GitLab

Fixed bug in auto-differentiation that would calculate incorrect weights
for derivatives in ad_val().
Adapted several geometrical and adjacency retrieval algorithms to handle
broken conformity of the grid during modification, more attention to the
problem is needed.
Added visual studio debugger helpers.
Fixed several issues with openmp support.
Added openmp parallelization of BiCGStab(L) solver.
Fixed issues that files overwritten with MPI_File* functionality may
contain previous information.
Fixed a bug in OctreeCutcell, added another example for it.
Fixed a bug in collective operations in mesh class.

Restored OctreeCutcell example;
Added FixEdgeOrder, CheckEdgeOrder algorithms to check of consistency of
2d elements;
Element::Connect now uses FixEdgeOrder for faces;
Automatic grid dimension detection for vtk;
Fixed bug that sets may contain invalid links to elements even after
ApplyModification;
Corrected condition estimator in ddpqiluc;
Switched off pseudoinverse in bicgstab(l) since svd algorithm is bad.

Pseudoinverse for polynomial matrix in bicgstab(l) to improve stability
(as in petsc);
Added RowMerger class for sum of sparse rows.

Synchronizing various changes

Replaced russian comments in doxygen.
Examples with OpenGL would not lead to error in cmake if no library is
found.

Petsc understands common parameters. Support for different option files
for Petsc and Trilinos. Please see files in examples/MatSolve.

Install instructions from readme file were tested on Linux machine.

Added code comments, small fixes and improvements.