A few corrections for items detected by the clang static analyzerReported-by: clang static analyzer
Merge branch 'master' into barry/petscoptions-object
Begin renaming the PetscOptions objects for the future where PetscOptions will not be a singleton
remove fatol and frtol concept from Tao; they are redundant and confusing compared to other tolerances
add boolean guards to check if tao default options have been changed
Set the options prefix correctly on tao->ksp and tao->linesearch.
add accessors to tao iteration counter, tao total iteration count
fixed missing CHKERRQ() detected by clang's --analyze
updated PETSc directory layout to match standard packaging strategiesinclude/petsc finclude,private,mpiunilib/petsc confbin/petsc*
simplify option object names
updated new XXXSetFromOptions_YYY() methods to take PetscOptionsObjectType
manual merge of conflict
convert some PetscMalloc() to PetscMalloc1()remove unneeded () in first argument to PetscMalloc/Calloc1()fixes for MATLAB examples
Merge branch 'barry/fix-options-default'Conflicts: src/ksp/ksp/examples/tutorials/ex52.c
cleanup of use of PetscOptionsInt and friends including use of flag final argument
removed Tao use of antediluvian PETSC_C_BEGIN/END with PETSC_EXTERN for Tao implementation class constructors
correct ksp counting complementarity and ipm solvers
docs: fix errors of type:manualpages in: /sandbox/petsc/petsc.clone/src/tao/unconstrained/impls/nlsmake[7]: [manualpages] Error 1 (ignored)
tao: documentation update
add a tao solver page to man pages for each solver (could be filled in a bit more)
removed MatStructure arguments from Tao
KSPSetOperators() no longer has the MatStructure argument. The Mat objects now track that information themselves. Use KPS/PCSetReusePreconditioner() to prevent the recomputation of the preconditioner
KSPSetOperators() no longer has the MatStructure argument. The Mat objects now track that information themselves. Use KPS/PCSetReusePreconditioner() to prevent the recomputation of the preconditioner if the operator changed in the way that SAME_PRECONDITIONER did with KSPSetOperators()SNES/TS still need to be cleaned up to better utilize the new interfaces
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completed cleanup of removal of matrix pointers to compute jacobian routinesupdate changes filefixed tao examples to no longer use Mat* arguments for Jacobian/Hessian etc computations
fix some VecGetArray() to VecGetArrayRead() and const in Tao source code
changed TaoTerminationReason TaoConvergedReasonchanged TaoLineSearchTerminationReason to TaoLineSearchConvergedReasonreason: consistency with the rest of PETSc
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