
- <span class="k">return</span> <span class="n">result_dict</span></div>
+ <span class="k">return</span> <span class="n">normalized_dict</span></div>
</pre></div>
</div>
@@ -900,7 +943,7 @@
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/_modules/binarycpython/utils/ensemble.html b/docs/build/html/_modules/binarycpython/utils/ensemble.html
index ed4d9eb72b36b2b2beb28bcb3fcf6067dbd52b80..23e5c2120989ba551be806abecf091e3e79626cb 100644
--- a/docs/build/html/_modules/binarycpython/utils/ensemble.html
+++ b/docs/build/html/_modules/binarycpython/utils/ensemble.html
@@ -270,11 +270,11 @@
<span class="c1"># data = recursive_change_key_to_float(data) # 61s</span>
<span class="n">data</span> <span class="o">=</span> <span class="n">keys_to_floats</span><span class="p">(</span><span class="n">data</span><span class="p">)</span> <span class="c1"># 6.94s</span>
- <span class="k">if</span> <span class="n">timing</span><span class="p">:</span>
- <span class="nb">print</span><span class="p">(</span>
- <span class="s2">"</span><span class="se">\n\n</span><span class="s2">Took </span><span class="si">{}</span><span class="s2"> s to convert floats</span><span class="se">\n\n</span><span class="s2">"</span><span class="o">.</span><span class="n">format</span><span class="p">(</span><span class="n">time</span><span class="o">.</span><span class="n">time</span><span class="p">()</span> <span class="o">-</span> <span class="n">tstart</span><span class="p">),</span>
- <span class="n">flush</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span>
- <span class="p">)</span>
+ <span class="k">if</span> <span class="n">timing</span><span class="p">:</span>
+ <span class="nb">print</span><span class="p">(</span>
+ <span class="s2">"</span><span class="se">\n\n</span><span class="s2">Took </span><span class="si">{}</span><span class="s2"> s to convert floats</span><span class="se">\n\n</span><span class="s2">"</span><span class="o">.</span><span class="n">format</span><span class="p">(</span><span class="n">time</span><span class="o">.</span><span class="n">time</span><span class="p">()</span> <span class="o">-</span> <span class="n">tstart</span><span class="p">),</span>
+ <span class="n">flush</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span>
+ <span class="p">)</span>
<span class="c1"># return data</span>
<span class="k">return</span> <span class="n">data</span></div>
@@ -337,10 +337,10 @@
<span class="sd"> raw_output: raw output of the ensemble dump by binary_c</span>
<span class="sd"> Returns:</span>
-<span class="sd"> json.loads(raw_output, cls=binarycDecoder)</span>
+<span class="sd"> json.loads(raw_output, cls=BinarycDecoder)</span>
<span class="sd"> """</span>
- <span class="k">return</span> <span class="n">json</span><span class="o">.</span><span class="n">loads</span><span class="p">(</span><span class="n">raw_output</span><span class="p">,</span> <span class="bp">cls</span><span class="o">=</span><span class="n">binarycDecoder</span><span class="p">)</span></div>
+ <span class="k">return</span> <span class="n">json</span><span class="o">.</span><span class="n">loads</span><span class="p">(</span><span class="n">raw_output</span><span class="p">,</span> <span class="bp">cls</span><span class="o">=</span><span class="n">BinarycDecoder</span><span class="p">)</span></div>
<div class="viewcode-block" id="binaryc_json_serializer"><a class="viewcode-back" href="../../../ensemble.html#binarycpython.utils.ensemble.binaryc_json_serializer">[docs]</a><span class="k">def</span> <span class="nf">binaryc_json_serializer</span><span class="p">(</span><span class="n">obj</span><span class="p">:</span> <span class="n">Any</span><span class="p">)</span> <span class="o">-></span> <span class="n">Any</span><span class="p">:</span>
@@ -362,12 +362,12 @@
<span class="k">return</span> <span class="n">obj</span></div>
-<div class="viewcode-block" id="binarycDecoder"><a class="viewcode-back" href="../../../ensemble.html#binarycpython.utils.ensemble.binarycDecoder">[docs]</a><span class="k">class</span> <span class="nc">binarycDecoder</span><span class="p">(</span><span class="n">json</span><span class="o">.</span><span class="n">JSONDecoder</span><span class="p">):</span>
+<div class="viewcode-block" id="BinarycDecoder"><a class="viewcode-back" href="../../../ensemble.html#binarycpython.utils.ensemble.BinarycDecoder">[docs]</a><span class="k">class</span> <span class="nc">BinarycDecoder</span><span class="p">(</span><span class="n">json</span><span class="o">.</span><span class="n">JSONDecoder</span><span class="p">):</span>
<span class="sd">"""</span>
<span class="sd"> Custom decoder to transform the numbers that are strings to actual floats</span>
<span class="sd"> """</span>
-<div class="viewcode-block" id="binarycDecoder.decode"><a class="viewcode-back" href="../../../ensemble.html#binarycpython.utils.ensemble.binarycDecoder.decode">[docs]</a> <span class="k">def</span> <span class="nf">decode</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">s</span><span class="p">):</span>
+<div class="viewcode-block" id="BinarycDecoder.decode"><a class="viewcode-back" href="../../../ensemble.html#binarycpython.utils.ensemble.BinarycDecoder.decode">[docs]</a> <span class="k">def</span> <span class="nf">decode</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">s</span><span class="p">):</span>
<span class="sd">"""</span>
<span class="sd"> Entry point function for decoding</span>
<span class="sd"> """</span>
@@ -400,15 +400,16 @@
<span class="k">return</span> <span class="n">o</span></div>
-<div class="viewcode-block" id="BinaryCEncoder"><a class="viewcode-back" href="../../../ensemble.html#binarycpython.utils.ensemble.BinaryCEncoder">[docs]</a><span class="k">class</span> <span class="nc">BinaryCEncoder</span><span class="p">(</span><span class="n">json</span><span class="o">.</span><span class="n">JSONEncoder</span><span class="p">):</span>
+<div class="viewcode-block" id="BinarycEncoder"><a class="viewcode-back" href="../../../ensemble.html#binarycpython.utils.ensemble.BinarycEncoder">[docs]</a><span class="k">class</span> <span class="nc">BinarycEncoder</span><span class="p">(</span><span class="n">json</span><span class="o">.</span><span class="n">JSONEncoder</span><span class="p">):</span>
<span class="sd">"""</span>
<span class="sd"> Encoding class function to attempt to convert things to strings.</span>
<span class="sd"> """</span>
-<div class="viewcode-block" id="BinaryCEncoder.default"><a class="viewcode-back" href="../../../ensemble.html#binarycpython.utils.ensemble.BinaryCEncoder.default">[docs]</a> <span class="k">def</span> <span class="nf">default</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">o</span><span class="p">):</span>
+<div class="viewcode-block" id="BinarycEncoder.default"><a class="viewcode-back" href="../../../ensemble.html#binarycpython.utils.ensemble.BinarycEncoder.default">[docs]</a> <span class="k">def</span> <span class="nf">default</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">o</span><span class="p">):</span>
<span class="sd">"""</span>
<span class="sd"> Converting function. Well, could be more precise. look at the JSON module</span>
<span class="sd"> """</span>
+
<span class="k">try</span><span class="p">:</span>
<span class="n">str_repr</span> <span class="o">=</span> <span class="nb">str</span><span class="p">(</span><span class="n">o</span><span class="p">)</span>
<span class="k">except</span> <span class="ne">TypeError</span><span class="p">:</span>
@@ -467,7 +468,7 @@
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/_modules/binarycpython/utils/functions.html b/docs/build/html/_modules/binarycpython/utils/functions.html
index 5bda282427cdb41db5beeec55fc2a177ae84503e..2c2a85d905b3464b278d90ae4ab9ba6bd16a4383 100644
--- a/docs/build/html/_modules/binarycpython/utils/functions.html
+++ b/docs/build/html/_modules/binarycpython/utils/functions.html
@@ -1287,7 +1287,7 @@
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/_modules/binarycpython/utils/grid.html b/docs/build/html/_modules/binarycpython/utils/grid.html
index 0fb0d4c0c6e7d56a7179a420fde609aab8b3864d..16be3244bfc164866c17de3a7bc0424ef23389ef 100644
--- a/docs/build/html/_modules/binarycpython/utils/grid.html
+++ b/docs/build/html/_modules/binarycpython/utils/grid.html
@@ -1611,13 +1611,13 @@
<span class="c1">######################</span>
<span class="c1"># Print status of runs</span>
<span class="c1"># save the current time (used often)</span>
- <span class="n">now</span> <span class="o">=</span> <span class="n">time</span><span class="o">.</span><span class="n">time</span><span class="p">()</span>
+ <span class="n">time_now</span> <span class="o">=</span> <span class="n">time</span><span class="o">.</span><span class="n">time</span><span class="p">()</span>
<span class="c1"># update memory use stats every log_dt seconds (not every time, this is likely a bit expensive)</span>
- <span class="k">if</span> <span class="n">now</span> <span class="o">></span> <span class="n">next_mem_update_time</span><span class="p">:</span>
+ <span class="k">if</span> <span class="n">time_now</span> <span class="o">></span> <span class="n">next_mem_update_time</span><span class="p">:</span>
<span class="n">m</span> <span class="o">=</span> <span class="n">mem_use</span><span class="p">()</span>
<span class="bp">self</span><span class="o">.</span><span class="n">shared_memory</span><span class="p">[</span><span class="s2">"memory_use_per_thread"</span><span class="p">][</span><span class="n">ID</span><span class="p">]</span> <span class="o">=</span> <span class="n">m</span>
- <span class="n">next_mem_update_time</span> <span class="o">=</span> <span class="n">now</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">grid_options</span><span class="p">[</span><span class="s2">"log_dt"</span><span class="p">]</span>
+ <span class="n">next_mem_update_time</span> <span class="o">=</span> <span class="n">time_now</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">grid_options</span><span class="p">[</span><span class="s2">"log_dt"</span><span class="p">]</span>
<span class="k">if</span> <span class="n">m</span> <span class="o">></span> <span class="bp">self</span><span class="o">.</span><span class="n">shared_memory</span><span class="p">[</span><span class="s2">"max_memory_use_per_thread"</span><span class="p">][</span><span class="n">ID</span><span class="p">]:</span>
<span class="bp">self</span><span class="o">.</span><span class="n">shared_memory</span><span class="p">[</span><span class="s2">"max_memory_use_per_thread"</span><span class="p">][</span><span class="n">ID</span><span class="p">]</span> <span class="o">=</span> <span class="n">m</span>
@@ -1628,16 +1628,16 @@
<span class="c1"># Check if we need to log info again</span>
<span class="c1"># TODO: Check if we can put this functionality elsewhere</span>
- <span class="k">if</span> <span class="n">now</span> <span class="o">></span> <span class="n">next_log_time</span><span class="p">:</span>
+ <span class="k">if</span> <span class="n">time_now</span> <span class="o">></span> <span class="n">next_log_time</span><span class="p">:</span>
<span class="c1"># we have exceeded the next log time : output and update timers</span>
<span class="c1"># Lock the threads. TODO: Do we need to release this?</span>
<span class="n">lock</span> <span class="o">=</span> <span class="n">multiprocessing</span><span class="o">.</span><span class="n">Lock</span><span class="p">()</span>
<span class="c1"># Do the printing itself</span>
- <span class="bp">self</span><span class="o">.</span><span class="n">vb1print</span><span class="p">(</span><span class="n">ID</span><span class="p">,</span> <span class="n">now</span><span class="p">,</span> <span class="n">system_number</span><span class="p">,</span> <span class="n">system_dict</span><span class="p">)</span>
+ <span class="bp">self</span><span class="o">.</span><span class="n">vb1print</span><span class="p">(</span><span class="n">ID</span><span class="p">,</span> <span class="n">time_now</span><span class="p">,</span> <span class="n">system_number</span><span class="p">,</span> <span class="n">system_dict</span><span class="p">)</span>
<span class="c1"># Set some values for next time</span>
- <span class="n">next_log_time</span> <span class="o">=</span> <span class="n">now</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">grid_options</span><span class="p">[</span><span class="s2">"log_dt"</span><span class="p">]</span>
+ <span class="n">next_log_time</span> <span class="o">=</span> <span class="n">time_now</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">grid_options</span><span class="p">[</span><span class="s2">"log_dt"</span><span class="p">]</span>
<span class="c1"># print("PREV ",self.shared_memory["prev_log_time"])</span>
<span class="c1"># print("N LOG STATS",self.shared_memory["n_saved_log_stats"].value)</span>
@@ -1655,7 +1655,7 @@
<span class="p">]</span>
<span class="c1"># set the current time and system number</span>
- <span class="bp">self</span><span class="o">.</span><span class="n">shared_memory</span><span class="p">[</span><span class="s2">"prev_log_time"</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">=</span> <span class="n">now</span>
+ <span class="bp">self</span><span class="o">.</span><span class="n">shared_memory</span><span class="p">[</span><span class="s2">"prev_log_time"</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">=</span> <span class="n">time_now</span>
<span class="bp">self</span><span class="o">.</span><span class="n">shared_memory</span><span class="p">[</span><span class="s2">"prev_log_system_number"</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">=</span> <span class="n">system_number</span>
<span class="c1"># increase the number of stats</span>
@@ -2469,7 +2469,7 @@
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/_modules/binarycpython/utils/plot_functions.html b/docs/build/html/_modules/binarycpython/utils/plot_functions.html
index edc3327bcf7a355a33bfcb752f23231e89a8e07f..edac88deb1bc0100573eca4cd3fc51e1ae26f770 100644
--- a/docs/build/html/_modules/binarycpython/utils/plot_functions.html
+++ b/docs/build/html/_modules/binarycpython/utils/plot_functions.html
@@ -713,7 +713,7 @@
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/_modules/binarycpython/utils/population_extensions/HPC.html b/docs/build/html/_modules/binarycpython/utils/population_extensions/HPC.html
index 2b31fe57657032d84566e5777cdef84e4796cabe..8208ba4e006f4ab626f3f8648984a46cee90d788 100644
--- a/docs/build/html/_modules/binarycpython/utils/population_extensions/HPC.html
+++ b/docs/build/html/_modules/binarycpython/utils/population_extensions/HPC.html
@@ -802,7 +802,7 @@
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/_modules/binarycpython/utils/population_extensions/Moe_di_Stefano_2017.html b/docs/build/html/_modules/binarycpython/utils/population_extensions/Moe_di_Stefano_2017.html
index 07fb1cc45534936a8bea942d1f1fe468593a0e45..b89f2b9791c239d8249c4fee8eb01cb3edec5735 100644
--- a/docs/build/html/_modules/binarycpython/utils/population_extensions/Moe_di_Stefano_2017.html
+++ b/docs/build/html/_modules/binarycpython/utils/population_extensions/Moe_di_Stefano_2017.html
@@ -1317,7 +1317,7 @@
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/_modules/binarycpython/utils/population_extensions/analytics.html b/docs/build/html/_modules/binarycpython/utils/population_extensions/analytics.html
index 0c630b38a772306534cd9c51f1e764d0bf24d16e..9b3e860045b7631074f69bb1d1e58fe0f2f3ced4 100644
--- a/docs/build/html/_modules/binarycpython/utils/population_extensions/analytics.html
+++ b/docs/build/html/_modules/binarycpython/utils/population_extensions/analytics.html
@@ -205,7 +205,7 @@
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/_modules/binarycpython/utils/population_extensions/cache.html b/docs/build/html/_modules/binarycpython/utils/population_extensions/cache.html
index fcf688fd0c3b99322656706fc5deb9bfaac9048f..c102d48a570df3fafed6c1070049aa35f5be9aa2 100644
--- a/docs/build/html/_modules/binarycpython/utils/population_extensions/cache.html
+++ b/docs/build/html/_modules/binarycpython/utils/population_extensions/cache.html
@@ -451,7 +451,7 @@
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/_modules/binarycpython/utils/population_extensions/condor.html b/docs/build/html/_modules/binarycpython/utils/population_extensions/condor.html
index a110a2bd754aebdef85ae275d75125778f1799ab..2da637e8e5f15199ac47f4754256cb433b228cbc 100644
--- a/docs/build/html/_modules/binarycpython/utils/population_extensions/condor.html
+++ b/docs/build/html/_modules/binarycpython/utils/population_extensions/condor.html
@@ -641,7 +641,7 @@
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/_modules/binarycpython/utils/population_extensions/dataIO.html b/docs/build/html/_modules/binarycpython/utils/population_extensions/dataIO.html
index e9ad8cbd64b1a38c15f0d96b57e57f9c1cdbbc60..a816bf532181c2f8398d9f648c165268b97edbbd 100644
--- a/docs/build/html/_modules/binarycpython/utils/population_extensions/dataIO.html
+++ b/docs/build/html/_modules/binarycpython/utils/population_extensions/dataIO.html
@@ -93,6 +93,7 @@
<span class="kn">from</span> <span class="nn">binarycpython.utils.ensemble</span> <span class="kn">import</span> <span class="p">(</span>
<span class="n">ensemble_file_type</span><span class="p">,</span>
+ <span class="n">ensemble_compression</span>
<span class="p">)</span>
<span class="kn">from</span> <span class="nn">binarycpython.utils.dicts</span> <span class="kn">import</span> <span class="p">(</span>
<span class="n">merge_dicts</span><span class="p">,</span>
@@ -431,8 +432,8 @@
<span class="p">)</span>
<span class="bp">self</span><span class="o">.</span><span class="n">exit</span><span class="p">(</span><span class="n">code</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
<span class="k">else</span><span class="p">:</span>
- <span class="n">f</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">open</span><span class="p">(</span><span class="n">output_file</span><span class="p">,</span> <span class="s2">"wt"</span><span class="p">,</span> <span class="n">encoding</span><span class="o">=</span><span class="n">encoding</span><span class="p">)</span>
<span class="k">if</span> <span class="n">file_type</span> <span class="o">==</span> <span class="s2">"JSON"</span><span class="p">:</span>
+ <span class="n">f</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">open</span><span class="p">(</span><span class="n">output_file</span><span class="p">,</span> <span class="s2">"wt"</span><span class="p">,</span> <span class="n">encoding</span><span class="o">=</span><span class="n">encoding</span><span class="p">)</span>
<span class="c1"># JSON output</span>
<span class="n">f</span><span class="o">.</span><span class="n">write</span><span class="p">(</span>
<span class="n">json</span><span class="o">.</span><span class="n">dumps</span><span class="p">(</span>
@@ -443,8 +444,11 @@
<span class="p">)</span>
<span class="p">)</span>
<span class="k">elif</span> <span class="n">file_type</span> <span class="o">==</span> <span class="s2">"msgpack"</span><span class="p">:</span>
+ <span class="n">f</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">open</span><span class="p">(</span><span class="n">output_file</span><span class="p">,</span> <span class="s2">"w"</span><span class="p">)</span> <span class="c1"># TODO: i think something is going wrong here. not sure but doing msgpack and .gz e.g gives an error about str input rather than bytes. i think this is because the self.open does not take into account that the msgpack stream requires different properties.</span>
+
<span class="c1"># msgpack output</span>
<span class="n">msgpack</span><span class="o">.</span><span class="n">dump</span><span class="p">(</span><span class="n">data</span><span class="p">,</span> <span class="n">f</span><span class="p">)</span>
+
<span class="n">f</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
<span class="nb">print</span><span class="p">(</span>
@@ -883,7 +887,7 @@
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/_modules/binarycpython/utils/population_extensions/distribution_functions.html b/docs/build/html/_modules/binarycpython/utils/population_extensions/distribution_functions.html
index 7106293a73680a7ef5d87e5f0b6ddb1680c0b4df..3e30a26ef4529b6db8f330916d90adb09940ef3d 100644
--- a/docs/build/html/_modules/binarycpython/utils/population_extensions/distribution_functions.html
+++ b/docs/build/html/_modules/binarycpython/utils/population_extensions/distribution_functions.html
@@ -2400,7 +2400,7 @@
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/_modules/binarycpython/utils/population_extensions/grid_logging.html b/docs/build/html/_modules/binarycpython/utils/population_extensions/grid_logging.html
index 75ce4cab87d787fc610a6ab2e2446aa76ed0223f..054e1c6619f9a626519b1818525ebff9018bf309 100644
--- a/docs/build/html/_modules/binarycpython/utils/population_extensions/grid_logging.html
+++ b/docs/build/html/_modules/binarycpython/utils/population_extensions/grid_logging.html
@@ -552,7 +552,7 @@
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/_modules/binarycpython/utils/population_extensions/grid_options_defaults.html b/docs/build/html/_modules/binarycpython/utils/population_extensions/grid_options_defaults.html
index 1c17aec5f1589047b54495a3e226ca1ed61862ec..226ea280d1bd72f4e19297d5a63677ae062d3001 100644
--- a/docs/build/html/_modules/binarycpython/utils/population_extensions/grid_options_defaults.html
+++ b/docs/build/html/_modules/binarycpython/utils/population_extensions/grid_options_defaults.html
@@ -713,7 +713,7 @@
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/_modules/binarycpython/utils/population_extensions/gridcode.html b/docs/build/html/_modules/binarycpython/utils/population_extensions/gridcode.html
index 4841587098a0b57dd1001ea7b93b92bceb741f34..2575ae26381f1033b3971140a91ff03c475e4b9f 100644
--- a/docs/build/html/_modules/binarycpython/utils/population_extensions/gridcode.html
+++ b/docs/build/html/_modules/binarycpython/utils/population_extensions/gridcode.html
@@ -180,8 +180,6 @@
<span class="s2">"import math</span><span class="se">\n</span><span class="s2">"</span><span class="p">,</span>
<span class="s2">"import numpy as np</span><span class="se">\n</span><span class="s2">"</span><span class="p">,</span>
<span class="s2">"from collections import OrderedDict</span><span class="se">\n</span><span class="s2">"</span><span class="p">,</span>
- <span class="s2">"from binarycpython.utils.distribution_functions import *</span><span class="se">\n</span><span class="s2">"</span><span class="p">,</span>
- <span class="s2">"from binarycpython.utils.spacing_functions import *</span><span class="se">\n</span><span class="s2">"</span><span class="p">,</span>
<span class="s2">"from binarycpython.utils.useful_funcs import *</span><span class="se">\n</span><span class="s2">"</span><span class="p">,</span>
<span class="s2">"import numba"</span> <span class="k">if</span> <span class="n">_numba</span> <span class="k">else</span> <span class="s2">""</span><span class="p">,</span>
<span class="s2">"</span><span class="se">\n\n</span><span class="s2">"</span><span class="p">,</span>
@@ -1075,7 +1073,7 @@
<span class="sd"> This is evaluated as a parameter and you can use it throughout</span>
<span class="sd"> the rest of the function</span>
-<span class="sd"> Examples:</span>
+<span class="sd"> Examples::</span>
<span class="sd"> name = 'lnM_1'</span>
<span class="sd"> parameter_name:</span>
@@ -1093,45 +1091,54 @@
<span class="sd"> Examples:</span>
<span class="sd"> longname = 'Primary mass'</span>
+
<span class="sd"> range:</span>
<span class="sd"> Range of values to take. Does not get used really, the samplerfunc is used to</span>
<span class="sd"> get the values from</span>
-<span class="sd"> Examples:</span>
+<span class="sd"> Examples::</span>
<span class="sd"> range = [math.log(m_min), math.log(m_max)]</span>
+
<span class="sd"> samplerfunc:</span>
<span class="sd"> Function returning a list or numpy array of samples spaced appropriately.</span>
<span class="sd"> You can either use a real function, or a string representation of a function call.</span>
-<span class="sd"> Examples:</span>
+<span class="sd"> Examples::</span>
<span class="sd"> samplerfunc = "self.const_linear(math.log(m_min), math.log(m_max), {})".format(resolution['M_1'])</span>
<span class="sd"> precode:</span>
<span class="sd"> Extra room for some code. This code will be evaluated within the loop of the</span>
<span class="sd"> sampling function (i.e. a value for lnM_1 is chosen already)</span>
-<span class="sd"> Examples:</span>
+<span class="sd"> Examples::</span>
<span class="sd"> precode = 'M_1=math.exp(lnM_1);'</span>
+
<span class="sd"> postcode:</span>
<span class="sd"> Code executed after the probability is calculated.</span>
+
<span class="sd"> probdist:</span>
<span class="sd"> Function determining the probability that gets assigned to the sampled parameter</span>
<span class="sd"> Examples:</span>
-<span class="sd"> probdist = 'Kroupa2001(M_1)*M_1'</span>
+<span class="sd"> probdist = 'self.Kroupa2001(M_1)*M_1'</span>
+
<span class="sd"> dphasevol:</span>
<span class="sd"> part of the parameter space that the total probability is calculated with. Put to -1</span>
<span class="sd"> if you want to ignore any dphasevol calculations and set the value to 1</span>
-<span class="sd"> Examples:</span>
+
+<span class="sd"> Examples::"</span>
<span class="sd"> dphasevol = 'dlnM_1'</span>
+
<span class="sd"> condition:</span>
<span class="sd"> condition that has to be met in order for the grid generation to continue</span>
-<span class="sd"> Examples:</span>
+
+<span class="sd"> Examples::</span>
<span class="sd"> condition = 'self.grid_options['binary']==1'</span>
+
<span class="sd"> gridtype:</span>
<span class="sd"> Method on how the value range is sampled. Can be either 'edge' (steps starting at</span>
<span class="sd"> the lower edge of the value range) or 'centred'</span>
-<span class="sd"> (steps starting at lower edge + 0.5 * stepsize).</span>
+<span class="sd"> (steps starting at ``lower edge + 0.5 * stepsize``).</span>
<span class="sd"> dry_parallel:</span>
<span class="sd"> If True, try to parallelize this variable in dry runs.</span>
@@ -1219,7 +1226,7 @@
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/_modules/binarycpython/utils/population_extensions/metadata.html b/docs/build/html/_modules/binarycpython/utils/population_extensions/metadata.html
index ae35b0677458648aca653629993a817f3510ba43..fa4785533b3d3106581302a542e87bd6641c35d3 100644
--- a/docs/build/html/_modules/binarycpython/utils/population_extensions/metadata.html
+++ b/docs/build/html/_modules/binarycpython/utils/population_extensions/metadata.html
@@ -234,7 +234,7 @@
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/_modules/binarycpython/utils/population_extensions/slurm.html b/docs/build/html/_modules/binarycpython/utils/population_extensions/slurm.html
index 3e8aeb96028b7a766ab48cf04116a99574a92679..3e649ba79c268aa7c029b36607e21b5ea365b65c 100644
--- a/docs/build/html/_modules/binarycpython/utils/population_extensions/slurm.html
+++ b/docs/build/html/_modules/binarycpython/utils/population_extensions/slurm.html
@@ -535,7 +535,7 @@
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/_modules/binarycpython/utils/population_extensions/spacing_functions.html b/docs/build/html/_modules/binarycpython/utils/population_extensions/spacing_functions.html
index 12e0872734d7fcd5a7253f5682f3a12182099cb0..385bee8e9c14863446b2543172ef33279bb4fa7f 100644
--- a/docs/build/html/_modules/binarycpython/utils/population_extensions/spacing_functions.html
+++ b/docs/build/html/_modules/binarycpython/utils/population_extensions/spacing_functions.html
@@ -773,7 +773,7 @@
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/_modules/binarycpython/utils/population_extensions/version_info.html b/docs/build/html/_modules/binarycpython/utils/population_extensions/version_info.html
index 9e139fb70009913b82dcd95dd9070e11e9df0bb2..44d4d8d9b45dffcdc56f95ae690cc57ed5cad030 100644
--- a/docs/build/html/_modules/binarycpython/utils/population_extensions/version_info.html
+++ b/docs/build/html/_modules/binarycpython/utils/population_extensions/version_info.html
@@ -521,7 +521,7 @@
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/_modules/binarycpython/utils/run_system_wrapper.html b/docs/build/html/_modules/binarycpython/utils/run_system_wrapper.html
index b91380f033830e0dd8f1e0604f655982f29c2de6..6d93e5bf57d2e94ea3bbcc85950b97576b4e275f 100644
--- a/docs/build/html/_modules/binarycpython/utils/run_system_wrapper.html
+++ b/docs/build/html/_modules/binarycpython/utils/run_system_wrapper.html
@@ -205,7 +205,7 @@
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/_modules/binarycpython/utils/useful_funcs.html b/docs/build/html/_modules/binarycpython/utils/useful_funcs.html
index 697cd34f55795a7a02307a9c69dc0160831b0b77..64b1bc526081405e877c3183dae0db3531d686e9 100644
--- a/docs/build/html/_modules/binarycpython/utils/useful_funcs.html
+++ b/docs/build/html/_modules/binarycpython/utils/useful_funcs.html
@@ -471,7 +471,7 @@
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/_modules/index.html b/docs/build/html/_modules/index.html
index b1c1d756186c0f303259cf1496cc2cc3652bf14c..d10dce7beb6d33f5e807e7e1becdbd6e1ff6e1f1 100644
--- a/docs/build/html/_modules/index.html
+++ b/docs/build/html/_modules/index.html
@@ -109,7 +109,7 @@
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/binary_c_parameters.html b/docs/build/html/binary_c_parameters.html
index cf4a3891a6f13b8a4e080d20e197433f7c6f8575..f03f2b7888dc9bd45a004de7eeb2afaa97a709a6 100644
--- a/docs/build/html/binary_c_parameters.html
+++ b/docs/build/html/binary_c_parameters.html
@@ -3506,7 +3506,7 @@
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/custom_logging_functions.html b/docs/build/html/custom_logging_functions.html
index e2980117f33afb6130bf7778de92faf7a0724151..1c2e6f7411b1bc69370a04731081974bb4216075 100644
--- a/docs/build/html/custom_logging_functions.html
+++ b/docs/build/html/custom_logging_functions.html
@@ -329,7 +329,7 @@ I recommend using this in function in combination with a function that generates
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/dicts.html b/docs/build/html/dicts.html
index 60f104078b0b094a7375febb8e3cdf6aeb0fdb00..7399197fb8b71807f23053046d9c68f2107a8cbd 100644
--- a/docs/build/html/dicts.html
+++ b/docs/build/html/dicts.html
@@ -155,7 +155,18 @@ print(newdict)
<dl class="py function">
<dt class="sig sig-object py" id="binarycpython.utils.dicts.count_keys_recursive">
<span class="sig-prename descclassname"><span class="pre">binarycpython.utils.dicts.</span></span><span class="sig-name descname"><span class="pre">count_keys_recursive</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">input_dict</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="_modules/binarycpython/utils/dicts.html#count_keys_recursive"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#binarycpython.utils.dicts.count_keys_recursive" title="Permalink to this definition">ïƒ</a></dt>
-<dd><p>Function to count the total number of keys in a dictionary</p>
+<dd><p>Function to recursively count the total number of keys in a dictionary.</p>
+<dl class="field-list simple">
+<dt class="field-odd">Parameters</dt>
+<dd class="field-odd"><p><strong>input_dict</strong> (<code class="xref py py-class docutils literal notranslate"><span class="pre">dict</span></code>) – dictionary that we want to know the total amount of keys from.</p>
+</dd>
+<dt class="field-even">Returns</dt>
+<dd class="field-even"><p>total amount of keys within the input_dict.</p>
+</dd>
+<dt class="field-odd">Return type</dt>
+<dd class="field-odd"><p>local_count</p>
+</dd>
+</dl>
</dd></dl>
<dl class="py function">
@@ -167,6 +178,14 @@ Sort that list of type names. Then find the values that fit that type.
Sort those and append them to the sorted keys list.
This is done until all the keys are sorted.</p>
<p>All objects other than dictionary types are directly return as they are</p>
+<dl class="field-list simple">
+<dt class="field-odd">Parameters</dt>
+<dd class="field-odd"><p><strong>input_dict</strong> (<code class="xref py py-class docutils literal notranslate"><span class="pre">dict</span></code>) – object which will be sorted (and returned as a new object) if its a dictionary, otherwise it will be returned without change.</p>
+</dd>
+<dt class="field-even">Return type</dt>
+<dd class="field-even"><p><code class="xref py py-class docutils literal notranslate"><span class="pre">dict</span></code></p>
+</dd>
+</dl>
</dd></dl>
<dl class="py function">
@@ -239,10 +258,23 @@ it will return the type of what the value would be in the input_dict</p>
<dl class="py function">
<dt class="sig sig-object py" id="binarycpython.utils.dicts.keys_to_floats">
-<span class="sig-prename descclassname"><span class="pre">binarycpython.utils.dicts.</span></span><span class="sig-name descname"><span class="pre">keys_to_floats</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">json_data</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="_modules/binarycpython/utils/dicts.html#keys_to_floats"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#binarycpython.utils.dicts.keys_to_floats" title="Permalink to this definition">ïƒ</a></dt>
+<span class="sig-prename descclassname"><span class="pre">binarycpython.utils.dicts.</span></span><span class="sig-name descname"><span class="pre">keys_to_floats</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">input_dict</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="_modules/binarycpython/utils/dicts.html#keys_to_floats"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#binarycpython.utils.dicts.keys_to_floats" title="Permalink to this definition">ïƒ</a></dt>
<dd><p>Function to convert all the keys of the dictionary to float to float</p>
-<p>we need to convert keys to floats:
-this is ~ a factor 10 faster than David’s recursive_change_key_to_float routine, probably because this version only does the float conversion, nothing else.</p>
+<dl class="simple">
+<dt>we need to convert keys to floats:</dt><dd><p>this is ~ a factor 10 faster than David’s <code class="docutils literal notranslate"><span class="pre">recursive_change_key_to_float</span></code> routine, probably because this version only does the float conversion, nothing else.</p>
+</dd>
+</dl>
+<dl class="field-list simple">
+<dt class="field-odd">Parameters</dt>
+<dd class="field-odd"><p><strong>input_dict</strong> (<code class="xref py py-class docutils literal notranslate"><span class="pre">dict</span></code>) – dict of which we want to turn all the keys to float types if possible</p>
+</dd>
+<dt class="field-even">Returns</dt>
+<dd class="field-even"><p>dict of which the keys have been turned to float types where possible</p>
+</dd>
+<dt class="field-odd">Return type</dt>
+<dd class="field-odd"><p>new_dict</p>
+</dd>
+</dl>
</dd></dl>
<dl class="py function">
@@ -285,13 +317,13 @@ this is ~ a factor 10 faster than David’s recursive_change_key_to_float routin
<dl class="py function">
<dt class="sig sig-object py" id="binarycpython.utils.dicts.multiply_float_values">
-<span class="sig-prename descclassname"><span class="pre">binarycpython.utils.dicts.</span></span><span class="sig-name descname"><span class="pre">multiply_float_values</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">d</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">const</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">ignore</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/binarycpython/utils/dicts.html#multiply_float_values"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#binarycpython.utils.dicts.multiply_float_values" title="Permalink to this definition">ïƒ</a></dt>
+<span class="sig-prename descclassname"><span class="pre">binarycpython.utils.dicts.</span></span><span class="sig-name descname"><span class="pre">multiply_float_values</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">input_dict</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">factor</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">ignore</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/binarycpython/utils/dicts.html#multiply_float_values"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#binarycpython.utils.dicts.multiply_float_values" title="Permalink to this definition">ïƒ</a></dt>
<dd><p>A function to recursively multiply values of a (nested) dictionary that are floats by a constant. Nested dictionaries call this function recursively.</p>
<dl class="field-list simple">
<dt class="field-odd">Parameters</dt>
<dd class="field-odd"><ul class="simple">
-<li><p><strong>d</strong> – the dictionary</p></li>
-<li><p><strong>const</strong> – the constant that multiplies float values</p></li>
+<li><p><strong>input_dict</strong> – the dictionary</p></li>
+<li><p><strong>factor</strong> – the constant that multiplies float values</p></li>
</ul>
</dd>
</dl>
@@ -301,13 +333,39 @@ this is ~ a factor 10 faster than David’s recursive_change_key_to_float routin
<dt class="sig sig-object py" id="binarycpython.utils.dicts.multiply_values_dict">
<span class="sig-prename descclassname"><span class="pre">binarycpython.utils.dicts.</span></span><span class="sig-name descname"><span class="pre">multiply_values_dict</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">input_dict</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">factor</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="_modules/binarycpython/utils/dicts.html#multiply_values_dict"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#binarycpython.utils.dicts.multiply_values_dict" title="Permalink to this definition">ïƒ</a></dt>
<dd><p>Function that goes over dictionary recursively and multiplies the value if possible by a factor</p>
-<p>If the key equals “general_infoâ€, the multiplication gets skipped</p>
+<p>If the key equals “general_infoâ€, the multiplication gets skipped.</p>
+<p>This function changes the values in-place, so the original dict is modified</p>
+<dl class="field-list simple">
+<dt class="field-odd">Parameters</dt>
+<dd class="field-odd"><ul class="simple">
+<li><p><strong>input_dict</strong> (<code class="xref py py-class docutils literal notranslate"><span class="pre">dict</span></code>) – dictionary of which we want to multiply the values by <factor></p></li>
+<li><p><strong>factor</strong> (<code class="xref py py-data docutils literal notranslate"><span class="pre">Union</span></code>[<code class="xref py py-class docutils literal notranslate"><span class="pre">int</span></code>, <code class="xref py py-class docutils literal notranslate"><span class="pre">float</span></code>, <code class="xref py py-class docutils literal notranslate"><span class="pre">complex</span></code>, <code class="xref py py-class docutils literal notranslate"><span class="pre">number</span></code>]) – factor that we want to multiply the values with</p></li>
+</ul>
+</dd>
+<dt class="field-even">Returns</dt>
+<dd class="field-even"><p>dict containing the multiplied keys. This is the same object as we passed as input.</p>
+</dd>
+<dt class="field-odd">Return type</dt>
+<dd class="field-odd"><p>multiplied_dict</p>
+</dd>
+</dl>
</dd></dl>
<dl class="py function">
<dt class="sig sig-object py" id="binarycpython.utils.dicts.normalize_dict">
<span class="sig-prename descclassname"><span class="pre">binarycpython.utils.dicts.</span></span><span class="sig-name descname"><span class="pre">normalize_dict</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">result_dict</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="_modules/binarycpython/utils/dicts.html#normalize_dict"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#binarycpython.utils.dicts.normalize_dict" title="Permalink to this definition">ïƒ</a></dt>
-<dd><p>Function to normalise a dictionary</p>
+<dd><p>Function to normalise a dictionary by summing all the values and dividing each term by the total. Designed for dictionary containing only positive values.</p>
+<dl class="field-list simple">
+<dt class="field-odd">Parameters</dt>
+<dd class="field-odd"><p><strong>result_dict</strong> (<code class="xref py py-class docutils literal notranslate"><span class="pre">dict</span></code>) – dictionary where values should be positive number objects</p>
+</dd>
+<dt class="field-even">Returns</dt>
+<dd class="field-even"><p>dictionary where the values are normalised to sum to 1</p>
+</dd>
+<dt class="field-odd">Return type</dt>
+<dd class="field-odd"><p>normalized_dict</p>
+</dd>
+</dl>
</dd></dl>
<dl class="py function">
@@ -333,14 +391,39 @@ so that they don’t have to be calculated each time.</p>
<dt class="sig sig-object py" id="binarycpython.utils.dicts.recursive_change_key_to_float">
<span class="sig-prename descclassname"><span class="pre">binarycpython.utils.dicts.</span></span><span class="sig-name descname"><span class="pre">recursive_change_key_to_float</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">input_dict</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="_modules/binarycpython/utils/dicts.html#recursive_change_key_to_float"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#binarycpython.utils.dicts.recursive_change_key_to_float" title="Permalink to this definition">ïƒ</a></dt>
<dd><p>Function to recursively change the key to float</p>
-<p>This only works if the dict contains just sub-dicts or numbers/strings.
-Does not work with lists as values</p>
+<p>This only works if the dict contains just sub-dicts or numbers/strings.</p>
+<p>Does not work with lists as values</p>
+<dl class="field-list simple">
+<dt class="field-odd">Parameters</dt>
+<dd class="field-odd"><p><strong>input_dict</strong> (<code class="xref py py-class docutils literal notranslate"><span class="pre">dict</span></code>) – dict of which we want to turn all the keys to float types if possible</p>
+</dd>
+<dt class="field-even">Returns</dt>
+<dd class="field-even"><p>dict of which the keys have been turned to float types where possible</p>
+</dd>
+<dt class="field-odd">Return type</dt>
+<dd class="field-odd"><p>new_dict</p>
+</dd>
+</dl>
</dd></dl>
<dl class="py function">
<dt class="sig sig-object py" id="binarycpython.utils.dicts.recursive_change_key_to_string">
<span class="sig-prename descclassname"><span class="pre">binarycpython.utils.dicts.</span></span><span class="sig-name descname"><span class="pre">recursive_change_key_to_string</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">input_dict</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">custom_format</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">'{:g}'</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="_modules/binarycpython/utils/dicts.html#recursive_change_key_to_string"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#binarycpython.utils.dicts.recursive_change_key_to_string" title="Permalink to this definition">ïƒ</a></dt>
-<dd><p>Function to recursively change the key back to a string but this time in a format that we decide</p>
+<dd><p>Function to recursively change the key back to a string but this time in a format that we decide. We’ll try to turn a string key into a float key before formatting the key</p>
+<dl class="field-list simple">
+<dt class="field-odd">Parameters</dt>
+<dd class="field-odd"><ul class="simple">
+<li><p><strong>input_dict</strong> (<code class="xref py py-class docutils literal notranslate"><span class="pre">dict</span></code>) – dict of which we want to turn all the keys to string types (with a custom format)</p></li>
+<li><p><strong>custom_format</strong> (<code class="xref py py-class docutils literal notranslate"><span class="pre">str</span></code>) – custom format used when turning the key to strings</p></li>
+</ul>
+</dd>
+<dt class="field-even">Returns</dt>
+<dd class="field-even"><p>dict of which the keys have been turned to string types where possible</p>
+</dd>
+<dt class="field-odd">Return type</dt>
+<dd class="field-odd"><p>new_dict</p>
+</dd>
+</dl>
</dd></dl>
<dl class="py function">
@@ -441,7 +524,7 @@ Does not work with lists as values</p>
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/ensemble.html b/docs/build/html/ensemble.html
index 239f3839da502e9411bcff81ad4a304fba561e37..925edc168a70e2db51d07e60c1d3dbc01c193299 100644
--- a/docs/build/html/ensemble.html
+++ b/docs/build/html/ensemble.html
@@ -128,27 +128,27 @@
<p>Module containing functions to interact with binary_c’s
population ensemble using the binarycpython package</p>
<dl class="py class">
-<dt class="sig sig-object py" id="binarycpython.utils.ensemble.BinaryCEncoder">
-<em class="property"><span class="pre">class</span><span class="w"> </span></em><span class="sig-prename descclassname"><span class="pre">binarycpython.utils.ensemble.</span></span><span class="sig-name descname"><span class="pre">BinaryCEncoder</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="o"><span class="pre">*</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">skipkeys</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">ensure_ascii</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">True</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">check_circular</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">True</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">allow_nan</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">True</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">sort_keys</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">indent</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">separators</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">default</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/binarycpython/utils/ensemble.html#BinaryCEncoder"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#binarycpython.utils.ensemble.BinaryCEncoder" title="Permalink to this definition">ïƒ</a></dt>
-<dd><p>Bases: <code class="xref py py-class docutils literal notranslate"><span class="pre">json.encoder.JSONEncoder</span></code></p>
-<p>Encoding class function to attempt to convert things to strings.</p>
+<dt class="sig sig-object py" id="binarycpython.utils.ensemble.BinarycDecoder">
+<em class="property"><span class="pre">class</span><span class="w"> </span></em><span class="sig-prename descclassname"><span class="pre">binarycpython.utils.ensemble.</span></span><span class="sig-name descname"><span class="pre">BinarycDecoder</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="o"><span class="pre">*</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">object_hook</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">parse_float</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">parse_int</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">parse_constant</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">strict</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">True</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">object_pairs_hook</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/binarycpython/utils/ensemble.html#BinarycDecoder"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#binarycpython.utils.ensemble.BinarycDecoder" title="Permalink to this definition">ïƒ</a></dt>
+<dd><p>Bases: <code class="xref py py-class docutils literal notranslate"><span class="pre">json.decoder.JSONDecoder</span></code></p>
+<p>Custom decoder to transform the numbers that are strings to actual floats</p>
<dl class="py method">
-<dt class="sig sig-object py" id="binarycpython.utils.ensemble.BinaryCEncoder.default">
-<span class="sig-name descname"><span class="pre">default</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">o</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="_modules/binarycpython/utils/ensemble.html#BinaryCEncoder.default"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#binarycpython.utils.ensemble.BinaryCEncoder.default" title="Permalink to this definition">ïƒ</a></dt>
-<dd><p>Converting function. Well, could be more precise. look at the JSON module</p>
+<dt class="sig sig-object py" id="binarycpython.utils.ensemble.BinarycDecoder.decode">
+<span class="sig-name descname"><span class="pre">decode</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">s</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="_modules/binarycpython/utils/ensemble.html#BinarycDecoder.decode"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#binarycpython.utils.ensemble.BinarycDecoder.decode" title="Permalink to this definition">ïƒ</a></dt>
+<dd><p>Entry point function for decoding</p>
</dd></dl>
</dd></dl>
<dl class="py class">
-<dt class="sig sig-object py" id="binarycpython.utils.ensemble.binarycDecoder">
-<em class="property"><span class="pre">class</span><span class="w"> </span></em><span class="sig-prename descclassname"><span class="pre">binarycpython.utils.ensemble.</span></span><span class="sig-name descname"><span class="pre">binarycDecoder</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="o"><span class="pre">*</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">object_hook</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">parse_float</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">parse_int</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">parse_constant</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">strict</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">True</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">object_pairs_hook</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/binarycpython/utils/ensemble.html#binarycDecoder"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#binarycpython.utils.ensemble.binarycDecoder" title="Permalink to this definition">ïƒ</a></dt>
-<dd><p>Bases: <code class="xref py py-class docutils literal notranslate"><span class="pre">json.decoder.JSONDecoder</span></code></p>
-<p>Custom decoder to transform the numbers that are strings to actual floats</p>
+<dt class="sig sig-object py" id="binarycpython.utils.ensemble.BinarycEncoder">
+<em class="property"><span class="pre">class</span><span class="w"> </span></em><span class="sig-prename descclassname"><span class="pre">binarycpython.utils.ensemble.</span></span><span class="sig-name descname"><span class="pre">BinarycEncoder</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="o"><span class="pre">*</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">skipkeys</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">ensure_ascii</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">True</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">check_circular</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">True</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">allow_nan</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">True</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">sort_keys</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">indent</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">separators</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">default</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/binarycpython/utils/ensemble.html#BinarycEncoder"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#binarycpython.utils.ensemble.BinarycEncoder" title="Permalink to this definition">ïƒ</a></dt>
+<dd><p>Bases: <code class="xref py py-class docutils literal notranslate"><span class="pre">json.encoder.JSONEncoder</span></code></p>
+<p>Encoding class function to attempt to convert things to strings.</p>
<dl class="py method">
-<dt class="sig sig-object py" id="binarycpython.utils.ensemble.binarycDecoder.decode">
-<span class="sig-name descname"><span class="pre">decode</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">s</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="_modules/binarycpython/utils/ensemble.html#binarycDecoder.decode"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#binarycpython.utils.ensemble.binarycDecoder.decode" title="Permalink to this definition">ïƒ</a></dt>
-<dd><p>Entry point function for decoding</p>
+<dt class="sig sig-object py" id="binarycpython.utils.ensemble.BinarycEncoder.default">
+<span class="sig-name descname"><span class="pre">default</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">o</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="_modules/binarycpython/utils/ensemble.html#BinarycEncoder.default"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#binarycpython.utils.ensemble.BinarycEncoder.default" title="Permalink to this definition">ïƒ</a></dt>
+<dd><p>Converting function. Well, could be more precise. look at the JSON module</p>
</dd></dl>
</dd></dl>
@@ -228,7 +228,7 @@ creates a working JSON dictionary out of it.</p>
<dd class="field-odd"><p><strong>raw_output</strong> – raw output of the ensemble dump by binary_c</p>
</dd>
<dt class="field-even">Returns</dt>
-<dd class="field-even"><p>json.loads(raw_output, cls=binarycDecoder)</p>
+<dd class="field-even"><p>json.loads(raw_output, cls=BinarycDecoder)</p>
</dd>
</dl>
</dd></dl>
@@ -275,7 +275,7 @@ and return its contents to as a Python dictionary.</p>
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/example_notebooks.html b/docs/build/html/example_notebooks.html
index 9814e5b21170516669bf86117708a784507557a9..14115fec60fe872deb58be35ab7140cd267494aa 100644
--- a/docs/build/html/example_notebooks.html
+++ b/docs/build/html/example_notebooks.html
@@ -215,7 +215,7 @@
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/examples/notebook_BHBH.html b/docs/build/html/examples/notebook_BHBH.html
index df9e5c4a5f2ae64de7a4c260512b750883436978..40d2eb5c806d12e072b8c5ad352c7fecd8775d20 100644
--- a/docs/build/html/examples/notebook_BHBH.html
+++ b/docs/build/html/examples/notebook_BHBH.html
@@ -5574,7 +5574,7 @@ system 2 / 100
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/examples/notebook_HRD.html b/docs/build/html/examples/notebook_HRD.html
index 34beb7a71c0852387fbb285686cf787c8f89fa7d..0be8b2b43d58990601d5b7108256486d04444402 100644
--- a/docs/build/html/examples/notebook_HRD.html
+++ b/docs/build/html/examples/notebook_HRD.html
@@ -1366,7 +1366,7 @@ very start.</p>
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/examples/notebook_api_functionality.html b/docs/build/html/examples/notebook_api_functionality.html
index 5e9ba94b44148ea5693a15b4cd36e150ff6be8bb..0f40b7a4b4935d6fa8af1583ff54e36016585f9e 100644
--- a/docs/build/html/examples/notebook_api_functionality.html
+++ b/docs/build/html/examples/notebook_api_functionality.html
@@ -1291,7 +1291,7 @@ MAXIMUM MASS RATIO 0.0141
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/examples/notebook_common_envelope_evolution.html b/docs/build/html/examples/notebook_common_envelope_evolution.html
index 1be791553379b3a10a31071553aecf1797b27fa5..857d8658b8f2fc42c75772c7ac373f7416750fe8 100644
--- a/docs/build/html/examples/notebook_common_envelope_evolution.html
+++ b/docs/build/html/examples/notebook_common_envelope_evolution.html
@@ -1131,7 +1131,7 @@ Text(0, 0.5, 'Number of stars')
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/examples/notebook_custom_logging.html b/docs/build/html/examples/notebook_custom_logging.html
index f819b261a286fa9386e400da685cf214511cdabf..ed1c723bc3bd1e9b3b24a2726c3b682226c22396 100644
--- a/docs/build/html/examples/notebook_custom_logging.html
+++ b/docs/build/html/examples/notebook_custom_logging.html
@@ -785,7 +785,7 @@ EXAMPLE_SN 1.050651207308e+01 1.59452 9.34213 20 12 13 5 1 6.55458 4
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/examples/notebook_extra_features.html b/docs/build/html/examples/notebook_extra_features.html
index a26d4964070e656e993158d32365cd7f7f19e5ba..844a5b0b538132e3b8b7b8429d2c615bde4fea88 100644
--- a/docs/build/html/examples/notebook_extra_features.html
+++ b/docs/build/html/examples/notebook_extra_features.html
@@ -537,7 +537,7 @@ dict_keys(['networks', 'isotopes', 'argpairs', 'ense
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/examples/notebook_individual_systems.html b/docs/build/html/examples/notebook_individual_systems.html
index 17d420caefc2acbdac7264d8e30893b25e4ed207..e167d4e9b968b7f78f69b1f28ce020fb0532625f 100644
--- a/docs/build/html/examples/notebook_individual_systems.html
+++ b/docs/build/html/examples/notebook_individual_systems.html
@@ -839,7 +839,7 @@ SINGLE_STAR_LIFETIME 15 14.9927
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/examples/notebook_luminosity_function_binaries.html b/docs/build/html/examples/notebook_luminosity_function_binaries.html
index aa92d98888474e4516f54412bd42763e6bd4d336..a6fad454e68e09d0264e49b2747a7e6ae747fad8 100644
--- a/docs/build/html/examples/notebook_luminosity_function_binaries.html
+++ b/docs/build/html/examples/notebook_luminosity_function_binaries.html
@@ -1198,7 +1198,7 @@ Done population run!
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/examples/notebook_luminosity_function_single.html b/docs/build/html/examples/notebook_luminosity_function_single.html
index dc2f2a30c61e7875684e8b3813f1eba7facafba1..9e3c5a6b0365d7218c676b26624715757549e7f5 100644
--- a/docs/build/html/examples/notebook_luminosity_function_single.html
+++ b/docs/build/html/examples/notebook_luminosity_function_single.html
@@ -855,7 +855,7 @@ works perfectly well.</p>
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/examples/notebook_massive_remnants.html b/docs/build/html/examples/notebook_massive_remnants.html
index 45d13910b20a27301a2511d568bb0277f1f3d31b..da6130b5ce8d89d5b13271c289e5e6d8e4c6a301 100644
--- a/docs/build/html/examples/notebook_massive_remnants.html
+++ b/docs/build/html/examples/notebook_massive_remnants.html
@@ -960,7 +960,7 @@ There were no errors found in this run.
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/examples/notebook_population.html b/docs/build/html/examples/notebook_population.html
index 8a2066a680c257857638f2936285356a67902a6f..0e8e6ad1da0cbd5523d153802f4c959299bac7d0 100644
--- a/docs/build/html/examples/notebook_population.html
+++ b/docs/build/html/examples/notebook_population.html
@@ -1414,7 +1414,7 @@ time mass_1 zams_mass_1 mass_2 zams_mass_2 stellar_type_1 prev_stellar_type_1 st
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/examples/notebook_solar_system.html b/docs/build/html/examples/notebook_solar_system.html
index 7b51cb8b16b9f2b332f7a8af07b368fa41169976..48c1ae1517ad2d5817bfd4af1ebef0bde92fbc1c 100644
--- a/docs/build/html/examples/notebook_solar_system.html
+++ b/docs/build/html/examples/notebook_solar_system.html
@@ -614,7 +614,7 @@ div.rendered_html tbody tr:hover {
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/examples/old/basic_example.html b/docs/build/html/examples/old/basic_example.html
index cf5dbc6662c5637ec7f7ae5e628eeb4659e927b8..cc749b54ade05badde63839211b440418c7cdfce 100644
--- a/docs/build/html/examples/old/basic_example.html
+++ b/docs/build/html/examples/old/basic_example.html
@@ -453,7 +453,7 @@ div.rendered_html tbody tr:hover {
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/examples/old/workshop_example_notebook.html b/docs/build/html/examples/old/workshop_example_notebook.html
index 3be13cee868e370a84409bee60aec319df58eb65..eb52c1db3cd8b260773e4e529ca15d05225d22e3 100644
--- a/docs/build/html/examples/old/workshop_example_notebook.html
+++ b/docs/build/html/examples/old/workshop_example_notebook.html
@@ -892,7 +892,7 @@ Took 14.214274644851685s
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/functions.html b/docs/build/html/functions.html
index f21faa026e56a265cbd7252d546424d8221b5f02..f884d644214801446f36c4eca0227fd51e7593bc 100644
--- a/docs/build/html/functions.html
+++ b/docs/build/html/functions.html
@@ -720,7 +720,7 @@ of all the binary_c parameters.</p>
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/genindex.html b/docs/build/html/genindex.html
index f94456426d1749a5de2930180420094797547a1b..913f76a7eacbf9908468a6d536144e347f0b2aca 100644
--- a/docs/build/html/genindex.html
+++ b/docs/build/html/genindex.html
@@ -164,9 +164,9 @@
</li>
<li><a href="ensemble.html#binarycpython.utils.ensemble.binaryc_json_serializer">binaryc_json_serializer() (in module binarycpython.utils.ensemble)</a>
</li>
- <li><a href="ensemble.html#binarycpython.utils.ensemble.binarycDecoder">binarycDecoder (class in binarycpython.utils.ensemble)</a>
+ <li><a href="ensemble.html#binarycpython.utils.ensemble.BinarycDecoder">BinarycDecoder (class in binarycpython.utils.ensemble)</a>
</li>
- <li><a href="ensemble.html#binarycpython.utils.ensemble.BinaryCEncoder">BinaryCEncoder (class in binarycpython.utils.ensemble)</a>
+ <li><a href="ensemble.html#binarycpython.utils.ensemble.BinarycEncoder">BinarycEncoder (class in binarycpython.utils.ensemble)</a>
</li>
<li>
binarycpython.utils.custom_logging_functions
@@ -431,9 +431,9 @@
</li>
<li><a href="functions.html#binarycpython.utils.functions.datalinedict">datalinedict() (in module binarycpython.utils.functions)</a>
</li>
- <li><a href="ensemble.html#binarycpython.utils.ensemble.binarycDecoder.decode">decode() (binarycpython.utils.ensemble.binarycDecoder method)</a>
+ <li><a href="ensemble.html#binarycpython.utils.ensemble.BinarycDecoder.decode">decode() (binarycpython.utils.ensemble.BinarycDecoder method)</a>
</li>
- <li><a href="ensemble.html#binarycpython.utils.ensemble.BinaryCEncoder.default">default() (binarycpython.utils.ensemble.BinaryCEncoder method)</a>
+ <li><a href="ensemble.html#binarycpython.utils.ensemble.BinarycEncoder.default">default() (binarycpython.utils.ensemble.BinarycEncoder method)</a>
</li>
<li><a href="population_extensions/cache.html#binarycpython.utils.population_extensions.cache.cache.default_cache_dir">default_cache_dir() (binarycpython.utils.population_extensions.cache.cache method)</a>
@@ -1074,7 +1074,7 @@
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/grid.html b/docs/build/html/grid.html
index 93fbd756b50941d01735335f0b6c361e937d152c..9b04bd91afa0be2d6c7e7cb5381905791f66edcf 100644
--- a/docs/build/html/grid.html
+++ b/docs/build/html/grid.html
@@ -376,7 +376,7 @@ in the self.grid_options</p>
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/grid_options_descriptions.html b/docs/build/html/grid_options_descriptions.html
index cabcf934ad508ff60efd4d655caebd64cffe0db6..45833b1676e0bf435df97a06dc43d4faeaa72f52 100644
--- a/docs/build/html/grid_options_descriptions.html
+++ b/docs/build/html/grid_options_descriptions.html
@@ -643,7 +643,7 @@ q extrapolation (below 0.15) method
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/index.html b/docs/build/html/index.html
index 3cb10d5876d992535d2919dfb1ef72589e18a433..7fbbc9c5e789dfdf90163751917c8aa4666286c4 100644
--- a/docs/build/html/index.html
+++ b/docs/build/html/index.html
@@ -309,7 +309,7 @@
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/modules.html b/docs/build/html/modules.html
index 4a6dcd70f85d3127a1c13674ce0642bb5c2ec247..893b741ecae385d657e89539ebafcede2f515e7e 100644
--- a/docs/build/html/modules.html
+++ b/docs/build/html/modules.html
@@ -173,7 +173,7 @@
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/objects.inv b/docs/build/html/objects.inv
index d80b701842d0e7e6a582b0b60fe767f7382d5833..8c86e9a4ddc8464c47e8ad83b14a64b5c6c74372 100644
Binary files a/docs/build/html/objects.inv and b/docs/build/html/objects.inv differ
diff --git a/docs/build/html/plot_functions.html b/docs/build/html/plot_functions.html
index 1506174c66e6c0ea73be0098ff3886a0665bfe6e..5121512fdc99288061117760b8f17e2b0ae33af8 100644
--- a/docs/build/html/plot_functions.html
+++ b/docs/build/html/plot_functions.html
@@ -377,7 +377,7 @@ This is not included in all the plotting routines.</p></li>
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/population_extensions/HPC.html b/docs/build/html/population_extensions/HPC.html
index aa5dd71d8053833fa854203f01a9382c30344887..1117c346f701ce1c57fb4fd451d568dbd63ccb41 100644
--- a/docs/build/html/population_extensions/HPC.html
+++ b/docs/build/html/population_extensions/HPC.html
@@ -372,7 +372,7 @@ and (if given) the string passed in.</p>
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/population_extensions/Moe_di_Stefano_2017.html b/docs/build/html/population_extensions/Moe_di_Stefano_2017.html
index ce2c2b3aa6a5f04cdd5d00c6eae6146626cf691e..1cf74ec6010da6ed2dd1e14cf5665f44c660d65d 100644
--- a/docs/build/html/population_extensions/Moe_di_Stefano_2017.html
+++ b/docs/build/html/population_extensions/Moe_di_Stefano_2017.html
@@ -192,7 +192,7 @@ then set the distribution functions</p>
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/population_extensions/analytics.html b/docs/build/html/population_extensions/analytics.html
index e4b388e96933bdce51852589ed7fd4905de6e54f..9d1384b75bf643cd3e6dfc7fdb2c7c9449c4f176 100644
--- a/docs/build/html/population_extensions/analytics.html
+++ b/docs/build/html/population_extensions/analytics.html
@@ -181,7 +181,7 @@ the time elapsed if otherwise or if force is True</p>
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/population_extensions/cache.html b/docs/build/html/population_extensions/cache.html
index 9b7283d448751b776a0b88a65f86bbe7b9c343c4..cb7e145c6cd47620792e043da0166fc1efee8e88 100644
--- a/docs/build/html/population_extensions/cache.html
+++ b/docs/build/html/population_extensions/cache.html
@@ -215,7 +215,7 @@ given caches of size self.grid_options[‘function_cache_size’][func]</p>
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/population_extensions/condor.html b/docs/build/html/population_extensions/condor.html
index 84b3bc63b2944762dbb67c3e8565c11c0788ff76..404180eeee06a82fb7a751deef471b8749b82a1f 100644
--- a/docs/build/html/population_extensions/condor.html
+++ b/docs/build/html/population_extensions/condor.html
@@ -232,7 +232,7 @@ if grid_options[‘condor’]==3, we are being called from the jobs to run the g
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/population_extensions/dataIO.html b/docs/build/html/population_extensions/dataIO.html
index 4ec89d89c116d8e6ed004b3cf3eadcfa134ba3d6..cc4b5fdfa0648d03430ec88469c25f1b076f81ec 100644
--- a/docs/build/html/population_extensions/dataIO.html
+++ b/docs/build/html/population_extensions/dataIO.html
@@ -393,7 +393,7 @@ passed to json.dumps)</p></li>
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/population_extensions/distribution_functions.html b/docs/build/html/population_extensions/distribution_functions.html
index e42d537c4066b9576367e52eb241e5b28644f0ae..f4898a794a01f6efb01f5f799b92affe7f221edb 100644
--- a/docs/build/html/population_extensions/distribution_functions.html
+++ b/docs/build/html/population_extensions/distribution_functions.html
@@ -833,7 +833,7 @@ and is be given by dp/dlogP ~ (logP)^p for all other binary configurations (defa
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/population_extensions/grid_logging.html b/docs/build/html/population_extensions/grid_logging.html
index 2317a1e57f84bd463bd6681c683e6586cd045bb2..9221cf65a2b9c9ed226edcc2cd4aeab2477bd35d 100644
--- a/docs/build/html/population_extensions/grid_logging.html
+++ b/docs/build/html/population_extensions/grid_logging.html
@@ -179,7 +179,7 @@ system_number: the system number</p>
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/population_extensions/grid_options_defaults.html b/docs/build/html/population_extensions/grid_options_defaults.html
index 48fefdc7e600ed546fc21d75601b755e24353ee0..9d073af621b13ad36395426849f6ba9e5418937c 100644
--- a/docs/build/html/population_extensions/grid_options_defaults.html
+++ b/docs/build/html/population_extensions/grid_options_defaults.html
@@ -242,7 +242,7 @@
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/population_extensions/gridcode.html b/docs/build/html/population_extensions/gridcode.html
index 043113bf3c55fb15ab1bdf79a45f4269fffa161f..e7144b6016c4633d5a2e8964759b646077f2267f 100644
--- a/docs/build/html/population_extensions/gridcode.html
+++ b/docs/build/html/population_extensions/gridcode.html
@@ -148,8 +148,10 @@ Use at own risk.</p>
<li><p><strong>name</strong> (<code class="xref py py-class docutils literal notranslate"><span class="pre">str</span></code>) – <p>name of parameter used in the grid Python code.
This is evaluated as a parameter and you can use it throughout
the rest of the function</p>
-<p class="rubric">Examples</p>
-<p>name = ‘lnM_1’</p>
+<dl class="simple">
+<dt>Examples::</dt><dd><p>name = ‘lnM_1’</p>
+</dd>
+</dl>
</p></li>
<li><p><strong>parameter_name</strong> (<code class="xref py py-class docutils literal notranslate"><span class="pre">str</span></code>) – <p>name of the parameter in binary_c</p>
<p>This name must correspond to a Python variable of the same name,
@@ -166,36 +168,46 @@ called parameter_name</p>
</p></li>
<li><p><strong>range</strong> – <p>Range of values to take. Does not get used really, the samplerfunc is used to
get the values from</p>
-<p class="rubric">Examples</p>
-<p>range = [math.log(m_min), math.log(m_max)]</p>
+<dl class="simple">
+<dt>Examples::</dt><dd><p>range = [math.log(m_min), math.log(m_max)]</p>
+</dd>
+</dl>
</p></li>
<li><p><strong>samplerfunc</strong> (<code class="xref py py-class docutils literal notranslate"><span class="pre">str</span></code>) – <p>Function returning a list or numpy array of samples spaced appropriately.
You can either use a real function, or a string representation of a function call.</p>
-<p class="rubric">Examples</p>
-<p>samplerfunc = “self.const_linear(math.log(m_min), math.log(m_max), {})â€.format(resolution[‘M_1’])</p>
+<dl class="simple">
+<dt>Examples::</dt><dd><p>samplerfunc = “self.const_linear(math.log(m_min), math.log(m_max), {})â€.format(resolution[‘M_1’])</p>
+</dd>
+</dl>
</p></li>
<li><p><strong>precode</strong> (<code class="xref py py-data docutils literal notranslate"><span class="pre">Optional</span></code>[<code class="xref py py-class docutils literal notranslate"><span class="pre">str</span></code>]) – <p>Extra room for some code. This code will be evaluated within the loop of the
sampling function (i.e. a value for lnM_1 is chosen already)</p>
-<p class="rubric">Examples</p>
-<p>precode = ‘M_1=math.exp(lnM_1);’</p>
+<dl class="simple">
+<dt>Examples::</dt><dd><p>precode = ‘M_1=math.exp(lnM_1);’</p>
+</dd>
+</dl>
</p></li>
<li><p><strong>postcode</strong> (<code class="xref py py-data docutils literal notranslate"><span class="pre">Optional</span></code>[<code class="xref py py-class docutils literal notranslate"><span class="pre">str</span></code>]) – Code executed after the probability is calculated.</p></li>
<li><p><strong>probdist</strong> (<code class="xref py py-class docutils literal notranslate"><span class="pre">str</span></code>) – <p>Function determining the probability that gets assigned to the sampled parameter</p>
<p class="rubric">Examples</p>
-<p>probdist = ‘Kroupa2001(M_1)*M_1’</p>
+<p>probdist = ‘self.Kroupa2001(M_1)*M_1’</p>
</p></li>
<li><p><strong>dphasevol</strong> (<code class="xref py py-data docutils literal notranslate"><span class="pre">Union</span></code>[<code class="xref py py-class docutils literal notranslate"><span class="pre">str</span></code>, <code class="xref py py-class docutils literal notranslate"><span class="pre">int</span></code>]) – <p>part of the parameter space that the total probability is calculated with. Put to -1
-if you want to ignore any dphasevol calculations and set the value to 1
-.. rubric:: Examples</p>
-<p>dphasevol = ‘dlnM_1’</p>
+if you want to ignore any dphasevol calculations and set the value to 1</p>
+<dl class="simple">
+<dt>Examples::â€</dt><dd><p>dphasevol = ‘dlnM_1’</p>
+</dd>
+</dl>
</p></li>
-<li><p><strong>condition</strong> (<code class="xref py py-data docutils literal notranslate"><span class="pre">Optional</span></code>[<code class="xref py py-class docutils literal notranslate"><span class="pre">str</span></code>]) – <p>condition that has to be met in order for the grid generation to continue
-.. rubric:: Examples</p>
-<p>condition = ‘self.grid_options[‘binary’]==1’</p>
+<li><p><strong>condition</strong> (<code class="xref py py-data docutils literal notranslate"><span class="pre">Optional</span></code>[<code class="xref py py-class docutils literal notranslate"><span class="pre">str</span></code>]) – <p>condition that has to be met in order for the grid generation to continue</p>
+<dl class="simple">
+<dt>Examples::</dt><dd><p>condition = ‘self.grid_options[‘binary’]==1’</p>
+</dd>
+</dl>
</p></li>
<li><p><strong>gridtype</strong> (<code class="xref py py-class docutils literal notranslate"><span class="pre">str</span></code>) – Method on how the value range is sampled. Can be either ‘edge’ (steps starting at
the lower edge of the value range) or ‘centred’
-(steps starting at lower edge + 0.5 * stepsize).</p></li>
+(steps starting at <code class="docutils literal notranslate"><span class="pre">lower</span> <span class="pre">edge</span> <span class="pre">+</span> <span class="pre">0.5</span> <span class="pre">*</span> <span class="pre">stepsize</span></code>).</p></li>
<li><p><strong>dry_parallel</strong> (<code class="xref py py-data docutils literal notranslate"><span class="pre">Optional</span></code>[<code class="xref py py-class docutils literal notranslate"><span class="pre">bool</span></code>]) – If True, try to parallelize this variable in dry runs.</p></li>
<li><p><strong>topcode</strong> (<code class="xref py py-data docutils literal notranslate"><span class="pre">Optional</span></code>[<code class="xref py py-class docutils literal notranslate"><span class="pre">str</span></code>]) – Code added at the very top of the block.</p></li>
<li><p><strong>bottomcode</strong> (<code class="xref py py-data docutils literal notranslate"><span class="pre">Optional</span></code>[<code class="xref py py-class docutils literal notranslate"><span class="pre">str</span></code>]) – Code added at the very bottom of the block.</p></li>
@@ -282,7 +294,7 @@ of the self.grid_options[“_grid_variablesâ€] dictionary.</p>
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/population_extensions/metadata.html b/docs/build/html/population_extensions/metadata.html
index f397ba02c07dd83d58c0dcb1715cef039eb3daca..6188b029910d931f013d80a95e42ae16b61a4197 100644
--- a/docs/build/html/population_extensions/metadata.html
+++ b/docs/build/html/population_extensions/metadata.html
@@ -167,7 +167,7 @@
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/population_extensions/slurm.html b/docs/build/html/population_extensions/slurm.html
index f237353193f0fa4cb155088c8bdb387faf91f009..3b192ef5bdc608411dded445bc63f1acfde1ff21 100644
--- a/docs/build/html/population_extensions/slurm.html
+++ b/docs/build/html/population_extensions/slurm.html
@@ -233,7 +233,7 @@ if grid_options[‘slurm’]==3, we are being called from the jobs to run the gr
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/population_extensions/spacing_functions.html b/docs/build/html/population_extensions/spacing_functions.html
index a48f9af94a844d1b693cefec633f5496f7a09268..0b5daec14742e5925a50b2f7c45fcf97fde3453d 100644
--- a/docs/build/html/population_extensions/spacing_functions.html
+++ b/docs/build/html/population_extensions/spacing_functions.html
@@ -322,7 +322,7 @@ not that the integral is 1.0</p>
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/population_extensions/version_info.html b/docs/build/html/population_extensions/version_info.html
index e57725141db6e6a6c7861ebcc14ff67d85ef6c3e..28ee9f31e276b5f50b350a7a04598162cb986f4e 100644
--- a/docs/build/html/population_extensions/version_info.html
+++ b/docs/build/html/population_extensions/version_info.html
@@ -199,7 +199,7 @@ dictionary</p>
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/py-modindex.html b/docs/build/html/py-modindex.html
index b390203d54407758ae797a184061ef6d82e8e855..789e7fab8302a12eef06dba6b7296b51cab4a652 100644
--- a/docs/build/html/py-modindex.html
+++ b/docs/build/html/py-modindex.html
@@ -222,7 +222,7 @@
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/readme_link.html b/docs/build/html/readme_link.html
index 93e97c7a6e575d852eee333e42ca4372c6347f42..3b3b4c4edf104b8268f65be86012cc82a913df1c 100644
--- a/docs/build/html/readme_link.html
+++ b/docs/build/html/readme_link.html
@@ -241,7 +241,7 @@
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/run_system_wrapper.html b/docs/build/html/run_system_wrapper.html
index 7e3019b833c736b631878f33d94a0bbd2f4ceb4b..57da36d97a99e230838e748ca7e512f286945ca5 100644
--- a/docs/build/html/run_system_wrapper.html
+++ b/docs/build/html/run_system_wrapper.html
@@ -193,7 +193,7 @@ and returns what the parse_function returns</p>
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/search.html b/docs/build/html/search.html
index ce833ad4db0eb24d066ae924f47ae069a7c7883e..3def287520fea3b9806088c4901badb417a700d6 100644
--- a/docs/build/html/search.html
+++ b/docs/build/html/search.html
@@ -100,7 +100,7 @@
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/searchindex.js b/docs/build/html/searchindex.js
index 3d445a14995b56f1233cc8a609a7a4e4e1504529..4985e9b25a8aac3a068b3c798feb9cee9bd39d13 100644
--- a/docs/build/html/searchindex.js
+++ b/docs/build/html/searchindex.js
@@ -1 +1 @@
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zytkow:[0,7]},titles:["Binary_c parameters","custom_logging_functions module","dicts module","ensemble module","Example notebooks","Example use case: Binary black hole systems","Example use case: Hertzsprung-Russell diagrams","Tutorial: Using the API functionality of binary_c-python","Example use case: Common-envelope evolution","Tutorial: Using custom logging routines with binary_c-python","Tutorial: Extra features and functionality of binary_c-python","Tutorial: Running individual systems with binary_c-python","Example use case: Zero-age stellar luminosity function in binaries","Example use case: Zero-age stellar luminosity function","Example use case: Massive star luminosity","Tutorial: Running populations with binary_c-python","Example use case: Solar system using the API functionality","Basic example","Binary_c and python example notebook","functions module","Population class module","Population grid code options","Welcome to binary_c-python\u2019s documentation!","Binarycpython code","plot_functions module","Population class extension: HPC module","Population class extension: Moe_di_Stefano_2017 module","Population class extension: analytics module","Population class extension: cache module","Population class extension: condor module","Population class extension: dataIO module","Population class extension: distribution_functions module","Population class extension: grid_logging module","Population class extension: grid_options_defaults module","Population class extension: gridcode module","Population class extension: metadata module","Population class extension: slurm module","Population class extension: spacing_functions module","Population class extension: version_info module","Python module for binary_c","run_system_wrapper module","stellar_types module","useful_funcs 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parameters","custom_logging_functions module","dicts module","ensemble module","Example notebooks","Example use case: Binary black hole systems","Example use case: Hertzsprung-Russell diagrams","Tutorial: Using the API functionality of binary_c-python","Example use case: Common-envelope evolution","Tutorial: Using custom logging routines with binary_c-python","Tutorial: Extra features and functionality of binary_c-python","Tutorial: Running individual systems with binary_c-python","Example use case: Zero-age stellar luminosity function in binaries","Example use case: Zero-age stellar luminosity function","Example use case: Massive star luminosity","Tutorial: Running populations with binary_c-python","Example use case: Solar system using the API functionality","Basic example","Binary_c and python example notebook","functions module","Population class module","Population grid code options","Welcome to binary_c-python\u2019s documentation!","Binarycpython code","plot_functions 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\ No newline at end of file
diff --git a/docs/build/html/stellar_types.html b/docs/build/html/stellar_types.html
index c9dd80431e0c7f4f84df2ec294efa786264e9233..c14f0d2e58716615e94b044b63eec20913b8b620 100644
--- a/docs/build/html/stellar_types.html
+++ b/docs/build/html/stellar_types.html
@@ -153,7 +153,7 @@
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/build/html/useful_funcs.html b/docs/build/html/useful_funcs.html
index 6600bdf1b35400f944705102bc7aca176ef9f6ef..afe07d32be51b30a371b5780662746d9a6178184 100644
--- a/docs/build/html/useful_funcs.html
+++ b/docs/build/html/useful_funcs.html
@@ -350,7 +350,7 @@ determine if two stars collide on the ZAMS</p>
provided by <a href="https://readthedocs.org">Read the Docs</a>.
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/source/_templates/footer.html b/docs/source/_templates/footer.html
index fcd77280941456f9c5f156086b24a7b61d58411f..efaf1b9ad49ac60e5b3ad75dd00c2888f8cbb593 100644
--- a/docs/source/_templates/footer.html
+++ b/docs/source/_templates/footer.html
@@ -2,7 +2,7 @@
{%- block extrafooter %}
<br><br>
-Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 65c361290c607d015366bca40731b634b361cfa0 url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
+Generated on binarycpython git branch: development_0.9.3/2.2.1 git revision 7e2b822d04dcc5482eabcc79ac1fe76bc42a6ece url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c-python/-/tree/development_0.9.3/2.2.1">git url</a>.
<br><br>
Using binary_c with bit branch branch_david: git revision: "5845:20220107:201620bd7" url: <a href="https://gitlab.surrey.ac.uk/ri0005/binary_c/-/tree/branch_david">git url</a>.
diff --git a/docs/source/badges/test_coverage.svg b/docs/source/badges/test_coverage.svg
index d76f04f02a173e1c79189ce9e75fcc71f7519589..6d68f472b0f880260c3f22f1fc057e768f16f432 100644
--- a/docs/source/badges/test_coverage.svg
+++ b/docs/source/badges/test_coverage.svg
@@ -9,13 +9,13 @@
</mask>
<g mask="url(#a)">
<path fill="#555" d="M0 0h63v20H0z"/>
- <path fill="#fe7d37" d="M63 0h36v20H63z"/>
+ <path fill="#dfb317" d="M63 0h36v20H63z"/>
<path fill="url(#b)" d="M0 0h99v20H0z"/>
</g>
<g fill="#fff" text-anchor="middle" font-family="DejaVu Sans,Verdana,Geneva,sans-serif" font-size="11">
<text x="31.5" y="15" fill="#010101" fill-opacity=".3">coverage</text>
<text x="31.5" y="14">coverage</text>
- <text x="80" y="15" fill="#010101" fill-opacity=".3">51%</text>
- <text x="80" y="14">51%</text>
+ <text x="80" y="15" fill="#010101" fill-opacity=".3">64%</text>
+ <text x="80" y="14">64%</text>
</g>
</svg>