| #
6a91b171
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| 09-Apr-2014 |
Matthew G. Knepley <knepley@gmail.com> |
Merge branch 'knepley/fix-plex-bc'
* knepley/fix-plex-bc:
TS ex11: Fixed output formatting
Doc+DMPlex: Added function documentation for some refinement functions
TS ex11: Must separate reconst
Merge branch 'knepley/fix-plex-bc'
* knepley/fix-plex-bc:
TS ex11: Fixed output formatting
Doc+DMPlex: Added function documentation for some refinement functions
TS ex11: Must separate reconstruction setup from geometry setup
DMPlex: DMPlexConstructGhostCells() should not be calling DMSetFromOptions()
DMPlex: FVM BC should only be applied to faces - Refinement adds in vertices/edges on refined faces
DMPlex: Must decide what kind of BC to apply for output
show more ...
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| #
9829ace0
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| 06-Apr-2014 |
Matthew G. Knepley <knepley@gmail.com> |
DMPlex: DMPlexConstructGhostCells() should not be calling DMSetFromOptions()
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| #
e09cfcc3
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| 03-Apr-2014 |
Matthew G. Knepley <knepley@gmail.com> |
Merge branch 'knepley/feature-plex-bc'
* knepley/feature-plex-bc:
DMPlex: Cells in the boundary marker should not be interpreted as constraints
DMPlex: Fix declaration
TS ex11: Replace ApplyBC
Merge branch 'knepley/feature-plex-bc'
* knepley/feature-plex-bc:
DMPlex: Cells in the boundary marker should not be interpreted as constraints
DMPlex: Fix declaration
TS ex11: Replace ApplyBC() with DMPlexInsertBoundaryValuesFVM()
DMPlex: Fixed DMPlexInsertBoundaryValuesFVM() - Remove redundant variable - Handle absence of id
TS ex11: Reorganization so that physics creation functions can take the DM - This required splitting the options block
DMPlex: DMPlexInsertBoundaryValues() --> DMPlexInsertBoundaryValuesFEM(), and added an FVM version - The FVM version depends on precalculated geometry which needs to be pulled into the library
TS ex11: Remove unused RHSFunction()
TS ex11: Remove Model from BC func - We do not want opaque objects outside of the context so we can pull this in the library
TS ex11: Now use TS infrastructure for local functions
DMPlex: Fix signature for IFunction - Note that the time is still not being passed down to the pointwise function
TS: Added local versions of assembly to DMTS - I was not sure whether everything was necessary
SNES ex62: Updated output
SNES ex12: Removed outdated BC handling - Removed unnecessary label completion - Updated output
DMPlex: Switched FEM assembly routines to use DMPlexInsertBoundaryValues()
DMPlex: Now DMPlexInsertBoundaryValue() only sets values for the given label - Added DMPlexProjectFunctionLabelLocal()
DMPlex: Now DMCreateSection() calls DMPlexLabelAddCells() - This is necessary for FEM boundary conditions, but we do not want it for FVM so we need some control divergence here soon
DMPlex: Added DMPlexLabelAddCells() - Needed this for FEM BC
DMPlex: Fix Gmsh test
show more ...
|
| #
5c190399
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| 03-Apr-2014 |
Matthew G. Knepley <knepley@gmail.com> |
Merge branch 'knepley/feature-plex-bc' into knepley/feature-plex-periodic
* knepley/feature-plex-bc:
DMPlex: Cells in the boundary marker should not be interpreted as constraints
DMPlex: Fix dec
Merge branch 'knepley/feature-plex-bc' into knepley/feature-plex-periodic
* knepley/feature-plex-bc:
DMPlex: Cells in the boundary marker should not be interpreted as constraints
DMPlex: Fix declaration
TS ex11: Replace ApplyBC() with DMPlexInsertBoundaryValuesFVM()
DMPlex: Fixed DMPlexInsertBoundaryValuesFVM() - Remove redundant variable - Handle absence of id
TS ex11: Reorganization so that physics creation functions can take the DM - This required splitting the options block
DMPlex: DMPlexInsertBoundaryValues() --> DMPlexInsertBoundaryValuesFEM(), and added an FVM version - The FVM version depends on precalculated geometry which needs to be pulled into the library
TS ex11: Remove unused RHSFunction()
TS ex11: Remove Model from BC func - We do not want opaque objects outside of the context so we can pull this in the library
TS ex11: Now use TS infrastructure for local functions
DMPlex: Fix signature for IFunction - Note that the time is still not being passed down to the pointwise function
TS: Added local versions of assembly to DMTS - I was not sure whether everything was necessary
SNES ex62: Updated output
SNES ex12: Removed outdated BC handling - Removed unnecessary label completion - Updated output
DMPlex: Switched FEM assembly routines to use DMPlexInsertBoundaryValues()
DMPlex: Now DMPlexInsertBoundaryValue() only sets values for the given label - Added DMPlexProjectFunctionLabelLocal()
DMPlex: Now DMCreateSection() calls DMPlexLabelAddCells() - This is necessary for FEM boundary conditions, but we do not want it for FVM so we need some control divergence here soon
DMPlex: Added DMPlexLabelAddCells() - Needed this for FEM BC
DMPlex: Fix Gmsh test
show more ...
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| #
6cf0e42f
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| 30-Mar-2014 |
Matthew G. Knepley <knepley@gmail.com> |
DMPlex: Added DMPlexLabelAddCells()
- Needed this for FEM BC
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| #
6124c6a0
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| 28-Mar-2014 |
Matthew G. Knepley <knepley@gmail.com> |
Merge branch 'knepley/fix-plex-refine-unsplit'
* knepley/fix-plex-refine-unsplit:
DMPlex: Fixed refinement of hybrid hex cells - Copied code from the tet case
DMPlex: In hybrid face construction
Merge branch 'knepley/fix-plex-refine-unsplit'
* knepley/fix-plex-refine-unsplit:
DMPlex: Fixed refinement of hybrid hex cells - Copied code from the tet case
DMPlex: In hybrid face construction, orientation was wrong for faces from unsplit edges
show more ...
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| #
b2533dd1
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| 22-Mar-2014 |
Vijay Mahadevan <vijay.m@gmail.com> |
Fixing merge conflicts in dmregall.
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| #
204681ed
|
| 19-Mar-2014 |
Vijay Mahadevan <vijay.m@gmail.com> |
Merged petsc/petsc into master
|
| #
9c925a2c
|
| 18-Mar-2014 |
Shri <abhyshr@mcs.anl.gov> |
Merge branch 'master' into shri/ts-events
Conflicts:
src/ts/interface/ts.c
|
| #
5f6acfaf
|
| 18-Mar-2014 |
Shri <abhyshr@mcs.anl.gov> |
Merge branch 'master' into shri/feature-dm-circuit
Conflicts:
src/dm/impls/makefile
|
| #
1d763ceb
|
| 17-Mar-2014 |
Peter Brune <brune@mcs.anl.gov> |
Merge branch 'master' into prbrune/matcoloring-greedy
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| #
a42b08ee
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| 17-Mar-2014 |
Matthew G. Knepley <knepley@gmail.com> |
DMPlex: Propagate adjacency flags when building new meshes
|
| #
212cc919
|
| 11-Mar-2014 |
Matthew G. Knepley <knepley@gmail.com> |
DMPlex: In hybrid face construction, orientation was wrong for faces from unsplit edges
|
| #
84872906
|
| 10-Mar-2014 |
Matthew G. Knepley <knepley@gmail.com> |
Merge branch 'knepley/fix-plex-submesh-edge'
* knepley/fix-plex-submesh-edge:
DMPlex: Removed unused variable in refinement
DMPlex: Also mark hybrid cells with unsplit vertices
DMPlex: Docs fo
Merge branch 'knepley/fix-plex-submesh-edge'
* knepley/fix-plex-submesh-edge:
DMPlex: Removed unused variable in refinement
DMPlex: Also mark hybrid cells with unsplit vertices
DMPlex: Docs for preallocation
DMPlex: Fix for parallel refinement - PetscSF needs the leaves in sorted local order for it to get SFGather correct
DMPlex: Label hybrid cells with unsplit edges during submesh creation - I don't like this completely since we have to use -(cell number) to avoid aliasing vertices in the original mesh
DMPlex: Fixed submesh boundary in 3D - Correct support for unsplit edges - Correct support for hybrid faces from unsplit edges - Added checks
DMPlex: Now DMPlexCheclSymmetry() also checks multiple cone/support entries
DMPlex: Fix unsplit vertex support in submeshes - Assumed only a single split edge, which is true in 2D
DMPlex: Fixing marking of unsplit vertices - Check for presence in label was wrong (has to be exactly -1) - Check for incidence was wrong (was also getting unsplit marker)
show more ...
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| #
05f5032e
|
| 07-Mar-2014 |
Matthew G. Knepley <knepley@gmail.com> |
DMPlex: Removed unused variable in refinement
|
| #
163235ba
|
| 07-Mar-2014 |
Matthew G. Knepley <knepley@gmail.com> |
DMPlex: Also mark hybrid cells with unsplit vertices
|
| #
96a07cd0
|
| 05-Mar-2014 |
Matthew G. Knepley <knepley@gmail.com> |
DMPlex: Label hybrid cells with unsplit edges during submesh creation
- I don't like this completely since we have to use -(cell number) to avoid aliasing vertices in the original mesh
|
| #
ab15ae43
|
| 03-Mar-2014 |
Matthew G. Knepley <knepley@gmail.com> |
Merge branch 'master' into knepley/feature-plex-fas
* master: (863 commits)
Revert "mpich: use latest mpich tarball with gcov but use '--enable-coverage' mpich configure option."
MatCreateTransp
Merge branch 'master' into knepley/feature-plex-fas
* master: (863 commits)
Revert "mpich: use latest mpich tarball with gcov but use '--enable-coverage' mpich configure option."
MatCreateTranspose: fix for lazy block size
mpich: use latest mpich tarball with gcov but use '--enable-coverage' mpich configure option.
configure: add FC_DEFINE_FLAG to petscvariables
added a citation for pounders, Stefan finally came through
update to latest netcdf fixes bug that did not allow building on recent Mac OS X
DMPlex: Fixes for CGNS - Fixed loop bounds since CGNS uses closed intervals - Bug with mixed cell types - Typo with coordinates
final updates from nightly tests
fix for countcfunction
removed outdated docs and comments on MatStructure usage removed SAME_PRECONDITIONER since no longer used removed unneed use of MatStructure in Schur complement matrix
removed MatStructure arguments from Tao
fixes for Sundials and fun3d cannot use MPIU_SUM for integer arrays
inplace ILU factorization must update state of inplace matrix to prevent infinite recursion of updating PC
fixes for BDDC by the way not having BDDC always in the testing is going to lead to trouble
the compute Jacobian functions for SNES and TS now do not take a MatStructure flag
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()
tracks when Mat's have a change in nonzero structure this information can be used by PC to determine how preconditioners must be rebuilt currently only does an error check if the user said same nonzero pattern but actually changed the pattern
completed cleanup of removal of matrix pointers to compute jacobian routines
makefile: Added 'make includegraph' to create an inclusion dependency graph.
Contrib: Updated include-graph.sh script to ignore *.hh files
...
Conflicts:
src/dm/dt/interface/dt.c
show more ...
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| #
da1dd7e4
|
| 01-Mar-2014 |
Matthew G. Knepley <knepley@gmail.com> |
DMPlex: Fixed submesh boundary in 3D
- Correct support for unsplit edges
- Correct support for hybrid faces from unsplit edges
- Added checks
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| #
39254ff6
|
| 28-Feb-2014 |
Matthew G. Knepley <knepley@gmail.com> |
DMPlex: Fix unsplit vertex support in submeshes
- Assumed only a single split edge, which is true in 2D
|
| #
8771c1d3
|
| 28-Feb-2014 |
Matthew G. Knepley <knepley@gmail.com> |
DMPlex: Fixing marking of unsplit vertices
- Check for presence in label was wrong (has to be exactly -1)
- Check for incidence was wrong (was also getting unsplit marker)
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| #
061e9cde
|
| 27-Feb-2014 |
Vijay Mahadevan <vijay.m@gmail.com> |
Merging master with feature-dmmoab. Only conflict was with SOURCECXX specification under impls/moab/makefile.
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| #
bf5b0b0b
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| 25-Feb-2014 |
Vijay Mahadevan <vijay.m@gmail.com> |
Merged petsc/petsc into master
|
| #
020631bc
|
| 19-Feb-2014 |
Peter Brune <brune@mcs.anl.gov> |
Merge branch 'master' into prbrune/snes-fascontinuation
Conflicts:
include/petscsnesfas.h
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| #
1f1b5a69
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| 15-Feb-2014 |
Barry Smith <bsmith@mcs.anl.gov> |
Merge branch 'master' into barry/ts-rhsjacobian-only
|