merge_todo.txt

update copy constructor for equation to handle eqn.shared_data
decide whether or not to precompute fluxes by default

use new version of SBP (includig Optim dependency), curvilinear branch of PumiInterface (tag v0.5)

use ODLCommonTools branch `new_parallel`

update LinearSolvers to allocate the jacobian correctly for viscous terms

change log:
  Better interface between Utils and the physics modules for handling of parallel
  computations (all MPI calls now encapsulated in Utils)

  use mesh.nrm_face/bndry/sharedface instead of dxidx_face/bndry/sharedface

  Switch to using curvilinear metric calculation (and reverse mode)

  Add default BC system (see PumiInterface.jl readme)

  made BSTDOUT a global, buffered STDOUT, to replace fstdout.  Also created
  BSTDERR

  4/19/18 - JC: add updateMetricDependents to physics module interface

  4/19/18 - JC: add setup_globalize_euler key, changes things so implicit
                euler globalization can be used at end of homotopy

change argument order for common_funcs.jl, BCs, flux functions to be
(params, q, coords, nrm, flux)

  5/7/18 - JC: change initialization so solvePDE is extended by each physics

  11/18 - JC: add dR/dq and dR/dm products.  Changed some of the existing code
              to be precompute=false by default.  Remove precompute=true
              versions of shared face integrals.
  11/18 - JC: add dJ/dq and dR/dm products.  Make better interface for
              functions to support parallel communication
  2/19 - JC: move Jacobian stuff to separate module, move sparsity stuff from
             ODLCommonTools to new module