xref: /petsc/doc/changes/2015.md (revision 7f296bb328fcd4c99f2da7bfe8ba7ed8a4ebceee)

# Changes: 2.0.15

Highlights of new features in version 2.0.15, added since the last
public release of PETSc (2.0.Beta.13). See details in the sections
below.

- Added support for shared version of PETSc libraries for several
  machines to enable faster linking and smaller executables
- Added new parallel block row matrix format, improved efficiency
  for block diagonal formats
- Added a suite of routines to help manage the mappings between an
  application-defined ordering of variables and the ordering used by
  PETSc for matrices and vectors
- Expanded users manual information for performance tuning and
  profiling
- The option -log_summary now summarize of message-passing activity
  as well as flop rates.
- Running the test suite now requires much less disk space.
- Example programs are in the process of being reorganized into
  tutorials and tests (see, e.g., petsc/src/sles/examples/tutorials
  for tutorial-style examples for the linear solvers).
- The HTML version of the PETSc man pages now provides indices
  (organized by both concepts and routine names) to tutorial
  examples.

```{rubric} General
```

- Added support for shared libraries for the machines PETSC_ARCH =
  [sun4,solaris,alpha,IRIX,IRIX64,linux] to enable faster linking
  and smaller executables. To compile the shared libraries, install
  PETSc as usual and then execute the command make BOPT=g shared
  from the PETSc home directory (or use whatever BOPT you like). You
  can remove the shared libraries with the command make BOPT=g
  deleteshared Note: Shared libraries can also be used with
  PETSC_ARCH=freebsd and PETSC_ARCH=hpux if some minor modifications
  are made. For detailed instructions, see the files
  \$\{PETSC_DIR}/bmake/\$\{PETSC_ARCH}/base. Please write to us at
  <mailto:petsc-maint@mcs.anl.gov> if you encounter any problems when using
  the shared libraries.

- Users must now ALWAYS set the environmental variable PETSC_DIR to
  indicate the PETSc home directory. Previously, PETSC_DIR was set
  within the various makefiles within the PETSc installation.
  However, since this causes problems for shared libraries on some
  machines, the environmental variable PETSC_DIR is now used
  instead.

- Added global variables for use in debuggers:

  - PetscGlobalRank - processor's rank in MPI_COMM_WORLD
  - PetscGlobalSize - number of processors in MPI_COMM_WORLD

- For complex numbers versions (e.g., BOPT=g_complex): Added a
  global variable defining the imaginary number "i": PETSC_i

```{rubric} TS (Time Stepping Module)
```

- Changed TS_PSEUDO_POSITION_INDEPENDENT_TIMESTEP ->
  TS_PSEUDO_POSIND -
- Changed TSPseudoSetPositionIndependentTimeStep() ->
  TSPseudoSetPosIndTimeStep(). Even Barry couldn't stand names that
  long :-)

```{rubric} SNES (Nonlinear Solvers):
```

- The user can now set parameters used in matrix-free approximations
  of Jacobian-vector products, with the options -snes_mf_err \<err> :
  square root of relative error in computing function -snes_mf_umin
  \<umin>: minimum iterate parameter or by calling the routine
  SNESSetMatrixFreeParameters().
- Added the option -snes_mf_operator, which allows the user to apply
  the default matrix-free Jacobian but retain the user-provided
  Jacobian preconditioner matrix.
- Added the routine SNESGetTolerances() to extract the various
  parameters used for convergence testing.
- Initialized iteration counter to 0 for successive calls to SNES
  solvers.
- Changed the names for SNES runtime options associated with
  particular solvers to the forms -snes_eq_ls\_\<parameter_name> -
  nonlinear equations, line search method
  -snes_eq_tr\_\<parameter_name> - nonlinear equations, trust region
  method -snes_um_ls\_\<parameter_name>- unconstrained minimization,
  line search method -snes_um_tr\_\<parameter_name> - unconstrained
  minimization, trust region method Run program with -help for a
  detailed list of options.

```{rubric} SLES (Linear Solvers): See PC and KSP
```

- Changed the default linear solvers from GMRES(30) with Jacobi
  preconditioning to uniprocessor: GMRES(30) with ILU(0)
  preconditioning multiprocessor: GMRES(30) with block Jacobi
  preconditioning, where there is 1 block per processor, and each
  block is solved with ILU(0) See the users manual for additional
  options for the block Jacobi method. You can still employ the old
  default at runtime with the option -pc_type jacobi

```{rubric} KSP (Krylov subspace methods):
```

- Added routines KSPComputeEigenvalues(),
  KSPComputeEigenvaluesExplicitly() and runtime options
  -ksp_compute_eigenvalues, -ksp_plot_eigenvalues,
  -ksp_compute_eigenvalues_explicitly and
  -ksp_plot_eigenvalues_explicitly for users interested in examining
  the eigenvalues of the preconditioned operator to better
  understand the convergence of a chosen iterative method.
- Changed KSPSetCalculateExtremeSingularValues() ->
  KSPSetComputeExtremeSingularValues() - Changed
  KSPSetCalculateResidual() -> KSPSetComputeResidual()

```{rubric} PC (Preconditioners):
```

- Added the routine PCSetModifySubMatrices(), which allows the user
  to set an optional routine for modifying the entries of the
  submatrices that arise in certain subdomain-based preconditioners
  (ASM, block Jacobi, block Gauss-Seidel).

```{rubric} MAT (Matrices):
```

- Eliminated routine MatGetSubmatrix(); now use MatGetSubMatrices()
  even when extracting just 1 submatrix.
- Added routine MatDestroyMatrices()
- Fixed bug in MatGetSubMatrices() for successive calls for matrices
  having different nonzero structure.
- Added routine MatGetBlockSize(). - Changed routine MatGetInfo() so
  that it returns more information. See man page for details.
- Changed usage of MatGetReordering() and MatRegisterOrdering(); see
  man pages.
- Changed the prefix used for matrix operation names within
  MatShellSetOperation() and MatHasOperation(): MAT\_\<operation> ->
  MATOP\_\<operation> For example, MAT_MULT -> MATOP_MULT.

```{rubric} DA (Distributed Arrays):
```

```{rubric} VEC (Vectors):
```

```{rubric} IS (Index Sets):
```

- Changed ISCreateSeq() to ISCreateGeneral()
- Changed ISCreateStrideSeq() to ISCreateStride()
- Added routine ISCreateBlock() to create a blocked index set. See
  the man page for details and related routines.

```{rubric} Draw (Graphics):
```

- Added -draw_x_private_colormap option that causes PETSc to
  allocate a separate colormap for PETSc graphics windows. This
  prevents bad contour plots due to Netscape altering the default
  color map.
- You can now zoom in and out of contour plots using the option
  -draw_pause -1 and left and center mouse buttons.
- The option -draw_contour_grid will display the underlying grid on
  a contour plot.

```{rubric} VIEWERS:
```

- Added routine ViewerGetFormat().
- Added options -viewer_matlab_machine and -viewer_matlab_port
- Changed ASCII_FORMAT_xxx to VIEWER_FORMAT_ASCII_xxx and
  ASCII_FORMAT_INFO_DETAILED to VIEWER_FORMAT_ASCII_INFO_LONG
- Changed BINARY_FORMAT_xxx to VIEWER_FORMAT_BINARY_xxx
- PETSc now provides basic support for VRML viewers. Currently, one
  can draw surface contours of vector fields with the routine
  DFVecDrawTensorSurfaceContour(). Note that the VRML utilities will
  be expanded and the interface will change in the near future.

```{rubric} SYSTEM:
```

```{rubric} EVENT LOGGING:
```

```{rubric} FORTRAN INTERFACE:
```

- Changed PETSC_NULL_CHAR to PETSC_NULL_CHARACTER - Replaced
  PETSC_DEFAULT with
- You no longer need MPE to build PETSc.
- Included petsc/include/options.h within petsc/include/petsc.h -
- Changed distributed array name from RA to DA. Also changed
  DAGlobalToLocal() to DAGlobalToLocalBegin() followed by
  DAGlobalToLocalEnd().
- Changed usage of KSPBuildSolution() slightly to avoid copying when
  not needed.
- Remove first argument (rflag) from ALL options database commands,
  i.e., OptionsGetInt(0,0,"-m",&m) => OptionsGetInt(0,"-m",&m), etc.
- Changed the way memory tracing is done. When compiling with BOPT=g
  it is the default, but you may turn it off with -notrmalloc. When
  compiling with BOPT=O it is by default off, but one may turn it on
  with -trmalloc or -trdump.