Merge branch 'prbrune/snes-snesfunctiontype'

Merged petsc/petsc into rmills/petsc master.

Use SNES_FUNCTION_DEFAULT to pick the preferred preconditioning setup per method

Fixed preconditioning in SNES_FUNCTION_UNPRECONDITIONED case for NCG

The unpreconditioned function is only considered with respect to the
linesearch.

Check converged reason of snes->pc under new preconditioning organization.

In the case of the PC application, the SNES aborts with reason DIVERGED_INNER.
In the case of the line search, a failure of

Check converged reason of snes->pc under new preconditioning organization.

In the case of the PC application, the SNES aborts with reason DIVERGED_INNER.
In the case of the line search, a failure of the preconditioner looks like
a function domain error (so that exit will be proper).

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SNESNCG Preconditioned/Unpreconditioned norm support

Merge branch 'jed/snesgetlinesearch'

* jed/snesgetlinesearch:
SNESGetSNESLineSearch / SNESSetSNESLineSearch: mark as deprecated (C interface only)
SNESGetLineSearch / SNESSetLineSearch: rename f

Merge branch 'jed/snesgetlinesearch'

* jed/snesgetlinesearch:
SNESGetSNESLineSearch / SNESSetSNESLineSearch: mark as deprecated (C interface only)
SNESGetLineSearch / SNESSetLineSearch: rename for consistency
SNESGetSNESLineSearch: use auto Fortran binding

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SNESGetLineSearch / SNESSetLineSearch: rename for consistency

This function was introduced as SNESGetPetscLineSearch, which matches no
established convention, then changed to SNESGetSNESLineSearch a

SNESGetLineSearch / SNESSetLineSearch: rename for consistency

This function was introduced as SNESGetPetscLineSearch, which matches no
established convention, then changed to SNESGetSNESLineSearch according
to the object name SNESLineSearch. This is inconsistent with names such
as MatGetInfo, MatGetColoring, MatGetNullSpace, MatGetLocalToGlobalMapping,
SNESGetConvergedReason, and TSGetAdapt.

This is a change from petsc-3.3.

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Merged petsc/petsc into rmills/petsc master

Merge branch 'barry/rm-xxxregisterdynamic'

* barry/rm-xxxregisterdynamic:
Registration: remove stale 'XXRegisterDynamic)' entries in man pages
TS examples: fix use of PetscFunctionList and add t

Merge branch 'barry/rm-xxxregisterdynamic'

* barry/rm-xxxregisterdynamic:
Registration: remove stale 'XXRegisterDynamic)' entries in man pages
TS examples: fix use of PetscFunctionList and add to nightlies
Changes: Note updates to XRegisterDynamic/PetscObjectComposeFunctionDynamic
PetscObjectComposeFunctionDynamic: remove stale docs and usage
developers.tex: remove complications from function composition with dlls
removed string version of function name for XXXRegister(), PetscFunctionListAdd() and PetscObjectComposeFunction()
changes: document PetscFunctionListAdd() API change
developers.tex: update documentation of 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

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Control over initial SNES func/norm in one place; inner ASPIN fix.

Fixed the behavior of left-pc SNESes preconditioning right-pc SNESes.

Merge branch 'master' of bitbucket.org:petsc/petsc

Merged petsc/petsc into rmills/petsc master

Merge branch 'barry/rm-xxxregisterdynamic' into jed/ts-eimex

PetscObjectComposeFunctionDynamic() and TSRegisterDynamic() were
replaced by PetscObjectComposeFunction() and TSRegister(), both of which

Merge branch 'barry/rm-xxxregisterdynamic' into jed/ts-eimex

PetscObjectComposeFunctionDynamic() and TSRegisterDynamic() were
replaced by PetscObjectComposeFunction() and TSRegister(), both of which
drop the string name argument.

* barry/rm-xxxregisterdynamic: (82 commits)
...

Conflicts:
src/ts/interface/tsregall.c

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

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

Trivial NPC logging fix for NCG and QN.

Merge branch 'barry/ams' into master

* commit 'eb4227cfdd169cc03749ba3ef12d3932f2f322bf': (24 commits)
forgotten files
basic snooping on PetscStack is now working
split AMSJavascript.py into A

Merge branch 'barry/ams' into master

* commit 'eb4227cfdd169cc03749ba3ef12d3932f2f322bf': (24 commits)
forgotten files
basic snooping on PetscStack is now working
split AMSJavascript.py into AMS.py for AMS javascript and AMSSnoopObjects.py for example showing published objects
fix bug in previous commit
added error returns for JSON-RPC AMS calls
don't let web accessor change length of array setting to publisher
Pass arrays of values back from webserver to AMS publisher
fix for last commit, missing errorcode and wrong variable name
KSPLogResidualHistory and SNESLogConvergenceHistory need to lock for AMS and have error checking when called
shutdown webserver if you started it on PetscFinalize(), what about when crash, should still shut it down
Added support for starting server automatically by application code messed around finding a bug in AMS
got value back from webclient to application
goddman script Jed sent me doesn;t work, it loses changes
split webserver into standalone problem that is not part of running PETSc application had to do this since impossible for AMS publisher and accessor to be in same application better to just totally redo AMS! But that is to large a project
moved webserver code to its own directory and file
added callback for changable fields in pyjs representation of AMS memories
add AMS viewer for PC, server can only run without any memory debugging
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
more work on moving AMS model to viewer
Fix for SNESSetConvergenceHistory() when input a is null
...

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Merge branch 'master' into jed/ts-eimex

Sync to include Git conversion, PETSC_EXTERN, and minor API changes.

Conflicts:
src/ts/interface/tsregall.c

fixed calls to PetscObjectAMSTake/GrantAccess() to cast first argument to PetscObject

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

Hg-commit: 642571a1dc7109fdb7e5b0abb23bf260d10eb970

made public several private KSP and SNES methods that may be used by plugin KSP and SNES classes written by users

Hg-commit: 0d6205a1c0feb0cbd5a40a08327fe43345c19792

fixed function names with Default to match new standard (which I just wrote)
fixed a few more functions that should be PETSC_INTERN

Hg-commit: 87889fe4f6d4e8d0963adcc79d438e75330601c6