PCBDDC: two dimensional problem detection should be consistent among processors

Merge branch 'master' into barry/saws-options

PCBDDC: define PCBDDCGraph marks in the correct header file

Marks are now namespaced

PCBDDC: dont throw away CSR passed in by the user when adapting interface classes

PCBDDC: option for using or not local matrix graph of adjacency when analyzing the interface

This can be beneficial for edge-elements discretizations (e.g. Nedelec elements)

PCBDDC: solved tags clashing when collecting information from shared subdomains

the bug originated when using PCBDDC with dolfin + nedelec

Merge branch 'master' into stefano_zampini/pcbddc-multilevel-improvement

Conflicts:
src/docs/website/documentation/changes/dev.html
src/ksp/ksp/examples/tutorials/ex59.c
src/ksp/pc/impls/bddc/bdd

Merge branch 'master' into stefano_zampini/pcbddc-multilevel-improvement

Conflicts:
src/docs/website/documentation/changes/dev.html
src/ksp/ksp/examples/tutorials/ex59.c
src/ksp/pc/impls/bddc/bddcprivate.c

show more ...

Merge branch 'master' into shri/ts-events

Conflicts:
src/ts/interface/ts.c

Merge branch 'master' into shri/feature-dm-circuit

Conflicts:
src/dm/impls/makefile

Merge branch 'master' into prbrune/matcoloring-greedy

Merge branch 'master' into knepley/feature-plex-fas

* master: (863 commits)
Revert "mpich: use latest mpich tarball with gcov but use '--enable-coverage' mpich configure option."
MatCreateTransp

Merge branch 'master' into knepley/feature-plex-fas

* master: (863 commits)
Revert "mpich: use latest mpich tarball with gcov but use '--enable-coverage' mpich configure option."
MatCreateTranspose: fix for lazy block size
mpich: use latest mpich tarball with gcov but use '--enable-coverage' mpich configure option.
configure: add FC_DEFINE_FLAG to petscvariables
added a citation for pounders, Stefan finally came through
update to latest netcdf fixes bug that did not allow building on recent Mac OS X
DMPlex: Fixes for CGNS - Fixed loop bounds since CGNS uses closed intervals - Bug with mixed cell types - Typo with coordinates
final updates from nightly tests
fix for countcfunction
removed outdated docs and comments on MatStructure usage removed SAME_PRECONDITIONER since no longer used removed unneed use of MatStructure in Schur complement matrix
removed MatStructure arguments from Tao
fixes for Sundials and fun3d cannot use MPIU_SUM for integer arrays
inplace ILU factorization must update state of inplace matrix to prevent infinite recursion of updating PC
fixes for BDDC by the way not having BDDC always in the testing is going to lead to trouble
the compute Jacobian functions for SNES and TS now do not take a MatStructure flag
KSPSetOperators() no longer has the MatStructure argument. The Mat objects now track that information themselves. Use KPS/PCSetReusePreconditioner() to prevent the recomputation of the preconditioner if the operator changed in the way that SAME_PRECONDITIONER did with KSPSetOperators()
tracks when Mat's have a change in nonzero structure this information can be used by PC to determine how preconditioners must be rebuilt currently only does an error check if the user said same nonzero pattern but actually changed the pattern
completed cleanup of removal of matrix pointers to compute jacobian routines
makefile: Added 'make includegraph' to create an inclusion dependency graph.
Contrib: Updated include-graph.sh script to ignore *.hh files
...

Conflicts:
src/dm/dt/interface/dt.c

show more ...

Merging master with feature-dmmoab. Only conflict was with SOURCECXX specification under impls/moab/makefile.

Merged petsc/petsc into master

Merge branch 'master' into prbrune/snes-fascontinuation

Conflicts:
include/petscsnesfas.h

Merge commit 'PCBDDC: fix headers after batch change from <> to ""'

PCBDDC: fix headers after batch change from <> to ""

Merge branch 'master' into barry/ts-rhsjacobian-only

Merge branch 'shri/update-SuiteSparse' into shri/external-package-KLU

Conflicts:
conf/test
config/examples/arch-linux-pkgs-dbg-ftn-interfaces.py
config/examples/arch-linux-pkgs-opt.py

Merge branch 'balay/tao-to-petsc'

Conflicts:
src/snes/impls/fas/fasfunc.c
src/snes/impls/fas/fasgalerkin.c

fixed quote marks for includes to <>

Merge branch 'master' into balay/tao-to-petsc

Conflicts:
include/makefile

Merge branch 'master' into knepley/feature-mat-zerorowscols-baij

Merge branch 'master' into barry/wirth-fusion-materials
bad manual merge needs to be fixed
this is what happens when branches hang around too long

Conflicts:
src/ts/examples/tutorials/advection-dif

Merge branch 'master' into barry/wirth-fusion-materials
bad manual merge needs to be fixed
this is what happens when branches hang around too long

Conflicts:
src/ts/examples/tutorials/advection-diffusion-reaction/ex10.c

show more ...

Merged petsc/petsc into master

Merge branch 'stefano_zampini/pcbddc-reusebddc'

* stefano_zampini/pcbddc-reusebddc:
PCBDDC: remove unneeded code to check nearnullspace
PCBDDC: remove trailing whitespaces from source
PCBDDC:

Merge branch 'stefano_zampini/pcbddc-reusebddc'

* stefano_zampini/pcbddc-reusebddc:
PCBDDC: remove unneeded code to check nearnullspace
PCBDDC: remove trailing whitespaces from source
PCBDDC: solved compilation error with complex build
PCBDDC: introduce a new variable in PCBDDC data stucture to store the actual number of current vertices (corners with constraints with basis changed)
PCBDDC: make BtoNmap a member of bddc data struct (created once after PCISSetUp)
PCBDDC: check of dirichlet and neumann solvers is not needed if pcbddc->NullSpace is not present
PCBDDC: improved reuse of coarse matrix
PCBDDC: better management of primal space. Now a coarse numbering is computed if and only if the primal space has been really changed
PCBDDC: allow different customization of dirichlet and neumann boundary indices among successive linear solves
PCBDDC: now PCBDDC reuses part of its private data if NearNullSpace customization is changed between different linear solves
PCBDDC: local work vectors should be created only if new constraints are created and the relevant sizes are different
PCBDDC/PCIS: make vec4_D a member of pcis, not pcbddc
PCBDDC: Prepare for different primal spaces customization among different linear solves
PCBDDC: demand object destruction to setup routines for BDDCGraph and constraints

Conflicts:
src/ksp/pc/impls/bddc/bddcprivate.c (also update PetscMalloc[1-7])

show more ...