feat(poly): moved to a block form for poly

essential dofs can be applied to both theta and phi (grad theta) if we move to a block form. I have done this derivation and made that change so that we can properly apply the central boundary condition to the slope

src/poly/solver/public/polySolver.h

@@ -2,13 +2,11 @@
 #define POLYSOLVER_H
 
 #include "mfem.hpp"
-#include <iostream>
-#include <string>
 #include <memory>
+#include <utility>
 
-#include "meshIO.h"
-#include "polyCoeff.h"
-#include "polyMFEMUtils.h"
+#include "integrators.h"
+#include "operator.h"
 #include "config.h"
 #include "probe.h"
 #include "quill/Logger.h"
@@ -20,35 +18,44 @@ namespace laneEmden {
 }
 
 class PolySolver {
-private:
-    Config& config = Config::getInstance();
-    Probe::LogManager& logManager = Probe::LogManager::getInstance();
-    quill::Logger* logger;
-    double n, order;
-    mfem::Mesh& mesh;
-    
-    std::unique_ptr<mfem::H1_FECollection> feCollection;
-    std::unique_ptr<mfem::FiniteElementSpace> feSpace;
-
-    std::unique_ptr<polyMFEMUtils::CompositeNonlinearIntegrator> compositeIntegrator;
-    std::unique_ptr<mfem::NonlinearForm> nonlinearForm;
-
-    std::unique_ptr<mfem::GridFunction> u;
-
-    std::unique_ptr<mfem::VectorFunctionCoefficient> diffusionCoeff;
-    std::unique_ptr<mfem::FunctionCoefficient> nonlinearSourceCoeff;
-
-    void assembleNonlinearForm();
-
-
-public:
-    PolySolver(double n, double order, mfem::Mesh& mesh_);
+public: // Public methods
+    PolySolver(double n, double order);
     ~PolySolver();
+
     void solve();
-    mfem::Mesh& getMesh() { return mesh; }
-    mfem::GridFunction& getSolution() { return *u; }
-    double getN() { return n; }
-    double getOrder() { return order; }
+
+    double getN() { return m_polytropicIndex; }
+    double getOrder() { return m_feOrder; }
+    mfem::Mesh* getMesh() { return m_mesh.get(); }
+    mfem::GridFunction& getSolution() { return *m_theta; }
+
+private: // Private Attributes
+    Config& m_config = Config::getInstance();
+    Probe::LogManager& m_logManager = Probe::LogManager::getInstance();
+    quill::Logger* m_logger = m_logManager.getLogger("log");
+    double m_polytropicIndex, m_feOrder;
+    
+    std::unique_ptr<mfem::Mesh> m_mesh;
+    std::unique_ptr<mfem::H1_FECollection> m_fecH1;
+    std::unique_ptr<mfem::RT_FECollection> m_fecRT;
+
+    std::unique_ptr<mfem::FiniteElementSpace> m_feTheta;
+    std::unique_ptr<mfem::FiniteElementSpace> m_fePhi;
+
+    std::unique_ptr<mfem::GridFunction> m_theta;
+    std::unique_ptr<mfem::GridFunction> m_phi;
+
+    std::unique_ptr<PolytropeOperator> m_polytropOperator;
+
+
+private: // Private methods
+    void assembleBlockSystem();
+    std::pair<mfem::Array<int>, mfem::Array<int>> getEssentialTrueDof();
+    mfem::Array<int> findCenterElement();
+    void setInitialGuess();
+    void saveAndViewSolution();
+
+
 };
 
 #endif // POLYSOLVER_H