Fix for DMLocalToLocalBegin/End() introduced by commit ef605946e53f07e3ad39ab377ff50dceade0a2df
the code mistakenly used to->local.n_nonmatching even if it had not been initialed
Reported in issue #1

Fix for DMLocalToLocalBegin/End() introduced by commit ef605946e53f07e3ad39ab377ff50dceade0a2df
the code mistakenly used to->local.n_nonmatching even if it had not been initialed
Reported in issue #100

Reported-by: Constantine Khroulev <ckhroulev@alaska.edu>

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Merge branch 'master' into mesgarnejad/feature-plex-globaltonatural

* master: (219 commits)
revert sources to dev - reset PETSC_VERSION_RELEASE - reset changes/dev.html - enable cuda in configure

Merge branch 'master' into mesgarnejad/feature-plex-globaltonatural

* master: (219 commits)
revert sources to dev - reset PETSC_VERSION_RELEASE - reset changes/dev.html - enable cuda in configure
release: set v3.6 strings
doc: add PCGAMGSetReuseInterpolation() to changes file
fix: workarround static initialization issue (perhaps compiler bug) on opensolaris c/complex build
fix: ex40,ex41 errors in src/ts/examples/tutorials/ on bsd with c++/complex Perhaps this code nees a separate section when 'enorm == 0) - as pow(0,-0.33) = inf.
manual: fix format
more changes..
PCGASM/MatGetSubMatricesMPI() changes in dev.html.
changes: more updates
Add size checks for static arrays of assumed max size [-Warray-bounds]
Doc: Update to Changes
configure: default to useThreads= 0as the useThreads=1 code currently prints output in jumbled order [producing hard to read configure.log]
Delete PETSc viewer attribute if none are left on the linked list instead of putting an empty attribute
MatGetSubMatricesMPI_MPIAIJ(): guard for an empty B-matrix when delogging memory in MatSetSeqMats().
PCBDDC: fix typos in the specification of MPI operation
MPIU_SUM was used with MPIU_INT when it should only be used with MPIU_REAL or MPIU_SCALAR
fixed bad PetscPrintf() formatting in two examples
Plex: In pointwise callbacks, use embedding dimension
updates for generating Apple installations due to changes in locations of include files
configure: do not fail when checking MPICH version [similar to 2cadc8fc42fbad3c229d43b955581b8d29e02ad6 ]
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fix: workarround static initialization issue (perhaps compiler bug) on opensolaris
c/complex build

Merge remote-tracking branch 'petsc/master' into matpartitioning-hierach

doc fixes

SF: Added PetscSFCreateEmbeddedLeafSF()
- This name sucks, but it subsets on leaves instead of roots

Merged in stefano_zampini/islocaltoglobalmapping-reuseinfo (pull request #323)

ISLOCALTOGLOBALMAPPING: reuse cached info if present

Updated AOType values for Fortran include files, added into test example
AOSetIS() now PetscObjectReferences() the is.

Reported-by: Stefano Zampini <stefano.zampini@gmail.com>

SF: Added Fortran binding for SFView()

SF: Added PetscSFCompose()

SF: Added PetscSFCreateFromZero()

Merged in PR312: karpeev/ksp-pcgasm-overhaul.

ISLOCALTOGLOBALMAPPING: reuse cached info if present

added manual pages for VecGet/RestoreArrayReadF90()

Reported-by: Mark Adams <mfadams@lbl.gov>

Implemented ISBuildTwoSided

removed unneeded custom XXXViewFromOptions() functions and updated to use PetscObject as second argument calling sequence

changed second argument of PetscObjectViewFromOptions() to PetscObject and all routines that use this routine

Merged petsc/petsc into master

Fix manual typo as reported by Patrick Zarnas

changed a varible name

implemented ISBuildTwoSided

fix compile warnings
/usr/home/balay/petsc.clone-2/src/vec/vec/interface/vector.c:1944: warning: division by zero in '1.0e+0 / 0.'
/usr/home/balay/petsc.clone-2/src/ksp/ksp/interface/itfunc.c:508: wa

fix compile warnings
/usr/home/balay/petsc.clone-2/src/vec/vec/interface/vector.c:1944: warning: division by zero in '1.0e+0 / 0.'
/usr/home/balay/petsc.clone-2/src/ksp/ksp/interface/itfunc.c:508: warning: 'vec_rhs' may be used uninitialized in this function

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Merge branch 'barry/propagate-pcsetup-failures'

Merge branch 'barry/remove-thread-classes-master'

Infrastructure that allows failures in PCSetUp(), PCApply(), MatMult() etc due to, for example a zero pivot or function evaluation outside its domain, to propagate up and become a KSP_DIVERGED inste

Infrastructure that allows failures in PCSetUp(), PCApply(), MatMult() etc due to, for example a zero pivot or function evaluation outside its domain, to propagate up and become a KSP_DIVERGED instead of generating an error that stops the program. In response to Issue 96. This includes failures in MatCreateSNESMF() applications due to domain errors. The mechanism to propagate some errors is by setting Info or Nan into the output vector and using the norm or inner product reductions in SNES or KSP to propagate the error condition to all processes and then handling them immediately after the norm or inner product.

This allows, for example, ODE integrators to try again with a smaller time-step if the PCSetUp failed instead of requiring a complete restart of the run with other options.

Currently some error conditions, such as function domain error in a line search may not get progated up using the correct SNESConvergedReason

See src/snes/examples/tests/ex69.c for the handling of several conditions

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