TSGLEE, TS: Renamed TSGetAuxSolution to TSGetSolutionComponents

TS, TSGLEE: created an interface for a "starting method". Set it to a default starting method for TSGLEE.

TS, TSGLEE: added interface for getting "auxiliary" solutions, which in the case of TSGLEE, is the y~ or the eps

TSGLEE: Implemented the General Linear methods with Error Estimation

Merge branch 'shri/ts-post-evaluate'

TSPostEvaluate: Format doc line to conform display width.

TSPostEvaluate: Updated docs for TSSetPostEvaluate() and TSSetPostStep() to explain the differences between the two.

TSPostEvaluate: Support for setting a custom post evaluate function (Only added to TSRK for now)

TSPostEvaluate can be used for modifying the solution after the step evaluation. Having TSPostEvaluat

TSPostEvaluate: Support for setting a custom post evaluate function (Only added to TSRK for now)

TSPostEvaluate can be used for modifying the solution after the step evaluation. Having TSPostEvaluate enables
the user to solve DAEs with PETSc's explicit methods using a partitioned approach in which the differential
variables are updated by the time-stepping solver while the algebraic variables are updated through user
callbacks in TSPostStage() and TSPostEvaluate(). Another use of TSPostEvaluate is to modify the solution such as
via some filtering. Typically such filtering operations (from Emil) are done in TSPostStep(). However, TSEvent can
modify the solution if it detects an event thus making the action taken in TSPostStep() invalid. So, instead of
doing the filtering in TSPostStep(), the users should rather do it in TSPostEvaluate().

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Merge branch 'tisaac/sys-fix-realloc' into tisaac/petscfe-matching-quadrature-order

* tisaac/sys-fix-realloc: (71 commits)
Sys: fix PetscTrReallocDefault() and PetscReallocAlign()
clearify when

Merge branch 'tisaac/sys-fix-realloc' into tisaac/petscfe-matching-quadrature-order

* tisaac/sys-fix-realloc: (71 commits)
Sys: fix PetscTrReallocDefault() and PetscReallocAlign()
clearify when MatMkl_CPardisoSetCntl() can be used in the manual pages
Fixed manual page for -snes_anderson_beta
Update zfftf.c
remove Hermitian information from output since it is only produced in complex case and thus produces different test output
fixes for 64 bit integers in test example, fix uninitialized variable in test example
tests: move runex49 to TESTEXAMPLES_C_NOTSINGLE
add a PCView_SVD to show parameters
-petscpartitioner_type simple was not being picked up by options thus generating test error
missing CHKERRQ(ierr) on PetscPrintf() statements in newly added test example
PetscViewerVTK: Move DM reference increment into the VTK viewer and out of the DM implementation, as suggested by Jed Brown
missing crosslinks between manual pages
Updated 3.7 release notes to clearly indicate how to update usage of KSP/SNES/TS/SetMonitor(xxx,XXXMonitorDefault,NULL,NULL);
Fix for commit b6480e041dd2293a65f96222772d68cdb4ed6306 that broke this example
Example of factorization of a singular matrix may actually work due to round off
removed unused variables
matshell: clean up and add some new MATOPs to Fortran.
Remove unneeded checks for use of the compressed row for diagonal block of matrices in GAMG
ptscotch: update to version 6.0.4
ptscotch: fix buggy pthread detection code on Mac/Linux
...

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doc: more non-ascii char fixes

Merge branch 'tisaac/dmplex-fix-nonaffine-geom' into tisaac/petscfe-matching-quadrature-order

* tisaac/dmplex-fix-nonaffine-geom:
fixing Toby's fix
DMPlexComputeGeometryFEM(): clarify what is ex

Merge branch 'tisaac/dmplex-fix-nonaffine-geom' into tisaac/petscfe-matching-quadrature-order

* tisaac/dmplex-fix-nonaffine-geom:
fixing Toby's fix
DMPlexComputeGeometryFEM(): clarify what is expected if fe != NULL and correct computations accordingly
added checks for AIJ in MIS and GAMG
Bib: Added refs
loop upper bound was one too high
force runex22_4 to produce same output in __float128 precision where it wants to do one more timestep
remove duplicate .bib item, fix typos in .bib items
Fortran wrapper for DMGetType (copy-pasted from src/mat/interface/ftn-custom/zmatregf.c).
Variants of example also need to handle atol convergence with quad precision in test
Add rtol and atol to output of TSView ASCII
Fortran wrapper for MatNullSpaceGetVecs
MATIS: fix compiling error from nightly builds
MATIS: set block size if it is greater than zero
MATIS: added MatTranspose_IS
Quadrature: Fix creation init
Plex: Fix output optimization - We obviously have no test for this logic

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Merge branch 'master' into barry/fix-successful-numerical-factorization-after-failure/master

The maint patch for the given problem cannot merge cleanly into next due to changes
in the same code in m

Merge branch 'master' into barry/fix-successful-numerical-factorization-after-failure/master

The maint patch for the given problem cannot merge cleanly into next due to changes
in the same code in master (the introduction of MatFactorGetError()) therefor need
to merge in master and use the new construct before merging to next

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Merge branch 'barry/ts-view-tolerances'

Merge branch 'master' into psanan/pc-telescope-nearnullspace

Add rtol and atol to output of TSView ASCII

Time: 1 hour
Reported-by: Sophie Blondel <sblondel@utk.edu>

Merge branch 'master' into mark/snes-ex56

* master: (93 commits)
Web: Added a tutorial
typo
rename X -> U
sowing: update to version that creates manpage URLs for 'enum' types/values
Increa

Merge branch 'master' into mark/snes-ex56

* master: (93 commits)
Web: Added a tutorial
typo
rename X -> U
sowing: update to version that creates manpage URLs for 'enum' types/values
Increase patchlevel to 3.7.3
move runex3_3 to NOTSINGLE [ partial backport 9ed0bd76d5c329eb91401ebabfbd851446214e20 ]
DMPlex: local coordinate vector should be a sequential vector
DM: Name coordinate vectors in subdomain and restrict hooks
tests: disable a couple of TS examples from single precision tests
reduce TS ex12_2 output
fix PetscFormatRealArray() to cast PetscReal in print statement to double so works for __float128 precision
Vec: enable Fortran interfaces for VecGetLocalVectorRead and VecRestoreLocalVectorRead
Bib: Added refs
PCShell: man page fixes
update handling of latex in example code to use https
fix typo in isltog comment
test: Avoid conversion of object <-> function pointer type [-Wpedantic]
fortran: enable interface for VecGetLocalVector(), VecRestoreLocalVector()
update citation for cmz2016
PCBDDC: silent compilation warnings from nightlybuilds
...

# Please enter a commit message to explain why this merge is necessary,
# especially if it merges an updated upstream into a topic branch.
#
# Lines starting with '#' will be ignored, and an empty message aborts
# the commit.

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Merge branch 'maint'

Merge branch 'barry/fix-multiple-identical-monitors/maint' into maint

Merge branch 'emil/rename-gl-to-glle'

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

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

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

Conflicts:
src/docs/website/documentation/changes/dev.html
src/ksp/ksp/examples/tutorials/ex59.c
src/ksp/pc/impls/bddc/bddc.c
src/ksp/pc/impls/bddc/bddcfetidp.c
src/ksp/pc/impls/bddc/bddcprivate.c
src/ksp/pc/impls/bddc/bddcschurs.c
src/mat/impls/is/matis.c
src/mat/impls/is/matis.h

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-xxx_monitor would result in multiple output of the same data if xxxSetFromOptions() was called multiple times

Time: 1 hour
Reported-by: Fande Kong <fande.kong@inl.gov>

TS: Changed TSGL to TSGLLE because TSGL is too general and we want to emphasize that TSGLLE is a type of GL with local error estimation.

Merge branch 'maint'

Merge branch 'barry/fix-tscomputerhsjacobianconstant/maint' into maint

Revert Barry's commit bd373395e526a8abeca18718888f591d98e14969

It broke Jed's cool support for TS TSComputeRHSJacobianConstant
Had Jed actually added his test cases to the nightly build this
breakag

Revert Barry's commit bd373395e526a8abeca18718888f591d98e14969

It broke Jed's cool support for TS TSComputeRHSJacobianConstant
Had Jed actually added his test cases to the nightly build this
breakage would have been detected immediately but instead it had to
take years to find. Why write the test cases if you are not going to
add them to be run automatically with testing?

Update the test output for changes in formatting of various XXView commands
and added the tests to be automatically run!

Reported-by: Dominic Meiser <dmeiser@txcorp.com>

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