Non-numeric optimizations focused on AIJ, MatFDColoring, and DMCreateMatrix_DA_*AIJ, looking to improve performance in GPU environments

1) PetscCalloc*() now uses system calloc()
2) Merged some Pets

Non-numeric optimizations focused on AIJ, MatFDColoring, and DMCreateMatrix_DA_*AIJ, looking to improve performance in GPU environments

1) PetscCalloc*() now uses system calloc()
2) Merged some PetscMalloc*()
3) Eliminated unneeded PetscCalloc*()
4) Removed some memory allocations and copies in MatFDColoringSetUp(), added local variables for better compiler optimization
5) Added MatSetValues_SeqAIJ_SortedFull(), added MatSetOption(MAT_SORTED_FULL)
6) Optimized DMCreateMatrix_DA_*AIJ for nonperiodic case to automatically have sorted columns (faster MatSetValues() times)
7) Eliminated call to PetscMemzero() in PetscFree()

Commit-type: style-fix, feature

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Update the use of Collective on in the manual pages to reflect the new style

Commit-type: style-fix, documentation
Thanks-to: Patrick Sanan <patrick.sanan@gmail.com>

Man pages: remove .keywords: fields

This field is recognized by doctext from Sowing (http://wgropp.cs.illinois.edu/projects/software/sowing/doctext/node20.htm#Node20),
but it doesn't seem to be unif

Man pages: remove .keywords: fields

This field is recognized by doctext from Sowing (http://wgropp.cs.illinois.edu/projects/software/sowing/doctext/node20.htm#Node20),
but it doesn't seem to be uniformly used or maintained.

Thus, remove all .keywords: fields, and a following blank line, if present.

This is accomplished with GNU sed (gsed on OS X), with the following commands.
*Warning* that this type of command can corrupt a .git directory,
so be cautious in reusing or modifying these commands. They first look
for and delete matching lines with a following line consisting of only whitespace,
and then delete any remaining matching lines.

find src/ -type f -exec gsed -i '/keywords:/ {N; /\n\s*$/d}' {} +
find src/ -type f -exec gsed -i '/keywords:/d' {} +
find include/ -type f -exec gsed -i '/keywords:/ {N; /\n\s*$/d}' {} +
find include/ -type f -exec gsed -i '/keywords:/d' {} +

Hints on the sed command obtained from: https://unix.stackexchange.com/questions/100754/how-to-delete-a-specific-line-and-the-following-blank-line-using-gnu-sed

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rm MatSetOption(*J,MAT_NEW_NONZERO_ALLOCATION_ERR,PETSC_TRUE) in line 1717 because DMCreateMatrix_Plex() already sets it.

Add error checking MatSetOption(*J,MAT_NEW_NONZERO_ALLOCATION_ERR,PETSC_TRUE) in DMCreateMatrix_Network()
Add '-dm_view' runtime option to view dmnetwork edgelist
Cleanup

small fixes for tests on next

add parallel creation of DMNetwork in DMNetworkLayoutSetUp()
change API for DMNetworkSetSizes()
add DMNetworkGetSubnetworkCoupleInfo()
implement DMView_Network()
update DMNetworkGetGlobalXXXIndex()
u

add parallel creation of DMNetwork in DMNetworkLayoutSetUp()
change API for DMNetworkSetSizes()
add DMNetworkGetSubnetworkCoupleInfo()
implement DMView_Network()
update DMNetworkGetGlobalXXXIndex()
update/rewrite pipes1.c

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dmnetwork: add xmin, xmax to DMNetworkMonitorAdd()

add PETSC_VIEWER_DRAW_LG_XRANGE and update VecView_Seq_Draw_LG()

Requested-by: "Betrie, Getnet" <gbetrie@anl.gov>
Suggested-by: "Smith, Barry F."

dmnetwork: add xmin, xmax to DMNetworkMonitorAdd()

add PETSC_VIEWER_DRAW_LG_XRANGE and update VecView_Seq_Draw_LG()

Requested-by: "Betrie, Getnet" <gbetrie@anl.gov>
Suggested-by: "Smith, Barry F." <bsmith@mcs.anl.gov>

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