LCM: Added LCM utilities header file. Mostly empty for now. Copied
useful contains template from MOR.
Added template for traction-based fracture criterion.
Formatting changes.
LCM: Minor changes in notation.
LCM: Removed large amounts of stale code that used a local map for
the fracture state instead of the STK field.
LCM: Simplified algorithm to get surface element connectivity.
Renamed some members to conform to others.
Aeras Shallow water equations: Sacod-ized 3 Parameters for sensitivity analysis
  Gravity, Omega (coriolis), and Mountain Height (Test Case 5)
Added code hack (within comments) to output sensitivities vectors to exodus
instead of the solution.
Made DEBUG_OUTPUT_VERBOSITY a run-time option rather than compile-time option.
It is passed to Albany/FELIX from CISM through the CISM-Albany interface.
The option is set to 0, 1 or 2 by specifying debug_output_verbosity under
[external_dycore_options] in the CISM *.config file.
LCM: Re-enabled adaptive topology modifications.
Fixed Aeras input files that Steve was saying did not evolve the solution.
The problem was they didn't have the following lines in the Piro section:

 <Parameter name="Invert Mass Matrix" type="bool" value="true"/>
 <Parameter name="Lump Mass Matrix" type="bool" value="false"/>
Fixes to new file to compile on my (old) machine -- boost and MPI.
Aeras: Adding several files for different time integrators

Adding input files used for TC5 results in poster.
Adding input files that FAIL for sensitivities w/ Rythmos.

Adding first attempt at input file for embedded UQ for transient
probs, which currently fails in thyra/epetra interface.
Aeras: fix to last commit regarding renamingof input files
LCM: fixed nested use of "i" loop index, caught by compiler.

Added test for Stochastic Gelerkin for Transient problem.

Test requires update to Trilinos.
LCM: Debugging support improved: printing of graphs when required, etc.
LCM: Need to compute boundary explicitly because viz tools that rely on
element and node information only to do it fail in some cases.
Since we have a complete graph structure, computing the correct
boundary is relatively easy.
LCM: Added VTK output of boundary for tracking fracture.
LCM: Disable graphviz output by default. Enable VTK boundary output
by default.
Some cleanups involving debug_output option for CISM-Albany.
Continuation example: explicitly add Continuation Method = Arc Length
to the LOCA Stepper list.
Transient SG: Added 4 input files for variants of solver choices
for Stochastic Galerkin (embedded UQ with Stokhos) solves for
Transient problems.