# Changes: 3.1

```{rubric} General:
```

- PetscOptionsHasName() and PetscOptionsName() now return PETSC_TRUE
  if the options are set to any value, include false or 0. You may
  need to change some of your PetscOptionsXXName() to
  PetscOptionsXXTruth()
- Added configure option --with-single-library that causes all PETSc
  code to be compiled into the single library libpetsc.XXX
- PetscMap changed to PetscLayout and PetscMapInitialize() changed
  to PetscLayoutCreate() and it now allocates the space of the
  object.
- In makefiles include \$\{PETSC_DIR}/conf/base is replaced with two
  lines include \$\{PETSC_DIR}/conf/variables and  include
  \$\{PETSC_DIR}/conf/rules
- BlockSolve95 interface is removed
- petsc.h and petscdef.h are replaced with petscsys.h and
  petscsysdef.h; while petsc.h now includes ALL PETSc include files.
- win32fe [used for MS/Intel compiler builds on windows] now
  defaults to 'noautodetect' mode. However the previous behavior can
  be restored by using the option '--autodetect'. For eg:
  '--withcc=win32fe cl --autodetect'. This works primarily with old
  VC6/VC7/Intel8 etc compilers anyway.

```{rubric} Logging:
```

- PetscLogFlops(int) ->PetscLogFlops(PetscLogDouble). [check fortran
  usage]

```{rubric} config/configure.py:
```

- All ./configure options that state known values, so that
  ./configure doesn't try to test for them. Often used with the
  --with-batch option now begin with --known-

```{rubric} IS:
```

```{rubric} Vec:
```

```{rubric} VecScatter:
```

```{rubric} Mat:
```

- MatGetSubMatrix:

  - Now takes a parallel IS for the columns, the csize argument has
    been dropped. The local part of this IS corresponds to the
    local columns of the new submatrix.

- MatGetSubMatrixRaw

  - Removed, use MatGetSubMatrix

- Changed name of option MAT_KEEP_ZEROED_ROWS to
  MAT_KEEP_NONZERO_PATTERN to more clearly indicate what it does.

- Added MAT_SHARE_NONZERO_PATTERN as option for MatDuplicate() this
  allows several matrices to share the same data structures for the
  nonzeros and thus save memory.

- The function provided to MatNullSpaceSetFunction() now takes a
  MatNullSpace() as the first argument. Added Fortran interface for
  this function as well.

- Removed MatPBRelax() merged its functionality into MatRelax()

- Changed MatRelax() to MatSOR() to match MatSORType() and PCSOR

- Removed requirement that rows be sorted in
  MatCreateMPIAIJWithArrays() and MatMPIAIJSetPreallocationCSR().

- Changed MATOP_DIAGONAL_SHIFT to MATOP_DIAGONAL_SET to match
  function name MatDiagonalSet().

- MATMPIROWBS i.e BlockSolve95 interface is now removed.

```{rubric} PC:
```

- PCShell All user-provided functions now have PC as first argument
  instead of the application context. Users should obtain the
  context with PCShellGetContext, similar to MatShell.
- Removed -pc_asm_in_place and PCASMSetUseInPlace() since the option
  made no sense
- PCApplyRichardson() has an additional argument indicating if the
  initial guess being passed in is nonzero. SOR will save some work
  if it is zero.
- MatSetBlockSize() is no longer an error for BAIJ matrices, but the
  argument must be the same as when the matrix was preallocated.
- PCFactorSetPivoting() renamed to PCFactorSetColumnPivot()
- Replaced PCFactorSetShiftNonzero(), PCFactorSetShiftPd() and
  PCFactorSetShiftInBlocks() with PCFactorSetShiftType() and
  PCFactorSetShiftAmount(). Replaced -pc_factor_shift_nonzero,
  -pc_factor_shift_positive_definite and -pc_factor_shift_in_blocks
  with -pc_factor_shift_type \<shifttype> and -pc_factor_shift_amount
  \<shiftamount>.
- Added PCREDISTRIBUTE for load balancing and removal of Dirichlet
  degrees of freedom.

```{rubric} KSP:
```

- Added KSPCGUseSingleReduction() -ksp_cg_single_reduction;
  recommended for use with many processors when VecDot() starts to
  take a large amount of time, Requires 2 extra work vectors.
- Added KSPGCR (Generalized Conjugate Residuals), a flexible method
  (like FGMRES) providing inexpensive residuals.

```{rubric} SNES:
```

```{rubric} TS:
```

- Rename TS_EULER, TS_BEULER, etc like TSEULER for consistency with
  other packages.
- Add Theta and General Linear time integrators (TSTHETA, TSGL).
  These can be used for solving differential algebraic equations
  (DAE) using the new TSSetIFunction() and TSSetIJacobian().
- Add TSSSP which implements optimal strong stability preserving
  time integrators of order 2, 3, and 4 using a low-storage explicit
  Runge-Kutta scheme.
- Change TSSetPreStep() and TSSetPostStep() to run before and after
  each step instead of before and after each solve.

```{rubric} DA:
```

- DAGetColoring() now takes a MatType as an additional argument,
  should be MATAIJ or MATBAIJ
- Added DARefineHierarchy(), DMMG now always uses DMRefineHierarchy
  to generate refined grids. Added options
  -da_refine_hierarchy\_[xyz] to allow semi-coarsening at some levels
  of the hierarchy.
- DASetCoordinates() now references the vector, so the user should
  release their reference by calling VecDestroy().

```{rubric} DMMG:
```

```{rubric} PetscViewer:
```

```{rubric} SYS:
```

- PetscSleep(), PetscDrawGetPause(), and PetscDrawSetPause() now
  take PetscReal instead of int. Also, -draw_pause takes a real
  value.
- PetscRandomGetValueImaginary() is removed. To get a complex number
  with only a random imaginary part first call
  PetscRandomSetInterval() with the same low and high real part.
  Similarly one can obtain a complex number with only a random real
  part by setting the low and high imaginary part to be the same.

```{rubric} AO:
```

```{rubric} Sieve:
```

```{rubric} Fortran:
```

- Removed the old compiler dependent implementation of f90 interface
  sources in favor of the new compiler independent implementation.
  Consequently the configure option --with-f90-interface is removed.
  And the f90 interface is automatically built - if an f90 compiler
  is detected. [this is the default behavior before this change
  as well]
- use petsc and use petscdef are now use petscsys and use
  petscsysdef

```{rubric} ExternalPackages:
```

- Added MATORDERING_AMD for Tim Davis' Approximate Minimum Degree
  package.