Merge branch 'master' into jed/chem
Note merging a branch with good stuff in it for a year and a half is insane!

Conflicts:
src/ts/examples/tutorials/makefile
src/ts/interface/ts.c

--with-threadsafety no longer requires --with-debugging=0

Merge branch 'master' into stefano_zampini/pcbddc-adaptive-selection

Merge branch 'master' into knepley/feature-harmonic-advection

* master: (205 commits)
Bib: Added bio refs
Don't print SAWs URL since it disturbs all the test output
missing (double) cast in pr

Merge branch 'master' into knepley/feature-harmonic-advection

* master: (205 commits)
Bib: Added bio refs
Don't print SAWs URL since it disturbs all the test output
missing (double) cast in print statement
don't output to test file all 12 digits of values
fixes and additions to SNESQM manual pages
PetscViewerBinaryGetDescriptor() is now a collective and must be treated as such fixed some calls to PetscViewerBinarySetUseMPIIO() removed some test runs that take too long
removed dead routine
ViennaCL: Added MCS download mirror URL for version 1.6.2
shift order of processing options for TS to be compatiable with SAWs Fix options handling for SAWs to duplicate array that previously was deleted too soon for SAWs processing
remove some dead code for AD and old AMS java and Matlab utilities
add missing PetscFunctionBegin; that messed up displaying of stack
Viewer: Fixed PetscViewerBinarySetUseMPIIO() in some examples
removed unused variables, removed dead code from AMS
git is so freaking annoying I accidently made a bunch of updates in next which I pushed lets see if this diff makes the same changes in my branch Why can't git just forbid me to make changes or next or set up some utility to prevent it!
moved saws directory to proper share directory location updated source to point to it.
rm checkboxes at top of pcoptions.html (ugly and not useful) and centered display of solver
PetscOptionsObject->prefix was freed before using in SAWs post processing hence SAWs was unable to change any type which had a prefix
display URL to point to to access SAWs server
missing break in case for handling string arguments better description for Options database option handling
removed extern PC_CLASSID and KSP_CLASSID that don't belong in petscoptions.h
...

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Don't print SAWs URL since it disturbs all the test output

Merge branch 'barry/saws-options-merge-master'

Merge branch 'barry/rm-dead-code'

Merge branch 'master' into stefano_zampini/pcbddc-adaptive-selection

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

remove some dead code for AD and old AMS java and Matlab utilities

moved saws directory to proper share directory location updated source to point to it.

display URL to point to to access SAWs server

Merge branch 'jed/assembly-perf' into jed/mat-assembly-perf

Improve VecAssembly performance using BuildTwoSided

* jed/assembly-perf: (27 commits)
Vec: document when InsertMode cannot change betwe

Merge branch 'jed/assembly-perf' into jed/mat-assembly-perf

Improve VecAssembly performance using BuildTwoSided

* jed/assembly-perf: (27 commits)
Vec: document when InsertMode cannot change between reassemblies
VecAssembly BTS: allow reassembly with proper subsets of comm
BuildTwoSided: distinguish events BuildTwoSided vs BuildTwoSidedF
MPI: check for MPIX_Ibarrier (e.g., BG/Q)
VecAssembly BTS: enable by default, use -vec_assembly_bts 0 to disable
VecAssembly BTS: allow proper subsets with VEC_SUBSET_OFF_PROC_ENTRIES
VecAssembly BTS: VEC_SUBSET_OFF_PROC_ENTRIES elides global synchronization
VecAssembly BTS: elide sending empty scalar/block stashes
VecAssembly BTS: separate pending count for scalar and block stashes
VecAssembly BTS: use PetscCommBuildTwoSidedFReq and MPI_Waitsome
VecAssembly BTS: avoid copying data on receive by using pointer frames
Sys BuildTwoSidedFReq: generalization to return requests
VecAssembly: add more scalable implementation, -vec_assembly_bts
Vec_MPI: remove unused members conflated with VecStash
Sys: add PetscMergeMPIIntArray
Sys PetscMergeIntArrayPair: fix PetscFunctionBegin and comment
Sys BuildTwoSidedF_Ibarrier: less synchronous dynamic sparse data exchange
Sys BuildTwoSidedF: build two-sided network with functions in rendezvous
Sys BuildTwoSided test: extract datatype construction
Sys BuildTwoSided: update test for non-contiguous types and verbose output
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Merge branch 'master' into barry/saws-options-merge-master

Totally confusing manual merge, could be wrong

Conflicts:
include/petscoptions.h
src/dm/impls/da/dacreate.c
src/sys/objects/aoptions.c

Merge branch 'master' into barry/saws-options-merge-master

Totally confusing manual merge, could be wrong

Conflicts:
include/petscoptions.h
src/dm/impls/da/dacreate.c
src/sys/objects/aoptions.c
src/sys/threadcomm/interface/threadcomm.c

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Merge branch 'master' into pr252/dmay/PetscViewerBinarySkipHeaderVecViewLoad
Manual merge of makefile

Conflicts:
src/sys/classes/viewer/examples/tutorials/makefile

Merge branch 'master' into stefano_zampini/pcbddc-adaptive-selection

Merge branch 'barry/experiment'

added --with-threadsafety flag
other cleanup for threadsafety
removed Euclid due to bit rot

Merge branch 'barry/fix-valgrind'

valgrind include file should not be public to PETSc users by default

Merge branch 'barry/always-include-complex'

remove PETSC_DESIRE_COMPLEX and instead include complex with petscmath.h UNLESS PETSC_SKIP_COMPLEX is set (for SSL includes currently)

Merge branch 'barry/fix-dmda-1d-mirror' into maint

Merge branch 'barry/fix-dmda-1d-mirror'

did not mirror 1d DMDA values correctly due to previous change consulidating block size
-options_table should have been -options_view twenty years ago

Merge branch 'stefano_zampini/pcbddc-primalfixes' into stefano_zampini/pcbddc_deluxe