Merge branch 'barry/more-to-new-test-harness' into barry/all-new-test-harness-branches

Merge branch 'barry/tao-to-new-test-harness' into barry/all-new-test-harness-branches

Merge branch 'barry/move-to-new-test-harness' into barry/all-new-test-harness-branches

Merge branch 'jed/tests-cxx-linker' into barry/more-to-new-test-harness

gmakefile.test: use static pattern rules to link C++ with CXX

Instead of choosing the linker based on target name (which cannot
distinguish C++ vs C source), use static pattern rules

$(targets.cx

gmakefile.test: use static pattern rules to link C++ with CXX

Instead of choosing the linker based on target name (which cannot
distinguish C++ vs C source), use static pattern rules

$(targets.cxx) : % : %.o
$(CXX) -o $@ $^

so that the pattern is only applied to these specific targets.

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Merge branch 'master' into knepley/feature-plex-adjoint-prelim

* master: (60 commits)
petsc4py: update to use latest 3.8 snapshot
petsc4py: update to snapshot that syncs with 276c550
fix warni

Merge branch 'master' into knepley/feature-plex-adjoint-prelim

* master: (60 commits)
petsc4py: update to use latest 3.8 snapshot
petsc4py: update to snapshot that syncs with 276c550
fix warning
Plex ex26: Protect ExodusII stuff
DM: DMCreateSubDM() field argument should be const
TS ex46: Newlines and some numerical jitter
TS ex45: Newlines and some numerical jitter
TS ex11: Fixed indentation and time step numbering
SNES ex12: Update for DM view changes
Plex tests: Update to new DM output
Plex ex23: Use Nc not dim for vector fields
Plex: Default section now ignores cells hanging off boundary meshes
Plex: Viewer now reports the cell Height
Increase patchlevel to 3.8.3
Plex: Fixed DMPlexInterpolate() bugs - Do not copy associated data if we are not interpolating - Do not interpolate if we already have full depth
fix valgrind errors with using PetscObjectGetName()/SetName() with the same object - resulting in a free() before copy.
ex4: fix compile warning and update makefile
Minor fixes
Improving report_tests
PetscDS: Must initialize the default adjacency
...

Conflicts:
include/petsc/private/dmimpl.h
include/petscdm.h
include/petscis.h
src/dm/impls/plex/plexcreate.c

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Merge remote-tracking branch 'origin/scott/test-harness-report_tests_fix'

Merge branch 'master' into knepley/feature-plex-adjoint-prelim

* master: (251 commits)
yaml: add a backup download URL
Fix documentation of MatSetRandom function
Ignore -malloc-hbw option if m

Merge branch 'master' into knepley/feature-plex-adjoint-prelim

* master: (251 commits)
yaml: add a backup download URL
Fix documentation of MatSetRandom function
Ignore -malloc-hbw option if malloc is already set
Plex: Fixed array initialization
pgi: compile fix
knl: update test to use memkind and remove option that worked arround a bug with intel 17
Check the return value for memkind_posix_memalign
Change the default behavour for -malloc_hbw
Bib: More refs
test: remove runex13f90 as its now converted to new test suite
fix win32 crash. This test was previously run with '-n 4' - so restoring it
Fix petscsfgetgraph_ to work for all Fortran compilers by directly using array of PetscSFNodes
bugfix for MatDuplicate_MPIAIJ_PtAP Reported-by: Samuel Lanthaler <s.lanthaler@gmail.com>
strip out dead sundials usage code; change sundials test to only run 5 timesteps to prevent different number of steps on different systems.
Remove extra lines of output file
Example uses C99 constructs so must mark with requires: c99
fix const missmatch for DMDAVecRestoreArrayRead()
remove conflict between function name in example and new PETSc TS function
builds: attempt to do maint/master/next test builds in separate clones
ex62: it turned out that CHACO partioning is not deterministic. Use a prescribed partition instead
...

Conflicts:
src/dm/interface/dm.c
src/snes/examples/tutorials/ex13.c

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Improving report_tests

Adding some improved reporting of how to rerun the test system based on
Satish's suggestions.

Merge remote-tracking branch 'origin/scott/test-harness-improve2'

Merge branch 'master' into knepley/fix-plex-bc-multiple

* master: (347 commits)
tests: add 'PETSC_HAVE_C99' flag - so that 'requires: c99' can be used in the test suite
PGI: fix build error with

Merge branch 'master' into knepley/fix-plex-bc-multiple

* master: (347 commits)
tests: add 'PETSC_HAVE_C99' flag - so that 'requires: c99' can be used in the test suite
PGI: fix build error with updated 17.10 compilers
Fix for test dirs that are not tutorials/tests
fix use of double in PetscAbsReal() which produces compiler warnings with single precision build
elemental: remove info on conflict of -with-cxx-dialect=C++11 on osx - it works now.
Cleanup .bib files
Fix allfortranstubs rule to rm generated files from correct directory, not outdated location
ierr set but not checked
Remove initial refine so test runs faster and does not time out on some machines
Gail's copyedits for bibtex items
Docs: manual: add further description of 3 different current testing options
DM: check for ops->localtolocalbegin/end before calling
PetscSF: fix typo in tutorial ex1
Vec+HDF5: Fix output for complex - Need to check for empty group name
SNES: SNESDestroy() can be called with snes->dm == NULL
SNES: SNESDestroy() can be called with snes->dm == NULL
Vec+HDF5: Fix output for complex - Need to check for empty group name
Docs: Manual: Update tests section
gmakegentest: also exclude .#filenames created by emacs
DMPlex: Fix output of test ex1 after changes to Gmsh reader
...

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test: fix link when using 'make -f gmakefile.test test'

test: fix example compiles so that the objs are listed in the correct order

Also fix missing 'libpetsc.so.3.08' by adding the dependency

gmakefile: streamline linking to avoid redundant listing of libraries

test: restore $(PETSC_LIB) to example link targets

And skip 'To rerun failed tests:' message when there are no failures

Dependency fixes.

The actual extra dependencies from the `depend:` keyword
were not being written out explicitly to testfiles. This
now does so.

The new rules for compiling test executables then

Dependency fixes.

The actual extra dependencies from the `depend:` keyword
were not being written out explicitly to testfiles. This
now does so.

The new rules for compiling test executables then requires that all of
the dependencies be added to the link line which changed the rule from
using `$< $(PETSC_LIB)` to a `$^`.

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Merge remote-tracking branch 'origin/scott/test-harness-installtest'

Bug fixes based on previous reports to PR

Various bug fixes to improve the robustnesses:
- Giving full path of testsrcs dependency enables invoking it from outside
of its source directory (removes

Bug fixes based on previous reports to PR

Various bug fixes to improve the robustnesses:
- Giving full path of testsrcs dependency enables invoking it from outside
of its source directory (removes reported infinite loop)
- Adding a dependency to the TESTDIR/.DIR uses Jed's previously
defined sentinel file rules fixes some inconsistent behavior
*and* enables fullpath TESTDIR specification (as in Satish's report)
- Install.py was accidently adding an extraneous 'all' target
- gmakegentest.py was using inInstallDir inconsistently in a few places

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Refactoring to clean up coding and minor bug fixes.

Per discussion on last commit, this is refactored to simplify
the coding and hopefully make it less obtuse.

Also found some minor errors as devel

Refactoring to clean up coding and minor bug fixes.

Per discussion on last commit, this is refactored to simplify
the coding and hopefully make it less obtuse.

Also found some minor errors as development and testing occurred on some
of the install testing.

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Remove redundant info from gmakefile.

Per discussion, gmakefile.examples has been changed to
gmakefile.test. It is now included in gmakefile to enable
the removal of redundant information. Tests o

Remove redundant info from gmakefile.

Per discussion, gmakefile.examples has been changed to
gmakefile.test. It is now included in gmakefile to enable
the removal of redundant information. Tests on whether
gmakefile or gmakefile.test is invoked is used to print
out the appropriate help information for that file (i.e.,
do not print out test info for basic compiles).

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