cleanup includes that are no longer needed. Also remove check for _fullpath() as
the corresponding code is removed.

Sys: avoid getpwuid in file path routines

This function is badly implemented by some well-known supercomputing
vendors (causes corruption and crashes) and ~ expansion in the shell
uses $HOME rather

Sys: avoid getpwuid in file path routines

This function is badly implemented by some well-known supercomputing
vendors (causes corruption and crashes) and ~ expansion in the shell
uses $HOME rather than the password home directory field anyway.

This commit does not affect the failing test for path expansion.

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added PetscStackCallSAWs() everywhere possible

Sys: revert packed PetscMalloc to PetscMallocN in PetscCommBuildTwoSided_Allreduce

eb9baa12dd270b0fce changed mallocs without changing the matching
MPI_Waitall. I consider the original to be cleane

Sys: revert packed PetscMalloc to PetscMallocN in PetscCommBuildTwoSided_Allreduce

eb9baa12dd270b0fce changed mallocs without changing the matching
MPI_Waitall. I consider the original to be cleaner so revert that part
of the commit.

Reported-by: Brad Aagaard <baagaard@usgs.gov>

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Merge branch 'knepley/reordering'

* knepley/reordering:
Mat ex170: Comments
Mat ex170: Test for MatMult() using max instead of plus - Finds the number of connected components in parallel - Can s

Merge branch 'knepley/reordering'

* knepley/reordering:
Mat ex170: Comments
Mat ex170: Test for MatMult() using max instead of plus - Finds the number of connected components in parallel - Can still optimize better in parallel
Mat: Added stuff to let me do (max, mult) algebra things for reordering - Added MatMultMax_SeqAIJ() and MatMultAddMax_SeqAIJ() - Added PetscSparseDenseMaxDot()
Vec: Added VecUniqueEntries() - This is purely diagnostic, but I think its useful for tests
Sys: Added PetscSortRemoveDupsReal()

Conflicts:
config/builder.py

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replaced all left-over uses of a single PetscMalloc() to allocated multiple arrays: replaced with PetscMallocN()
The only ones left are when the second array is set into the first array and one ugly

replaced all left-over uses of a single PetscMalloc() to allocated multiple arrays: replaced with PetscMallocN()
The only ones left are when the second array is set into the first array and one ugly usage in the MUMPS interface that cannot be easily fixed

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completed allowing generating graphics with Xvfb, works with AMS

fixed afterimage -draw_save for X support to use new asvisual for each image rather than reusing one which may be from the wrong drawx->disp previously
added -x_virtual support to start and use Xvfb

fixed afterimage -draw_save for X support to use new asvisual for each image rather than reusing one which may be from the wrong drawx->disp previously
added -x_virtual support to start and use Xvfb instead of regular X server (note that colormap is no working correctly it seems)

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Sys SegBuffer: allow destroy with already-NULL segbuffer

SegBuffer: use size_t instead of PetscInt

This is more natural as a "buffer" interface.

Merge branch 'jed/matmatmult-sort'

New version provides in the neighborhood of 20% speedup for MatMatMult
as used in PCGAMG.

* jed/matmatmult-sort:
MatMatMultSymbolic_SeqAIJ_SeqAIJ: switch to "so

Merge branch 'jed/matmatmult-sort'

New version provides in the neighborhood of 20% speedup for MatMatMult
as used in PCGAMG.

* jed/matmatmult-sort:
MatMatMultSymbolic_SeqAIJ_SeqAIJ: switch to "sort" version as default
segbuffer: g++ does not like casting int*restrict* to void*, void** okay
MatMatMult_SeqAIJ_SeqAIJ_Sort: new implementation using char flags and sorting
segbuffer: add PetscSegBufferGetInts() to encourage use of PETSC_RESTRICT
segbuffer: create wrapper structure
segbuffer: add PetscSegBufferGetSize() and PetscSegBufferUnuse()
segbuffer: fix bug in which seg->used was not reset

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win64: fix strstr() breakage
Date: Thu, 25 Apr 2013 17:44:07 -0500 (CDT)
From: Satish Balay <balay@mcs.anl.gov>
To: petsc-dev@mcs.anl.gov
Subject: [petsc-dev] usage of string.h

PetscEnumFind: fix bad PetscBool cast when I meant PetscEnum

PetscEListFind() and PetscEnumFind()

New functions for searching elists and enums

segbuffer: create wrapper structure

The old structure exposed the linked list property of the implementation.
Now we have a simple wrapper structure so that implementation detail is
not leaked. This

segbuffer: create wrapper structure

The old structure exposed the linked list property of the implementation.
Now we have a simple wrapper structure so that implementation detail is
not leaked. This will also make it possible to implement some thread-safe
operations.

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segbuffer: add PetscSegBufferGetSize() and PetscSegBufferUnuse()

* PetscSegBufferGetSize: the total size is usually needed for other purposes,
but it's known by the segbuffer so we may as well mak

segbuffer: add PetscSegBufferGetSize() and PetscSegBufferUnuse()

* PetscSegBufferGetSize: the total size is usually needed for other purposes,
but it's known by the segbuffer so we may as well make it available in case
the caller isn't counting themselves.

* PetscSegBufferUnuse: if the caller is trying to amortize access, they might
get more space than they actually need. This allows them to return that space.

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segbuffer: fix bug in which seg->used was not reset

The fast path of PetscSegBufferExtractInPlace() was not resetting seg->used.

PetscSegBuffer: add extraction to existing buffer and in-place

* PetscSegBufferExtractAlloc: allocates new memory (old behavior)

* PetscSegBufferExtractTo: use provided buffer

* PetscSegBufferExtr

PetscSegBuffer: add extraction to existing buffer and in-place

* PetscSegBufferExtractAlloc: allocates new memory (old behavior)

* PetscSegBufferExtractTo: use provided buffer

* PetscSegBufferExtractInPlace: pack into space that will be used by
next call to PetscSegBufferGet().

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PetscSegBuffer: make segmented buffer from PetscBuildTwoSided reusable

Segmented buffers are used to incrementally build lists without knowing
the size up-front. The addresses of insertion locations

PetscSegBuffer: make segmented buffer from PetscBuildTwoSided reusable

Segmented buffers are used to incrementally build lists without knowing
the size up-front. The addresses of insertion locations are stable,
unlike with re-allocate and copy mechanisms.

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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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