Configure: Fixed Boost headers-only install
- Have to remove the link to headers that was made if it exists

Merge branch 'barry/fix-pardiso/maint'

1) Look for 64 bit integer MKL BLAS if 64 bit indices are used with PETSc
2) Fix Pardiso code to only compile pardiso_init64 when needed, otherwise can generate warnings/errors

Commit-type: portabil

1) Look for 64 bit integer MKL BLAS if 64 bit indices are used with PETSc
2) Fix Pardiso code to only compile pardiso_init64 when needed, otherwise can generate warnings/errors

Commit-type: portability-fix, feature
Reported-by: Pierre Jolivet <pierre.jolivet@enseeiht.fr>

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Merge branch 'knepley/feature-plex-elasticity-test' [PR #1071]

* knepley/feature-plex-elasticity-test:
Makes a test for regular elasticity.
Matt setups everything so that we can do GMG (ex56 does AM

Merge branch 'knepley/feature-plex-elasticity-test' [PR #1071]

* knepley/feature-plex-elasticity-test:
Makes a test for regular elasticity.
Matt setups everything so that we can do GMG (ex56 does AMG).
There are also crucial improvements in the check routines.

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Merge remote-tracking branch 'origin/knepley/fix-plex-submesh-projection'

Merge remote-tracking branch 'origin/barry/libceed'

Merge branch 'maint'

Netcdf should always build netcdf-4 (needed for example by exodusii.

Commit-type: bug-fix, feature
Reported-by: Adrian Croucher <a.croucher@auckland.ac.nz>

Merge branch 'maint'

netcdf: set zlib as optional dependency corretly [wrt --enable-netcdf-4] - otherwise netcdf configure errors out

Reported-by: "Marin, Oana" <oanam@mcs.anl.gov>

Merge branch 'master' into knepley/feature-plex-elasticity-test

* master: (1553 commits)
-options_table was changed to options_view in 2014 but documentation was not updated to reflect it
config

Merge branch 'master' into knepley/feature-plex-elasticity-test

* master: (1553 commits)
-options_table was changed to options_view in 2014 but documentation was not updated to reflect it
configure: fix F2003 test
Plex test ex5: Removed "future" test, as it resulted in issues in the nightly tests.
Some minor typos in TS
Add ADIOS2.py which I forgot to git add in the past
Plex ex5: Disable test
Doc: Added note for interface change
KSPLSQRMonitorDefault fixed for quad precision
Tao: Added alternative output for chwirut2 test.
TS ex45,ex46: Removed overly refined tests for faster nightly tests.
KSP ex72: Fixed needlessly long-running PCTFS tests.
SNES ex56: Reduced test size to speed up nightly test suite.
KSPSolve_LSQR: don't compute unused norm of rhs
SNES ex13: Reduced problem sizes for nightly tests.
PetscOptionsDeprecated(): fix for NULL prefix
PetscOptionsDeprecated(): add option to print additional info
SNES ex12: Reduced sizes for BDDC tests.
PetscFileRetrieve(): Suppress output to STDERR when downloading a file.
MatMatMult: Fixed unused variable pN.
DMDestroy: Guard call to dm->ops->destroy * Similar guards are in place in many other methods (IS,Vec,Mat) and permit the DM to be destroyed even if DMSetType() was never called.
...

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Merge remote-tracking branch 'origin/barry/CoDiPack'

Merge remote-tracking branch 'origin/barry/adios2'

Merge branch 'maint'

configure: fix F2003 test

Reported-by: "Appel, Thibaut" <t.appel17@imperial.ac.uk>

Add ADIOS2.py which I forgot to git add in the past

Commit-type: bug-fix

Development Tools: Vim, Emacs, Eclipse

very simple, limited feature installer for libCeed

Commit-type: feature

Merge branch 'master' into knepley/fix-plex-submesh-projection

* master: (425 commits)
remove N in docs for SNESQN
replaced test tolerance with PETSC_SQRT_MACHINE_EPSILON
fortran: PetscComplex

Merge branch 'master' into knepley/fix-plex-submesh-projection

* master: (425 commits)
remove N in docs for SNESQN
replaced test tolerance with PETSC_SQRT_MACHINE_EPSILON
fortran: PetscComplex type is missing from fortran
initialize variables so that static analyzer doesn't mistakenly think they are used uninitialized.
Move access of prefix until it is actually used
Remove DMDASplitComm2d(), used in one example that was not tested
Functions that do not return PetscErrorCode should not use PetscFunctionBegin/End paradgm
remove unneeded reassignment of same value
Missing CHKERRQ(); Mostly in Tao code
Remove clang static analyser warning about passing NULL variable to strncat()
missing newline in -ts_monitor_extreme
minor fixes for integer counters
Configure: Deal with '__func__' in C89 builds with newer Clang and GCC.
Jenkinsfile: Increased timeout for tests to 5 minutes.
3.9 changes: further clarify removal of -pc_factor_mat_solver_package
Options deprecations: add "PETSc" to inline warning
removing unused variable
MatShift support added to MATSUBMAT. Mimics MATSHELL functionality. Needed for matrix-free Hessians in TAO Newton-Line-Search methods.
Add -ts_monitor_extreme
Dev manual: add note on deprecating options database keys
...

Conflicts:
src/dm/impls/plex/examples/tests/ex4.c

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Fix memory leak

Revolve has also been updated.

Funded-by:
Project: FASTMATH adjoint
Time: 2.0 hours
Reported-by: balay@mcs.anl.gov
Thanks-to:

Trilinos: update to a patchversion compatible with superlu_dist-5.4.0

superlu: update which syncs superlu_enum_consts.h with superlu_dist v5.4.0

superlu_dist: update to version v5.4.0

$ git diff v5.3.0..v5.4.0 SRC/superlu_enum_consts.h
diff --git a/SRC/superlu_enum_consts.h b/SRC/superlu_enum_consts.h
index 628eecf..515643a 100644
--- a/SRC

superlu_dist: update to version v5.4.0

$ git diff v5.3.0..v5.4.0 SRC/superlu_enum_consts.h
diff --git a/SRC/superlu_enum_consts.h b/SRC/superlu_enum_consts.h
index 628eecf..515643a 100644
--- a/SRC/superlu_enum_consts.h
+++ b/SRC/superlu_enum_consts.h
@@ -26,7 +26,7 @@ at the top-level directory.
***********************************************************************/
typedef enum {NO, YES} yes_no_t;
typedef enum {DOFACT, SamePattern, SamePattern_SameRowPerm, FACTORED} fact_t;
-typedef enum {NOROWPERM, LargeDiag, MY_PERMR} rowperm_t;
+typedef enum {NOROWPERM, LargeDiag_MC64, LargeDiag_AWPM, MY_PERMR} rowperm_t;
typedef enum {NATURAL, MMD_ATA, MMD_AT_PLUS_A, COLAMD,
METIS_AT_PLUS_A, PARMETIS, ZOLTAN, MY_PERMC} colperm_t;
typedef enum {NOTRANS, TRANS, CONJ} trans_t;

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Merge remote-tracking branch 'origin/barry/adios'

Merge branch 'maint'

Merge remote-tracking branch 'origin/dalcinl/fix-python3/maint' into maint