Merge branch 'jed/fix-locdir'

* jed/fix-locdir:
LOCDIR: fix all outdated paths and normalize trailing slash

LOCDIR: fix all outdated paths and normalize trailing slash

Update performed by:

git ls-files '*/makefile' | xargs perl -pi -MFile::Basename \
-e 's!(LOCDIR[[:space:]]+=) *(.+)$!$1." ".dirnam

LOCDIR: fix all outdated paths and normalize trailing slash

Update performed by:

git ls-files '*/makefile' | xargs perl -pi -MFile::Basename \
-e 's!(LOCDIR[[:space:]]+=) *(.+)$!$1." ".dirname($ARGV)."/"!e'

Fortran auto must be fixed using 'make allfortranstubs' and the result
can be checked by 'bin/maint/checkloc.py'.

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flag should have been false

removed unnneeded and unused XXXRegisterDestroy() routines

removed PetscFunctionListDestroyAll() and put PetscFunctionListDestroy(&XXXList) into the package finalize

Merge branch 'barry/fix-matlab'

Fix PetscSFunctionList update to PetscSFList

PetscSF: split petscsftypes.h out of petscsf.h

Callers of PetscSF functions must now explicitly include petscsf.h.

fix PetscSFunctionList to PetscSFList wrongly created by bad regexp

Fixes for MATLAB interface. (1) Fixed MPIUni to be reentrant again, (2) fixed PetscSF to be reentrant

PetscFunctionListAdd: use macro to hide (PetscVoidFunction) cast

Same rationale as the last commit:

Casting using PetscVoidFunction instead of (void(*)(void)) is needed
with C++ compilers that will

PetscFunctionListAdd: use macro to hide (PetscVoidFunction) cast

Same rationale as the last commit:

Casting using PetscVoidFunction instead of (void(*)(void)) is needed
with C++ compilers that will not implicitly convert C++ language linkage
to C language linkage. Since PetscFunctionListAdd() is meant to operate
on generic function pointers, we hide this language linkage detail
(which is inconsistently implemented) in a cast.

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PetscFunctionListFind: use macro to hide (PetscVoidFunction*) cast

Casting using PetscVoidFunction* instead of (void(**)(void)) is needed
with C++ compilers that will not implicitly convert C++ lang

PetscFunctionListFind: use macro to hide (PetscVoidFunction*) cast

Casting using PetscVoidFunction* instead of (void(**)(void)) is needed
with C++ compilers that will not implicitly convert C++ language linkage
to C language linkage. Since PetscFunctionListFind() is meant to operate
on generic function pointers, we hide this language linkage detail
(which is inconsistently implemented) in a cast.

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removed string version of function name for XXXRegister(), PetscFunctionListAdd() and PetscObjectComposeFunction()

removed path and MPI_Comm arguments from PetscFunctionListFind/Add()

removed path argument to XXXInitializePackage() and XXXRegister()

removed XXXRegisterDynamic() but kept the APIs for everything else underneath the same
phase I of the update to handling registering function pointers

Merge branch 'master' into barry/ams

Conflicts:
include/petscviewer.h
src/sys/classes/viewer/interface/viewreg.c
src/sys/threadcomm/interface/threadcomm.c

Warnings: clean compile with gcc-4.8 at -Wextra -Wno-unused-parameter

* Mostly fills out some ops struct declarations. Reformatted so Emacs
can help with alignment. Squelch whitespace in diff to s

Warnings: clean compile with gcc-4.8 at -Wextra -Wno-unused-parameter

* Mostly fills out some ops struct declarations. Reformatted so Emacs
can help with alignment. Squelch whitespace in diff to see useful
changes.

* Use struct instead of casting to data pointer (void*) when serializing
function pointers.

* strcasecmp is in strings.h

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changed AMS publishing to use the Viewer model
added simple AMS viewer for mat,ksp,snes,ts
added --ksp/snes/ts_view_pre for starting the viewer before the solve (ugly but useful for AMS)
added PetscS

changed AMS publishing to use the Viewer model
added simple AMS viewer for mat,ksp,snes,ts
added --ksp/snes/ts_view_pre for starting the viewer before the solve (ugly but useful for AMS)
added PetscStackCalls around AMS function calls when appropriate (note do not want these in webserver because do not webserver stopping just because AMS server is down

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work on AMS interface, consistent naming, ams.h not included in petscviewer.h, no ifdefs

Hg-commit: 642571a1dc7109fdb7e5b0abb23bf260d10eb970

ao ex3d: move datafiles out of repository and fix up test


Hg-commit: ae809da5419b2c2c787b28c4e3fc67c4083ce1ca

trivial update of src/vec/is/ao/examples/tests/ex3d/ex3.cpp

Hg-commit: a4910851ccc49ab65696f63794412e4fcad1176d

Change all PETSC_EXTERN_C to PETSC_EXTERN

Hg-commit: 8d2ebbb193fb583bccc64015e35640c4e08c3426

completed update of PETSC_EXTERN_C usage to replace EXTERN_C_BEGIN/END

Hg-commit: 84182841dc78e38819f60460c0b7afa4c601fbd6

began removing unneeded EXTERN_C_BEGIN/END and converting needed ones to PETSC_EXTERN_C

Hg-commit: e0c157606a3283d5a4ba8902a0da5cad0e2aa531