Plex+SNES+TS: Changed all of the callback function to take time as an argument

Merge branch 'master' into barry-allow-vecset-nan-3.6

Merge branch 'stefano_zampini/feature-pardiso-schur' of https://bitbucket.org/petsc/petsc into stefano_zampini/feature-pardiso-schur

Merge branch 'master' into shri/add-tsevent-to-powergrid-examples

Merge branch 'master' into stefano_zampini/feature-pardiso-schur

Branch got out of sync with master

We always start with petsc/master. Trying to fix a bug (submatrix reuse) reported by
Dmitry.
Merge remote-tracking branch 'petsc/master' into fix-pcgasm-reuse

Merge branch 'master' into pr263/PierreBdR/ts-domain-error-in-stage/master

Merge branch 'master' into barry/improve-git-download

Merge branch 'knepley/feature-snes-setfunctionnorm'

* knepley/feature-snes-setfunctionnorm:
SNES: Added SNESGet/SetFunctionNorm() I would rather have an interface than make users include the priva

Merge branch 'knepley/feature-snes-setfunctionnorm'

* knepley/feature-snes-setfunctionnorm:
SNES: Added SNESGet/SetFunctionNorm() I would rather have an interface than make users include the private SNES header
SNES: Add SNESSetConvergedReason()

show more ...

Merge branch 'master' into barry/always-mark-floats

Needed to merge in master to resolve conflicts that will appear when this branch is merged with master

SNES: Added SNESGet/SetFunctionNorm()
I would rather have an interface than make users include the private SNES header

SNES: Add SNESSetConvergedReason()

Merge branch 'master' into stefano_zampini/feature-pcbddc-saddlepoint

Conflicts:
src/ksp/pc/impls/bddc/bddcprivate.c

Merge branch 'master' of bitbucket.org:petsc/petsc

Merged in dalcinl/fix-lg-monitors (pull request #373)

LG monitors

LG monitors: Simplify KSP/SNES residual monitors

Remove routines {KSP|SNES}MonitorLG[[True]ResidualNorm]Destroy() and use
PetscDrawLGDestroy() for the monitor destroy routine.

Merge branch 'master' into tisaac/dmforest

Get 3.6.2 patches

* master: (1360 commits)
remove nasty memory leak with CUDA code when using block Jacobi with multiple blocks per process
print abs

Merge branch 'master' into tisaac/dmforest

Get 3.6.2 patches

* master: (1360 commits)
remove nasty memory leak with CUDA code when using block Jacobi with multiple blocks per process
print abs in Fortran test example in order to have same result with real and complex builds
changed outdate mpirun and -np to mpiexec and -n
force sqrt to be taken in the precision of PetscReal in fortran examples
continuation line too soon for some compilers
stop configure if user selected C++ clanguage, single precision, complex combination since we do not support it
fixes for Fortran examples to compile cleanly in single precision that do not involve complex numbers
fixes to Fortran examples to compile cleanly in single precision complex
fix previous mistake
must cast 1. to PetscScalar before dividing by a PetscScalar (C++ complex class is terrible)
must cast 0.0 to PetscScalar before comparison with a PetscScalar
changed order of suggested locations of downloadable PETSc to Barry's preference
Increase patchlevel to 3.6.2
remove debug print statement from two commits before
remove debug print statements I accidently left in the last commit
PetscDraw: Fix dummy definition of PetscDrawCollective{Begin|End}()
remove cleanupMumps flag from MatDestroy_Mumps() it should always free the memory it allocated Bug detected while adding features to libMesh
improved viewing of fractional counts in xml nested log viewing fixed bug in output of doubles to xml nested log files
chombo: build only libs - not examples
fix typo. 'gcc-4.8 --with-cxx-dialect=C++11' gives a warning with this line - even though its in a #ifdef thats never enabled.
...

show more ...

LG monitors: Use KSP/SNES communicators to create the PetscDraw contexts

To refactor the comments to follow petsc style.

Merge remote-tracking branch 'petsc/master' into fixed-comment-space

Conflicts:
include/petsc/finclude/petscmat.h
src/mat/examples/tests/makefile

To refactor the comments to follow petsc style.

Merge remote-tracking branch 'petsc/master' into fixed-comment-space

Conflicts:
include/petsc/finclude/petscmat.h
src/mat/examples/tests/makefile
src/mat/impls/aij/mpi/mpiov.c

show more ...

To add a space to all comments I have made before. Barry pointed out
that a comment without a space right after '/*' may cause bfort to crash

Merge remote-tracking branch 'petsc/master' into fixed-c

To add a space to all comments I have made before. Barry pointed out
that a comment without a space right after '/*' may cause bfort to crash

Merge remote-tracking branch 'petsc/master' into fixed-comment-space

Conflicts:
include/petsc/finclude/petscmat.h
include/petscmat.h
src/mat/examples/tests/makefile
src/mat/impls/aij/mpi/mpiaij.h

show more ...

Merge branch 'pr329/master/Fande-Kong/matpartitioning-hierarch' into pr361/master/Fande-Kong/pcgasm-increaseoverlap: need hierarch to build GASM subdomains.

Conflicts:
src/mat/examples/tests/makefi

Merge branch 'pr329/master/Fande-Kong/matpartitioning-hierarch' into pr361/master/Fande-Kong/pcgasm-increaseoverlap: need hierarch to build GASM subdomains.

Conflicts:
src/mat/examples/tests/makefile
src/mat/impls/aij/mpi/mpiaij.h

show more ...

Merge branch 'master' into pr352/dmay/pctelescope/master

Merge branch 'master' into pr358/buptphyphy/addmatcreatenormalhermitian/master

Merge branch 'tisaac/plex-feature-tree-fv'

Make the PetscFV gradient reconstruction method work for the
non-conforming meshes introduced by the Tree extension to DMPlex.

* tisaac/plex-feature-tree-

Merge branch 'tisaac/plex-feature-tree-fv'

Make the PetscFV gradient reconstruction method work for the
non-conforming meshes introduced by the Tree extension to DMPlex.

* tisaac/plex-feature-tree-fv: (52 commits)
Plex ex3: make test that works for single precision
PlexSNES: address compiler warning
DMPlex ex3: make test output PASS/FAIL rather than precision specific
Plex: fix type punning problem stuffing (PetscFECellGeom *) in a Vec
Plex: allow ex3 testFVgrad examples in complex
PetscFV: allow SVD pseudoinverse least squares gradient calculation for complex.
Plex ex3: put fv tensor examples in C_NoComplex tests
Plex ex3: update regression output for nonconforming examples
Plex ex3: make separate fe and fv tests
Plex ex3: use MPIU_MAX, not MPI_MAX
DMPlex: added DMPlexReconstructGradientsFVM()
Plex: fix typo in change to cohesive cell creation
Plex: add ex4 and ex5 to makefile so they can be used for regression tests
DMPlex: remove overzealous error condition from FV gradient reconstruction
DMPlex: correct pointSF size in new point shift approach
DMPlexMigrate(): use correct global indices when migrating tree
DMPlexMigrate(): Don't invalidate old DM by overwriting cones
Plex ex3: use DMPlexDistributeOverlap()
DMPlexPartitionLabelClosure: traverse the tree up and down
PetscPartitionerSimple: work in parallel
...

show more ...

Merge branch 'tisaac/dt-fix-geom-punning' into tisaac/plex-feature-tree-fv

Pull in a fix to FE geometry that affects the complex,64bit case

* tisaac/dt-fix-geom-punning: (240 commits)
Plex: fix t

Merge branch 'tisaac/dt-fix-geom-punning' into tisaac/plex-feature-tree-fv

Pull in a fix to FE geometry that affects the complex,64bit case

* tisaac/dt-fix-geom-punning: (240 commits)
Plex: fix type punning problem stuffing (PetscFECellGeom *) in a Vec
PGI compiler cannot handle [restrict] usage therefor disable restrict for PGI compiler Fix ex48.c to use PETSc standard way of marking restrict
PETSC_UNUSED must occur before the typename. With PGI compilers they error if it is after the type name
on solaris in TSAdaptChoose_Basic() negative root for zero could produce -infinity thus causing time step to be decreased even though the error estimate was zero
MatGetSchurComplement: revert test from LUMP back to DIAG and update output
there are no tests for opencl or viennacl so prevent warning message: make[2]: *** No rule to make target `testexamples_OPENCL', needed by `tree'. Stop. make[2]: *** No rule to make target `testexamples_VIENNACL', needed by `tree'. Stop.
incorrect initial conditions function that could produce floating point exception value (and does on windows) due to squareroot of non-negative number
forgot to fix rule for building ex194
move ex193.c to ex194 because someone else created a 193
remove outdate manual page comment
add missing VecRestoreArray()
add missing VecRestoreArray()
missing restore array in example
formating for print statements of test example with __float128 precision
fix example for __float128 precision by using PETSc math macros and casting PetscReal in print statements
remove Tao example custom monitor that produced different results for __float128 precision
all PETSc built in monitors require a valid PetscViewer, NULL is not acceptable
PETSc built in monitors always require viewers to be passed in, no longer support a NULL viewer
use tigher haptol for minres for quad precision because otherwise false positive of indefinite matrix appeared in example
check for PetscMPIInt overflow in ISAllGather()
...

show more ...