Merge branch 'master' into stefano_zampini/feature-fetidp-ex69

Merged stefano_zampini/feature-mathypre-missingops into master

MatHYPRE: fix warnings from nightly 64bit builds

added MatScale MatZeroRowsColumns and MatMissingDiagonal to MATHYPRE

Merge branch 'master' into knepley/feature-plex-pragmatic-parallel

* master: (1379 commits)
Minor fixes for tchem examples due to changes in PETSc infrastructure
update webpage about API changes

Merge branch 'master' into knepley/feature-plex-pragmatic-parallel

* master: (1379 commits)
Minor fixes for tchem examples due to changes in PETSc infrastructure
update webpage about API changes
add help menu for MatCreateSubMatricesMPI()
rename struct Mat_SubMat -> Mat_SubSppt
add a little information to the manual about using tchem
rename MatCreateSubMatrixComposite -> MatCreateSubMatrixVirtual; Mat_SubMatrix -> Mat_SubVirtual
need to protect the \ passed on the makefile on my Mac
Bib: Updated ref
update src/mat/examples/tests/output/ex23_#.out
rename MatGetSubMat -> MatCreateSubMat
Mark MatCreateMPIAIJWithSplitArrays() and MatMPIAIJSetPreallocationCSR() with MAT_NO_OFF_PROC_ENTRIES
superlu: libray is installed in PREFIX/lib64 - fix this to use PREFIX/lib
backport fixes cc105cc3 2b35c90a - required for 3bf428d - that was backported from master - 80c96bb
'echo -n' fails on opensolaris/osx - so avoid using it.
fix diffs in nightlybuilds due to options in ~/.petscrc
add Kelley03 to src/docs/tex/petsc.bib
build: determine moudles, mpi.h used during buildtime and print in 'info'
fix analyzer warnings
fix build failure on opensolaris - where -lm from flibs is removed due to -lm in cxxlibs. But then - only flib gets used for some configure tests [blaslapack, parms]
config: prefer __restrict over C99 restrict keyword
...

show more ...

Merge branch 'master' into knepley/fix-plex-examples-cleanup

* master: (156 commits)
Doc: Added headers for documentation sections
Bib: Small corrections
doc: update example makefiles with del

Merge branch 'master' into knepley/fix-plex-examples-cleanup

* master: (156 commits)
Doc: Added headers for documentation sections
Bib: Small corrections
doc: update example makefiles with deleted sourcefile info
doc: fix manual build errors
doc: fix SOURCEH for some fortran includes that got moved
doc: fix broken manualpages - bug introduced by 1b266c9
MatMissingDiagonal() is actually not a collective operation
PetscFECreateDefault(): allow 0th order quadrature
fix gmakegentest.py to ignore *.xx files that are not source code but are in the files
increase table input size to (A->cmap->n + a->B->cmap->N) for MatTransposeMatMultSymbolic_MPIAIJ_MPIAIJ()
gtest: add TEST and RM clean output for Satish
gtest: set PATH for windows DLL tests, and enable -Dpetsc_EXPORTS only during (dll) build - and not for examples
gtest: use target-specific var to deduplicate FC rules for modules
gtest: for 'allgtest' and 'allgtest-tap' - use V=0 instead of 'grep -v CC' etc..
gtest: quiet absoft compiler commands [so they can be filtered].
remove incorrect requires from more test files, remove output from -fp_trap example in test because it cannot be machine independent
gtest: windows fixes. add filter to remove filename from compiler stdout. And fix filters to use petscdiff
Removed generated requires in the wrong place from test examples.
Fix test output for additional information printed about computed eigenvalues
gtest: fix ex5f.F to use 'format' so that the output from ifort matches the one from gfortran
...

show more ...

Removed __FUNCT__ clean up code formatting

Reported-by: Mr. Hong Zhang

Merge branch 'barry/remove-funct'

Remove the use and definition of __FUNCT__ throughout the code

Since all modern C/C++ compilers provide this functionality we no longer need to provide it manually in PETSc
Time: 1.5 hours
Thanks-t

Remove the use and definition of __FUNCT__ throughout the code

Since all modern C/C++ compilers provide this functionality we no longer need to provide it manually in PETSc
Time: 1.5 hours
Thanks-to: Andreas Mang <andreas@ices.utexas.edu>

show more ...

Merge branch 'stefano_zampini/feature-usehyprematmatops'

MatHYPRE: remove prints

Added support for MatMatMatMult_transpose_aij_aij

actually, boomerAMGBuildCoarseOperator needs Rt and not R to perform RAP.
Removed HYPRE support from MatMatMatMult_AIJ_AIJ_AIJ and added the compose

Added support for MatMatMatMult_transpose_aij_aij

actually, boomerAMGBuildCoarseOperator needs Rt and not R to perform RAP.
Removed HYPRE support from MatMatMatMult_AIJ_AIJ_AIJ and added the composed to the AIJ objects

show more ...

MatHYPRE: fix warning from 64bit indices build

MatHYPRE: added native support for MatMatMult

MatHYPRE: zerosized Insert/Add values seems not supported from HYPRE

MatSeqAIJ and MatMPIAIJ: added support for MatMatMatMult using HYPRE

MatSeqAIJ and MatMPIAIJ: add support for MatMatMult via hypre

MatHYPRE: reworked PtAPs to allow MAT_REUSE_MATRIX

MatSeqAIJ: added support for using boomerAMGBuildCoarseOperator for PtAP

MatHYPRE: new internal APIs to make use of boomerAMGBuildCoarseOperator consistently

MatHYPRE: make sure the MatHYPRE will always have row_starts and col_starts available

Merge branch 'stefano_zampini/fix-matcreatefromparcsr-emptyrowscols'

MatHYPRE: hypre may return rend/cend smaller than rstart/cstart when there are no local rows/columns

Merge branch 'stefano_zampini/fix-mathypre-notpreallocated'

Move creation of work vector for MatMults to MatAssemblyEnd

MatSetUp should just call MatHYPRESetPreallocation