Merge branch 'baagaard/update-packaging-v2.1.2'

* baagaard/update-packaging-v2.1.2: (29 commits)
  Added comment on new command.
  Turn on error in not converged for 2d/gravity and 2d/subduction.
  Small fix to script rewrite in packager.
  Flip path replacement in packager.
  Update copyright in pylith*.in files.
  Adjust rewriting of scripts for Jenkins (different absolute path).
  Added setup_cwd.sh for testing binary builds.
  Updated mode (+x).
  Updated PETSc version info.
  Updated to PETSc 3.7.2.
  Updated spatialdata version requirement.
  Updated version number and user manual authors in preface.
  Updated mode (+x).
  Updated copyright (after merge).
  Fixed typo in examples/2d/gravity/README.
  Updated mode (+x).
  Updated mode.
  Updated copyright to 2016.
  Increment version number in configure.
  Cleanup of some copyright dates.
  ...

Author: baagaard-usgs

CHANGES

@@ -9,6 +9,51 @@ MIGRATING FROM VERSION 2.0 TO 2.1
 The points file for OutputSolnPoints must now contain station names as
 the first column.
 
+----------------------------------------------------------------------
+Version 2.1.2
+----------------------------------------------------------------------
+
+* Bugfixes for finite-strain formulation.
+
+  + Added output of the Cauchy stresses (cauchy_stress). The second
+    Piola-Kirchoff stresses are output via the stress field.
+
+  + Material properties and state variables were not retrieved
+    properly when updating state variables.
+
+* Bugfixes for setting initial stress and state variables for
+  viscoelastic materials. The deviatoric stress state is carried
+  forward using the state variables, so the initial deviatoric stress
+  should not be considered when computing the stresses.
+
+* Created new examples showing how to use gravity, initial stress, and
+  finite-strain in 2-D (examples/2d/gravity).
+
+* Reintroduced check (that had been inadvertently removed in v2.x) for
+  ambiguous description of fault surface based on groups of vertices
+  defining faces of cells.
+
+* Flush the output of the progress monitor so progress reports are
+  updated promptly.
+
+* Updates to the user manual.
+
+  + Added section on the debugging examples covered in recent
+    tutorials.
+
+  + Added tables describing the spatial database values for each
+    material.
+
+  + Included a more complete discussion of the finite-strain
+    formulation.
+
+* PETSc
+
+  + Updated to PETSc v3.7.2 (knepley/pylith branch).
+
+  + Fixed Trilinos/ML configuration and code so that it can be built
+    without a Fortran compiler.
+
 ----------------------------------------------------------------------
 Version 2.1.0
 ----------------------------------------------------------------------

COPYING

@@ -1,4 +1,4 @@
-Copyright (c) 2010-2015 University of California, Davis
+Copyright (c) 2010-2016 University of California, Davis
 
 Permission is hereby granted, free of charge, to any person obtaining
 a copy of this software and associated documentation files (the

Makefile.am

@@ -9,7 +9,7 @@
 # This code was developed as part of the Computational Infrastructure
 # for Geodynamics (http://geodynamics.org).
 #
-# Copyright (c) 2010-2015 University of California, Davis
+# Copyright (c) 2010-2016 University of California, Davis
 #
 # See COPYING for license information.
 #

applications/Makefile.am

@@ -9,7 +9,7 @@
 # This code was developed as part of the Computational Infrastructure
 # for Geodynamics (http://geodynamics.org).
 #
-# Copyright (c) 2010-2015 University of California, Davis
+# Copyright (c) 2010-2016 University of California, Davis
 #
 # See COPYING for license information.
 #

applications/pylith.in

@@ -10,7 +10,7 @@
 # This code was developed as part of the Computational Infrastructure
 # for Geodynamics (http://geodynamics.org).
 #
-# Copyright (c) 2010-2012 University of California, Davis
+# Copyright (c) 2010-2016 University of California, Davis
 #
 # See COPYING for license information.
 #

applications/utilities/Makefile.am

@@ -9,7 +9,7 @@
 # This code was developed as part of the Computational Infrastructure
 # for Geodynamics (http://geodynamics.org).
 #
-# Copyright (c) 2010-2015 University of California, Davis
+# Copyright (c) 2010-2016 University of California, Davis
 #
 # See COPYING for license information.
 #

applications/utilities/powerlaw_gendb.py

@@ -9,7 +9,7 @@
 # This code was developed as part of the Computational Infrastructure
 # for Geodynamics (http://geodynamics.org).
 #
-# Copyright (c) 2010-2015 University of California, Davis
+# Copyright (c) 2010-2016 University of California, Davis
 #
 # See COPYING for license information.
 #

applications/utilities/pylith_eqinfo.in

@@ -10,7 +10,7 @@
 # This code was developed as part of the Computational Infrastructure
 # for Geodynamics (http://geodynamics.org).
 #
-# Copyright (c) 2010-2012 University of California, Davis
+# Copyright (c) 2010-2016 University of California, Davis
 #
 # See COPYING for license information.
 #

applications/utilities/pylith_genxdmf.in

@@ -10,7 +10,7 @@
 # This code was developed as part of the Computational Infrastructure
 # for Geodynamics (http://geodynamics.org).
 #
-# Copyright (c) 2010-2012 University of California, Davis
+# Copyright (c) 2010-2016 University of California, Davis
 #
 # See COPYING for license information.
 #

applications/utilities/pylithinfo.in

@@ -10,7 +10,7 @@
 # This code was developed as part of the Computational Infrastructure
 # for Geodynamics (http://geodynamics.org).
 #
-# Copyright (c) 2010-2012 University of California, Davis
+# Copyright (c) 2010-2016 University of California, Davis
 #
 # See COPYING for license information.
 #