Update waves

Created by: acrovato

Context

This pull request brings the last developments from the flow module as well as some upgrade to waves.

Major changes in flow

• flow is now able to compute 3D flows
• The Jacobian (tangent) matrix for the Netwton method is now fully analytical
• The adjacent elements identification is now based on ```std::unordered_set````

Major changes in waves

• tbox and fwk are now included in a namespace
• waves is now fully included in a namespace
• All elements now have a private memory (Mem) which can be publicly accessed
• All elements now have a cache including Gauss points (Gauss) which can be publicly accessed
• MshDeformation now uses a linear elasticity solver
• MshCrack class implemented (creates duplicate internal boundaries in meshes)

Test

The ctest battery has been run on gaston, 100% tests passed under 110s.

Future work

• Use automated indentation rules for the whole code
• Move methods using VTK outside of MshData
• Clean tbox (mainly MshData, Tri3, Tera4 and Hex8)

mrstlnos/src/LinearSolver.h

@@ -112,7 +112,7 @@ protected:
         )
     {
         /* @todo [AC] temporary fix for initializing Mem in mrstlnos */
-        for (auto e : pbl.msh->elem) {
+        for (auto e : pbl.msh->elems) {
             if (e->type() == ELTYPE::HEX8 || e->type() == ELTYPE::TETRA4) // 3D
                 e->getVMem().update(true);
             //else // 2D