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)

flow/models/cylinder3_.geo

@@ -174,10 +174,13 @@ Mesh.OptimizeNetgen = 1;
 Mesh.Smoothing = 10;
 Mesh.SmoothNormals = 1;
 
-Transfinite Line{1, 4, 5, 8} = 10;
-Transfinite Line{9, 10, 13, 14} = 30;
-Transfinite Surface(1);
-Transfinite Surface(4) = {4, 5, 15, 14};
+//Transfinite Line{1, 4, 5, 8} = 10;
+//Transfinite Line{9, 10, 13, 14, 31, 34} = 31;
+//Transfinite Surface(1);
+//Transfinite Surface(4) = {4, 5, 15, 14};
+//Transfinite Line{35, 36, 41, 42} = 20;
+//Transfinite Surface(15);
+//Transfinite Surface(16);
 
 // Physical
 Physical Line("teUp") = {9};