ESSL: reorganize code that handles PETSC_MISSING_LAPACK by using PetscMissingLapack()

And sync the missing function list with missing functions in current ESSL

If we find more LAPACK symbols missin

ESSL: reorganize code that handles PETSC_MISSING_LAPACK by using PetscMissingLapack()

And sync the missing function list with missing functions in current ESSL

If we find more LAPACK symbols missing in commonly used LAPACK impls,
we can add them back in the new format.

src/ksp/pc/impls/bddc/bddcprivate.c has alternate code for
PETSC_MISSING_LAPACK_GESVD. This code is retained for now [in case we
need to add this flag back in]

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Merge remote-tracking branch 'origin/maint'

Merge remote-tracking branch 'origin/balay/essl-fixes/maint' into maint

essl: fix build by protecting code with PETSC_MISSING_LAPACK_ORGQR etc flags

Reported-by: Victor Eijkhout <eijkhout@tacc.utexas.edu>

Merge branch 'barry/2019-10-16/use-error-codes' into 'master'

Replace use of 1 with appropriate error code; use PetscObjecComm() instead of...

See merge request petsc/petsc!2182

Replace use of 1 with appropriate error code; use PetscObjecComm() instead of PETSC_COMM_SELF for errors when appropriate

Commit-type: error-checking, testing-fix, style-fix, examples

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

Merge remote-tracking branch 'origin/jczhang/fix-vecscattercreate-api'

Revert the function name where it is referenced

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

Merge branch 'stefano_zampini/fix-tao-update-ctx' [PR #1443]

* stefano_zampini/fix-tao-update-ctx:
Few small fixes to Tao before the release.

- TAOSetUpdate: change the Update callback
In SNES, t

Merge branch 'stefano_zampini/fix-tao-update-ctx' [PR #1443]

* stefano_zampini/fix-tao-update-ctx:
Few small fixes to Tao before the release.

- TAOSetUpdate: change the Update callback
In SNES, the update function does not uses contexts, and thus it does not appear in the callback prototype.
With TAO, since we are explcitily passing the ctx via TAOSetUpdate, we have to give it back to the user when performing the call

- Tao: PETSc does not print warnings

- MatAssembled: there's no point in checking the type
a matrix with type not set cannot be assembled

- TaoBNKEstimateActiveSet: Call MatHasOperation() only if the matrix has been assembled
the previous logic for MatGetDiagonal still holds. With this fix, the code will not error in case the hessian has not been assembled at this time

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TAOSetUpdate: change the Update callback

In SNES, the update function does not uses contexts, and thus it does not appear in the callback prototype
With TAO, since we are explcitily passing the ctx

TAOSetUpdate: change the Update callback

In SNES, the update function does not uses contexts, and thus it does not appear in the callback prototype
With TAO, since we are explcitily passing the ctx via TAOSetUpdate, we have to give it back to the user when performing the call

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Merge branch 'master' into jpusztay/feature-swarm-symplectic-example

Merge branch 'master' into jpustay/feature-swarm-example

Merged petsc/petsc into master

Merge branch 'master' into arcowie-rem/feature-error-logging

* master: (393 commits)
Bib: Update reference
Mat: Doc fix
Bib: Updated ref
PetscDS: Doc fixes
PC+LU: Do not try to refactor an

Merge branch 'master' into arcowie-rem/feature-error-logging

* master: (393 commits)
Bib: Update reference
Mat: Doc fix
Bib: Updated ref
PetscDS: Doc fixes
PC+LU: Do not try to refactor an already factored matrix
Mat: Small fix for checking and docs
Mat: Added MatSetFactorType() - Needed it when making a shell matrix look factored
PetscDS: Added PetscDSUpdateBoundary() - Lets the user change the boundary condition
single precision produces different convergence history
p4est: has a dependency on zlib - so handle it correctly
Add -mat_mffd_complex to use the Lyness complex number trick to compute J_u * v instead of differencing.
Replace VecWAXPY by VecAXPY if needed
Revert "Replace VecWAXPY by VecAXPY if needed"
Replace VecWAXPY by VecAXPY if needed
MatHermitianTransposeGetMat and MatCreateVecs
ex19: Updated test filter to avoid false positives.
DM: Improved Global-To-Natural docs Suggested-by: Josh L <ysjosh.lo@gmail.com>
Do not build shared openblas when doing static build
Upgrade OpenBLAS to 0.3.3
test: add alt output file for changes in OSX-10.14 and Xcode-10.0 [perhaps related to ML]
...

Conflicts:
src/vec/is/utils/vsectionis.c

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Merged petsc/petsc into master

Merge branch 'denera/tao-gauss-newton-wrapper' [PR #1151]

* denera/tao-gauss-newton-wrapper:
Regularized Gauss-Newton algorithm/wrapper
New BRGN algorithm added for regularized Gauss-Newton formulat

Merge branch 'denera/tao-gauss-newton-wrapper' [PR #1151]

* denera/tao-gauss-newton-wrapper:
Regularized Gauss-Newton algorithm/wrapper
New BRGN algorithm added for regularized Gauss-Newton formulation.
This algorithm is a thin wrapper that relies on TaoSetResidualRoutine() and TaoSetResidualJacobianRoutine() interfaces to accept the residual and Jacobian associated with a least-squares problem,
and then construct the internal objective, gradient and Hessian evaluation functions for the regularized problem formulation.
Currently only Tikhonov regularization is available, but other smooth regularizers are planned in the future.
The resulting regularized problem is passed onto an existing bound-constrained algorithm (e.g.: BQNLS or BNTL), controlled by the -tao_brgn_subsolver flag.

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Regularization changed to x-x_old, user hook added into optimization loops, eliminated explicit MatTransposeMatMult option in Hessian computation

Added the gauss-newton algorithm wrapper

Pounders updated to use the new LS residual interface

Merged petsc/petsc into master

Merged petsc/petsc into master

Merge from master

Merge branch 'master' into knepley/feature-dm-nearnullspace

* master: (219 commits)
petsc4py: update with VecScatter API changes
remove duplicate code
petsc4py: update to version 3.10.0
fixe

Merge branch 'master' into knepley/feature-dm-nearnullspace

* master: (219 commits)
petsc4py: update with VecScatter API changes
remove duplicate code
petsc4py: update to version 3.10.0
fixed typos in documentation
fixed typos in documentation
Fix some remaining Register()s to call InitializePackage()
Remove memory leaks of XXXRegister() is called but XXX object is never used
Add to PCTFS manual page that it does not work for complex numbers
Stray , in manual page that should be .
Only register MPI3 VecScatter if they are built
clarification of KSPSetComputeInitialGuess()
Add missing makefiles for VecScatter implementations
Changed VecScatterCreate() to take a communicator and return scatter as other first class PETSc objects do. Changed old VecScatterCreate() to VecScatterCreateWithData()
Added VecScatterSetUp() and converted implementations to use it to compute scatter information
Pull "MPI1" and "MPI3" specific code out of common VecScatter impls code This allows future implementations to use the common code also without changing the common code
Seperate VecScatter implementation code into three subdirectories seq, mpi1, and mpi3
doc: fix author list in manual wrt 6402aee
doc: fix LOCDIR wrt broken URL from MatHYPRESetPreallocation.html
ifort: ifx compile error with --with-mpi=0
changes/310.html: merged two TAO sections
...

Conflicts:
src/dm/interface/dm.c

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