Options gui did not correctly using command line provided integer value as default
options gui did not handle negative x,y, or z dimension to allow using -da_refine option

win32: set printf output format to print 2-digit exponent [instead of the default 3-digit]

Moved Satish back as the first author and updated bibtex entries.

fixed a bug in pinit.c and ex19.c to display information correctly

Merge branch 'karpeev/fix-options-init'

Conflicts:
src/sys/objects/pinit.c

Merge branch 'master' into barry/saws-options

doc: fix missing manpage for PetscInitializeFortran

doc: fix getpdflabels to count manual chapters correctly.
Also fix URLs from man pages to manual.pdf

Merge branch 'knepley/feature-plex-hdf5-parallel-load'

* knepley/feature-plex-hdf5-parallel-load:
HDF5: Fixed Xdmf script
Plex+HDF5: Do not use vectors for periodic visualization
Plex+HDF5: Ig

Merge branch 'knepley/feature-plex-hdf5-parallel-load'

* knepley/feature-plex-hdf5-parallel-load:
HDF5: Fixed Xdmf script
Plex+HDF5: Do not use vectors for periodic visualization
Plex+HDF5: Ignore negative sequence numbers
DMPlex: Now Plex output is parallel - We now write visualization specific topology in /viz/topology - We output a point reordering, coneSizes, cones, and orientations - Now longer need to interpolate on load
DMPlex: Use the presence of faceGeometry in the DM to signal we are using FVM - This will become a PetscFVM object soon
DMPlex: Preserve the block size of the coordinate vector after distribution
Plex+HDF5: Moved all HDF5 to a separate file, and mapped 2D periodic mesh to the cylinder - Now visualization specific things are in /viz
HDF5: Made petsc_gen_xdmf.py executable
Viewer+Options: Added Fortran interface for PetscObjectViewFromOptions()
IS: Stupid mistake. Damn you compiler
DMPlex: Now parallel HDF5 label output does not fail - However, it is also now clear that we will have to write the full interpolation connectivity in order for these to be meaningful
DMPlex: Added DMPlexCreatePointNumbering() - Made DMPlexCreateNumbering_Private() more flexible
IS: Added ISSortRemoveDups()
DMPlex: Added DMPlexInvertCell_Internal() - Stupid type matching
HDF5: Added petsc_gen_xdmf.py which processes PETSc HDF5 output and produces an Xdmf file
DMPlex: Force a serial load in DMLoad_HDF5(), after which we call DMPlexDistribute() - Eventually we would load into a naive partition
IS+HDF5: Corrected code for new block size interface where it is never negative
Viewer+HDF5: Added PetscViewerHDF5ReadSizes() - This allows me to check the size of a Vec or IS to be loaded

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define __FUNCT__ "PetscStrdup"

Merge branch 'master' into knepley/feature-plex-hdf5-parallel-load

* master: (125 commits)
since PETSc cannot view factored matrices, generate an error rather than display the wrong stuff (this wa

Merge branch 'master' into knepley/feature-plex-hdf5-parallel-load

* master: (125 commits)
since PETSc cannot view factored matrices, generate an error rather than display the wrong stuff (this was really bad)
outdated example that doesn't match coding style removed and buggy
petscversion.h: workaround ifort -cpp lack of referential transparency
configure: ignore AR, MAKEFLAGS [if set in env]
incorrect first entry in array being zeroed in example
sizeof.c: remove dependence on petsc [and fix syntax error]
nightlybuilds: use consistant PETSC_ARCH, machine names
TS: Allow viewing of TS solutions
DMPlex: Fix comparison for complex
change MPIVersion streams to use MPI_Wtime() to be portable to Windows do not use scalar square root on real number; it upsets Microsoft
cannot use I in PETSc code because in complex it sometimes represents imaginary number cannot pass PetscScalar * to VecNorm()
in dashboard don't warn about SSL and BOI deprecated
TS ex11: Fixed output formatting
Doc+DMPlex: Added function documentation for some refinement functions
streams: translate code from 'bash' to 'sh' [fix freebsd]
barry is an idiot who doesn't have a clue as to what he is doing (and git's unfriendlyness doesn't help matters)
don't list examples under C that don't work with complex!
forgotten output file
removed valgrind warning about sending uninitialized data
nightly builds ignore unrecognized pragma and .c file as C++ code
...

Conflicts:
include/petsc-private/dmpleximpl.h

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Merge branch 'maint'

* maint:
petscversion.h: workaround ifort -cpp lack of referential transparency
Do not use PetscViewerASCIIGetStdout() after all registered objects have been destroyed in Pe

Merge branch 'maint'

* maint:
petscversion.h: workaround ifort -cpp lack of referential transparency
Do not use PetscViewerASCIIGetStdout() after all registered objects have been destroyed in PetscFinalize() therwise zeroed out ascii viewer is returned from PETSc internal communicator if not all PETSc objects have been destroyed and -options_left is used

Conflicts:
src/sys/objects/pinit.c

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Merge branch 'barry/add-names-for-all-ascii-viewers'

Viewer+Options: Added Fortran interface for PetscObjectViewFromOptions()

PetscTextBelt() requires socket viewer

Manual page for PetscOptionsBool missing argument

Reported-by: Torquil Sørensen <torquil@gmail.com>

Revert "PetscOptionsBool manual page missing argument description"

This reverts commit a5630a99ef35fea2201d1a1e6b81c24e32d26423.

PetscOptionsBool manual page missing argument description

Reported-by: Torquil Sørensen <torquil@gmail.com>

Insure that all ASCII viewers for PETSc objects call PetscObjectPrintClassNamePrefixType()

Merge branch 'barry/google'

Do not use PetscViewerASCIIGetStdout() after all registered objects have been destroyed
in PetscFinalize() therwise zeroed out ascii viewer is returned from PETSc internal communicator if
not all PET

Do not use PetscViewerASCIIGetStdout() after all registered objects have been destroyed
in PetscFinalize() therwise zeroed out ascii viewer is returned from PETSc internal communicator if
not all PETSc objects have been destroyed and -options_left is used

Reported by: william.perkins@pnnl.gov

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