Code cleanup

docs/build/html/_modules/index.html

@@ -85,16 +85,26 @@ <h3 id="searchlabel">Quick search</h3>
           <div class="body" role="main">
 
   <h1>All modules for which code is available</h1>
-<ul><li><a href="spatialpy/BoundaryCondition.html">spatialpy.BoundaryCondition</a></li>
-<li><a href="spatialpy/DataFunction.html">spatialpy.DataFunction</a></li>
-<li><a href="spatialpy/Domain.html">spatialpy.Domain</a></li>
-<li><a href="spatialpy/Geometry.html">spatialpy.Geometry</a></li>
-<li><a href="spatialpy/InitialCondition.html">spatialpy.InitialCondition</a></li>
-<li><a href="spatialpy/Model.html">spatialpy.Model</a></li>
-<li><a href="spatialpy/Result.html">spatialpy.Result</a></li>
-<li><a href="spatialpy/Solver.html">spatialpy.Solver</a></li>
-<li><a href="spatialpy/VTKReader.html">spatialpy.VTKReader</a></li>
-<li><a href="spatialpy/stochss/StochSSexport.html">spatialpy.stochss.StochSSexport</a></li>
+<ul><li><a href="collections.html">collections</a></li>
+<li><a href="itertools.html">itertools</a></li>
+<li><a href="plotly/offline/offline.html">plotly.offline.offline</a></li>
+<li><a href="scipy/spatial/kdtree.html">scipy.spatial.kdtree</a></li>
+<li><a href="spatialpy/core/boundarycondition.html">spatialpy.core.boundarycondition</a></li>
+<li><a href="spatialpy/core/cleanup.html">spatialpy.core.cleanup</a></li>
+<li><a href="spatialpy/core/datafunction.html">spatialpy.core.datafunction</a></li>
+<li><a href="spatialpy/core/domain.html">spatialpy.core.domain</a></li>
+<li><a href="spatialpy/core/geometry.html">spatialpy.core.geometry</a></li>
+<li><a href="spatialpy/core/initialcondition.html">spatialpy.core.initialcondition</a></li>
+<li><a href="spatialpy/core/model.html">spatialpy.core.model</a></li>
+<li><a href="spatialpy/core/parameter.html">spatialpy.core.parameter</a></li>
+<li><a href="spatialpy/core/reaction.html">spatialpy.core.reaction</a></li>
+<li><a href="spatialpy/core/result.html">spatialpy.core.result</a></li>
+<li><a href="spatialpy/core/spatialpyerror.html">spatialpy.core.spatialpyerror</a></li>
+<li><a href="spatialpy/core/species.html">spatialpy.core.species</a></li>
+<li><a href="spatialpy/core/vtkreader.html">spatialpy.core.vtkreader</a></li>
+<li><a href="spatialpy/solvers/build_expression.html">spatialpy.solvers.build_expression</a></li>
+<li><a href="spatialpy/solvers/solver.html">spatialpy.solvers.solver</a></li>
+<li><a href="spatialpy/stochss/stochss_export.html">spatialpy.stochss.stochss_export</a></li>
 </ul>
 
           </div>