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6 years agoMerge pull request #5203 from tjhei/simplify_test_intergrid_constraints
Wolfgang Bangerth [Mon, 9 Oct 2017 23:32:05 +0000 (17:32 -0600)]
Merge pull request #5203 from tjhei/simplify_test_intergrid_constraints

simplify tests/grid/intergrid_constraints

6 years agoMerge pull request #5213 from masterleinad/intel18_4
David Wells [Mon, 9 Oct 2017 21:33:42 +0000 (17:33 -0400)]
Merge pull request #5213 from masterleinad/intel18_4

Move default pure virtual destructor of Function

6 years agoMerge pull request #5214 from masterleinad/intel18_3
Daniel Arndt [Mon, 9 Oct 2017 16:58:53 +0000 (18:58 +0200)]
Merge pull request #5214 from masterleinad/intel18_3

Add missing (unused) return value in Convert::to_pattern

6 years agoMerge pull request #5216 from masterleinad/intel18_1
Daniel Arndt [Mon, 9 Oct 2017 16:49:41 +0000 (18:49 +0200)]
Merge pull request #5216 from masterleinad/intel18_1

Pass a function pointer by adress instead of by value

6 years agoAdd missing (unused) return value in Convert::to_pattern 5214/head
Daniel Arndt [Mon, 9 Oct 2017 12:51:30 +0000 (14:51 +0200)]
Add missing (unused) return value in Convert::to_pattern

6 years agoMerge pull request #5215 from masterleinad/intel18_2
Wolfgang Bangerth [Mon, 9 Oct 2017 14:38:45 +0000 (08:38 -0600)]
Merge pull request #5215 from masterleinad/intel18_2

Rename loop variable to differ from enclosing one

6 years agoMerge pull request #5211 from davydden/lapack_trace
Wolfgang Bangerth [Mon, 9 Oct 2017 14:32:00 +0000 (08:32 -0600)]
Merge pull request #5211 from davydden/lapack_trace

add LAPACKFullMatrix::trace()

6 years agoMerge pull request #5209 from davydden/oversubscribe_quick_tests
Timo Heister [Mon, 9 Oct 2017 13:53:20 +0000 (09:53 -0400)]
Merge pull request #5209 from davydden/oversubscribe_quick_tests

explicitly oversubscribe with MPI for quick tests

6 years agoPass a function pointer by adress instead of by value 5216/head
Daniel Arndt [Mon, 9 Oct 2017 12:55:16 +0000 (14:55 +0200)]
Pass a function pointer by adress instead of by value

6 years agoRename loop variable to differ from enclosing one 5215/head
Daniel Arndt [Mon, 9 Oct 2017 12:52:26 +0000 (14:52 +0200)]
Rename loop variable to differ from enclosing one

6 years agoMove default pure virtual destructor of Function 5213/head
Daniel Arndt [Mon, 9 Oct 2017 12:49:13 +0000 (14:49 +0200)]
Move default pure virtual destructor of Function

6 years agoadd LAPACKFullMatrix::trace() 5211/head
Denis Davydov [Mon, 9 Oct 2017 09:06:34 +0000 (11:06 +0200)]
add LAPACKFullMatrix::trace()

6 years agoMerge pull request #5210 from masterleinad/remove_petsc_options
Wolfgang Bangerth [Mon, 9 Oct 2017 02:24:39 +0000 (20:24 -0600)]
Merge pull request #5210 from masterleinad/remove_petsc_options

Remove unused PETSc options

6 years agoMerge pull request #5199 from drwells/extra-assimp-hint
Daniel Arndt [Sun, 8 Oct 2017 20:45:19 +0000 (22:45 +0200)]
Merge pull request #5199 from drwells/extra-assimp-hint

Add an extra hint for assimp.

6 years agoRemove unused PETSc options 5210/head
Daniel Arndt [Sun, 8 Oct 2017 20:26:42 +0000 (22:26 +0200)]
Remove unused PETSc options

6 years agoMerge pull request #5204 from davydden/mg_interface_size_type
David Wells [Sun, 8 Oct 2017 17:38:53 +0000 (13:38 -0400)]
Merge pull request #5204 from davydden/mg_interface_size_type

add size_type to MGInterfaceOperator

6 years agoMerge pull request #5206 from bangerth/simplify
Daniel Arndt [Sun, 8 Oct 2017 10:39:10 +0000 (12:39 +0200)]
Merge pull request #5206 from bangerth/simplify

Use std::unique_ptr instead of std::shared_ptr.

6 years agoexplicitly oversubscribe with MPI for quick tests 5209/head
Denis Davydov [Sat, 7 Oct 2017 19:10:58 +0000 (21:10 +0200)]
explicitly oversubscribe with MPI for quick tests

6 years agoUse std::unique_ptr instead of std::shared_ptr. 5206/head
Wolfgang Bangerth [Sat, 7 Oct 2017 03:33:31 +0000 (21:33 -0600)]
Use std::unique_ptr instead of std::shared_ptr.

6 years agoMerge pull request #5160 from danshapero/bbox
Wolfgang Bangerth [Sat, 7 Oct 2017 03:30:34 +0000 (21:30 -0600)]
Merge pull request #5160 from danshapero/bbox

bounding box for triangulation and cell iterators [WIP]

6 years agoAdded functions to compute bounding box for triangulation, accessors 5160/head
danshapero [Tue, 26 Sep 2017 21:49:06 +0000 (14:49 -0700)]
Added functions to compute bounding box for triangulation, accessors

6 years agoadd size_type to MGInterfaceOperator 5204/head
Denis Davydov [Fri, 6 Oct 2017 16:55:45 +0000 (18:55 +0200)]
add size_type to MGInterfaceOperator

This might be needed when one uses a single wrapper class
to define level block operators based on non-block versions.

6 years agoMerge pull request #5189 from bangerth/aligned-vector
Martin Kronbichler [Fri, 6 Oct 2017 15:35:59 +0000 (17:35 +0200)]
Merge pull request #5189 from bangerth/aligned-vector

Allow using objects in Table and AlignedVector that are not copyable.

6 years agoSimplify code. 5189/head
Wolfgang Bangerth [Fri, 6 Oct 2017 13:56:04 +0000 (07:56 -0600)]
Simplify code.

6 years agosimplify tests/grid/intergrid_constraints 5203/head
Timo Heister [Fri, 6 Oct 2017 13:00:16 +0000 (09:00 -0400)]
simplify tests/grid/intergrid_constraints

reduce 500k+ bytes of output to something that doesn't cause the tester
to timeout

6 years agoMerge pull request #5196 from asartori86/fix_sundials
Luca Heltai [Fri, 6 Oct 2017 12:59:25 +0000 (14:59 +0200)]
Merge pull request #5196 from asartori86/fix_sundials

fix sundials interface for NON-MPI installations

6 years agoMerge pull request #5202 from tcclevenger/mesh_loop
Daniel Arndt [Fri, 6 Oct 2017 08:26:34 +0000 (10:26 +0200)]
Merge pull request #5202 from tcclevenger/mesh_loop

Removing an unused variable in mesh_loop.h

6 years agoMerge pull request #5200 from drwells/constraintmatrix-improvements
Martin Kronbichler [Fri, 6 Oct 2017 07:17:29 +0000 (09:17 +0200)]
Merge pull request #5200 from drwells/constraintmatrix-improvements

ConstraintMatrix improvements

6 years agoAdd an extra hint for assimp. 5199/head
David Wells [Thu, 5 Oct 2017 19:54:30 +0000 (15:54 -0400)]
Add an extra hint for assimp.

If assimp has its own directory, e.g., ASSIMP_DIR=/opt/assimp/, then
this hint is needed.

6 years agoAdd a finite-ness assertion. 5200/head
David Wells [Thu, 5 Oct 2017 20:32:48 +0000 (16:32 -0400)]
Add a finite-ness assertion.

6 years agoRealign some arguments.
David Wells [Thu, 5 Oct 2017 20:32:30 +0000 (16:32 -0400)]
Realign some arguments.

6 years agoPrefer VectorType to VEC.
David Wells [Thu, 5 Oct 2017 20:32:09 +0000 (16:32 -0400)]
Prefer VectorType to VEC.

6 years agoUpdate some comments for ConstraintMatrixData.
David Wells [Thu, 5 Oct 2017 20:26:00 +0000 (16:26 -0400)]
Update some comments for ConstraintMatrixData.

We no longer use shared pointers here.

6 years agoAdjust tests.
Wolfgang Bangerth [Fri, 6 Oct 2017 03:44:59 +0000 (21:44 -0600)]
Adjust tests.

6 years agoremove unused variable 5202/head
tcclevenger [Fri, 6 Oct 2017 01:36:11 +0000 (21:36 -0400)]
remove unused variable

6 years agoMerge pull request #5169 from tamiko/generalized_interpolation_3
Matthias Maier [Fri, 6 Oct 2017 01:14:05 +0000 (20:14 -0500)]
Merge pull request #5169 from tamiko/generalized_interpolation_3

Reimplement VectorTools::interpolate_based_on_material_id

6 years agosimplify code 5169/head
Matthias Maier [Thu, 5 Oct 2017 19:54:37 +0000 (14:54 -0500)]
simplify code

6 years agoMerge pull request #5167 from luca-heltai/kinsol
Wolfgang Bangerth [Thu, 5 Oct 2017 20:34:31 +0000 (14:34 -0600)]
Merge pull request #5167 from luca-heltai/kinsol

KINSOL support.

6 years agoReimplement VectorTools::interpolate_based_on_material_id
Matthias Maier [Wed, 27 Sep 2017 21:00:01 +0000 (16:00 -0500)]
Reimplement VectorTools::interpolate_based_on_material_id

6 years agoMerge pull request #5198 from bangerth/update
Matthias Maier [Thu, 5 Oct 2017 19:35:42 +0000 (14:35 -0500)]
Merge pull request #5198 from bangerth/update

Update to VectorTools::interpolate

6 years agoEntirely avoid memory allocation in two places. 5198/head
Wolfgang Bangerth [Thu, 5 Oct 2017 19:17:11 +0000 (13:17 -0600)]
Entirely avoid memory allocation in two places.

6 years agoUse only one FEValues object.
Wolfgang Bangerth [Wed, 4 Oct 2017 14:41:32 +0000 (08:41 -0600)]
Use only one FEValues object.
>
> Currently, there is one FEValues object that is reinit'd in the innermost
> function, but that function may be called multiple times for the same
> cell for different base elements. That is wasteful, so avoid it.
>
The solution is to reinit it at the outermost place.

6 years agoAvoid passing around ints by reference.
Wolfgang Bangerth [Tue, 3 Oct 2017 21:42:02 +0000 (15:42 -0600)]
Avoid passing around ints by reference.

6 years agoMinor optimization of some memory allocation.
Wolfgang Bangerth [Tue, 3 Oct 2017 21:39:39 +0000 (15:39 -0600)]
Minor optimization of some memory allocation.

6 years agoFixed AS comments. 5167/head
Luca Heltai [Thu, 5 Oct 2017 10:25:44 +0000 (12:25 +0200)]
Fixed AS comments.

6 years agoSimplify code by omitting members that are now always either trueor false.
Wolfgang Bangerth [Thu, 5 Oct 2017 03:48:35 +0000 (21:48 -0600)]
Simplify code by omitting members that are now always either trueor false.

6 years agoMerge pull request #5195 from masterleinad/reduce_all_reduce
Daniel Arndt [Wed, 4 Oct 2017 23:02:35 +0000 (01:02 +0200)]
Merge pull request #5195 from masterleinad/reduce_all_reduce

Reduce number of internal::all_reduce versions

6 years agoReduce number of versions of internal::all_reduce 5195/head
Daniel Arndt [Tue, 3 Oct 2017 22:53:21 +0000 (00:53 +0200)]
Reduce number of versions of internal::all_reduce

6 years agoAdd test for operator== and operator!= for ArrayView
Daniel Arndt [Wed, 4 Oct 2017 08:29:09 +0000 (10:29 +0200)]
Add test for operator== and operator!= for ArrayView

6 years agoIntroduce operator== and operator!= for ArrayView
Daniel Arndt [Tue, 3 Oct 2017 22:53:11 +0000 (00:53 +0200)]
Introduce operator== and operator!= for ArrayView

6 years agoMerge pull request #5175 from masterleinad/mg_transfer_block
Martin Kronbichler [Wed, 4 Oct 2017 21:01:27 +0000 (23:01 +0200)]
Merge pull request #5175 from masterleinad/mg_transfer_block

MGTransferBlockMatrixFree with a separate DoFHandler for each block

6 years agoMerge pull request #5193 from bangerth/bb-update
David Wells [Wed, 4 Oct 2017 19:08:10 +0000 (15:08 -0400)]
Merge pull request #5193 from bangerth/bb-update

Doc update for GridTools::compute_bounding_box().

6 years agoMerge pull request #5192 from masterleinad/fix_slepc_test
Daniel Arndt [Wed, 4 Oct 2017 18:03:45 +0000 (20:03 +0200)]
Merge pull request #5192 from masterleinad/fix_slepc_test

Use MUMPS in SLEPcWrappers test

6 years agoRemove extra ';'
Daniel Arndt [Tue, 3 Oct 2017 20:04:05 +0000 (22:04 +0200)]
Remove extra ';'

6 years agoMerge pull request #5176 from bangerth/simplify-code
Timo Heister [Wed, 4 Oct 2017 17:47:09 +0000 (13:47 -0400)]
Merge pull request #5176 from bangerth/simplify-code

Simplify logic in p::d::Triangulation.

6 years agofix sundials interface for NON-MPI installations 5196/head
Alberto Sartori [Wed, 4 Oct 2017 10:04:57 +0000 (12:04 +0200)]
fix sundials interface for NON-MPI installations

6 years agoAdd changelog entry.
Wolfgang Bangerth [Tue, 3 Oct 2017 01:03:47 +0000 (19:03 -0600)]
Add changelog entry.

6 years agoAdd a test.
Wolfgang Bangerth [Tue, 3 Oct 2017 01:02:34 +0000 (19:02 -0600)]
Add a test.

6 years agoUse the correct move semantics in the correct places.
Wolfgang Bangerth [Wed, 4 Oct 2017 15:28:37 +0000 (09:28 -0600)]
Use the correct move semantics in the correct places.

6 years agoSimplify code. 5176/head
Wolfgang Bangerth [Sun, 1 Oct 2017 22:58:41 +0000 (16:58 -0600)]
Simplify code.

The previous patch made 'refinement_in_progress' obsolete. Remove it.

6 years agoAllow using objects in Table and AlignedVector that are not copyable.
Wolfgang Bangerth [Tue, 3 Oct 2017 01:02:21 +0000 (19:02 -0600)]
Allow using objects in Table and AlignedVector that are not copyable.

6 years agoMerge pull request #5194 from masterleinad/rempve_semicolon
Wolfgang Bangerth [Tue, 3 Oct 2017 21:08:12 +0000 (15:08 -0600)]
Merge pull request #5194 from masterleinad/rempve_semicolon

Remove extra ';'

6 years agoUse MUMPS in PETScWrappers::Jacobi and PETScWrappers::BlockJacobi if available 5192/head
Daniel Arndt [Tue, 3 Oct 2017 16:46:04 +0000 (18:46 +0200)]
Use MUMPS in PETScWrappers::Jacobi and PETScWrappers::BlockJacobi if available

6 years agoMerge pull request #5174 from davydden/la_p_block_scalar_product
Denis Davydov [Tue, 3 Oct 2017 20:07:05 +0000 (22:07 +0200)]
Merge pull request #5174 from davydden/la_p_block_scalar_product

add LA::d::BlockVector:: multivector_inner_product()

6 years agoRemove extra ';' 5194/head
Daniel Arndt [Tue, 3 Oct 2017 20:04:05 +0000 (22:04 +0200)]
Remove extra ';'

6 years agoAdd a test. 5193/head
Wolfgang Bangerth [Tue, 3 Oct 2017 19:27:55 +0000 (13:27 -0600)]
Add a test.

6 years agoDoc update for GridTools::compute_bounding_box().
Wolfgang Bangerth [Tue, 3 Oct 2017 19:27:46 +0000 (13:27 -0600)]
Doc update for GridTools::compute_bounding_box().

6 years agoChanged constructor for bounding box to accept mildly degenerate input
danshapero [Wed, 27 Sep 2017 00:45:02 +0000 (17:45 -0700)]
Changed constructor for bounding box to accept mildly degenerate input

6 years agominor doxygen fixes 5174/head
Denis Davydov [Tue, 3 Oct 2017 17:54:16 +0000 (19:54 +0200)]
minor doxygen fixes

6 years agoMerge pull request #5182 from bangerth/update-test
Daniel Arndt [Tue, 3 Oct 2017 14:35:48 +0000 (16:35 +0200)]
Merge pull request #5182 from bangerth/update-test

Update a test.

6 years agoMerge pull request #5151 from tamiko/generalized_interpolation_2
Luca Heltai [Tue, 3 Oct 2017 12:54:33 +0000 (14:54 +0200)]
Merge pull request #5151 from tamiko/generalized_interpolation_2

Improve VectorTools::interpolate: Transformation for systems

6 years agoMerge pull request #5183 from bangerth/doc-update
Luca Heltai [Tue, 3 Oct 2017 12:53:32 +0000 (14:53 +0200)]
Merge pull request #5183 from bangerth/doc-update

A minor doc update to class CellID.

6 years agoMerge pull request #5178 from masterleinad/fix_compile_petsc_complex
Wolfgang Bangerth [Tue, 3 Oct 2017 12:45:20 +0000 (06:45 -0600)]
Merge pull request #5178 from masterleinad/fix_compile_petsc_complex

Fix compilation with complex-valued PETSc

6 years agoMerge pull request #5172 from davydden/parpack_pointers
Luca Heltai [Tue, 3 Oct 2017 12:33:09 +0000 (14:33 +0200)]
Merge pull request #5172 from davydden/parpack_pointers

parpack: add additional solve() which takes eigenvectors as pointers

6 years agostatic_asserts for SUNDIALS solvers 5178/head
Daniel Arndt [Tue, 3 Oct 2017 11:00:42 +0000 (13:00 +0200)]
static_asserts for SUNDIALS solvers

6 years agomake sure multivector_inner_product() updates Property of LAPACKFullMatrix accordingly
Denis Davydov [Mon, 2 Oct 2017 18:00:26 +0000 (20:00 +0200)]
make sure multivector_inner_product() updates Property of LAPACKFullMatrix accordingly

6 years agoadd LA::d::BlockVector::multivector_inner_product()
Denis Davydov [Sat, 30 Sep 2017 21:36:42 +0000 (23:36 +0200)]
add LA::d::BlockVector::multivector_inner_product()

6 years agoadd Utilities::MPI::sum() for LAPACKFullMatrix objects
Denis Davydov [Sat, 30 Sep 2017 21:34:17 +0000 (23:34 +0200)]
add Utilities::MPI::sum() for LAPACKFullMatrix objects

6 years agoMerge pull request #5190 from drwells/add-lapacksupport-docs
Wolfgang Bangerth [Tue, 3 Oct 2017 03:02:52 +0000 (21:02 -0600)]
Merge pull request #5190 from drwells/add-lapacksupport-docs

Enable doxygen for the LAPACKSupport namespace.

6 years agoEnable doxygen for the LAPACKSupport namespace. 5190/head
David Wells [Tue, 3 Oct 2017 02:11:26 +0000 (22:11 -0400)]
Enable doxygen for the LAPACKSupport namespace.

Doxygen does not pick up undocumented namespaces

6 years agoMerge pull request #5186 from bangerth/doc-update-2
David Wells [Tue, 3 Oct 2017 00:46:42 +0000 (20:46 -0400)]
Merge pull request #5186 from bangerth/doc-update-2

Update documentation of SparseMatrixEZ.

6 years agoMerge pull request #5181 from bangerth/fix-exception-2
David Wells [Tue, 3 Oct 2017 00:28:04 +0000 (20:28 -0400)]
Merge pull request #5181 from bangerth/fix-exception-2

Make sure a destructor does not throw any exceptions.

6 years agoMerge pull request #5187 from bangerth/empty-constructor
David Wells [Tue, 3 Oct 2017 00:16:54 +0000 (20:16 -0400)]
Merge pull request #5187 from bangerth/empty-constructor

Use =default for an empty constructor.

6 years agoUse =default for an empty constructor. 5187/head
Wolfgang Bangerth [Mon, 2 Oct 2017 22:21:14 +0000 (16:21 -0600)]
Use =default for an empty constructor.

6 years agoUpdate documentation of SparseMatrixEZ. 5186/head
Wolfgang Bangerth [Mon, 2 Oct 2017 22:16:50 +0000 (16:16 -0600)]
Update documentation of SparseMatrixEZ.

6 years agoMerge pull request #5180 from bangerth/fix-exception
David Wells [Mon, 2 Oct 2017 18:52:51 +0000 (14:52 -0400)]
Merge pull request #5180 from bangerth/fix-exception

Catch exception by reference.

6 years agoA minor doc update to class CellID. 5183/head
Wolfgang Bangerth [Mon, 2 Oct 2017 16:47:49 +0000 (10:47 -0600)]
A minor doc update to class CellID.

6 years agoUpdate a test. 5182/head
Wolfgang Bangerth [Mon, 2 Oct 2017 16:42:51 +0000 (10:42 -0600)]
Update a test.

Let the test produce more output to make debugging easier if something goes wrong.

6 years agoMake sure a destructor does not throw any exceptions. 5181/head
Wolfgang Bangerth [Mon, 2 Oct 2017 16:33:57 +0000 (10:33 -0600)]
Make sure a destructor does not throw any exceptions.

6 years agoCatch exception by reference. 5180/head
Wolfgang Bangerth [Mon, 2 Oct 2017 16:28:21 +0000 (10:28 -0600)]
Catch exception by reference.

Copying is inefficient and, in this case, clearly unnecessary.

6 years agoMerge pull request #5177 from masterleinad/unused_vars
Wolfgang Bangerth [Mon, 2 Oct 2017 14:18:35 +0000 (08:18 -0600)]
Merge pull request #5177 from masterleinad/unused_vars

Silence warnings for unused parameters without LAPACK

6 years agoExtend convert_generalized_support_point_values_to_dof_values for complex-valued...
Daniel Arndt [Mon, 2 Oct 2017 14:12:44 +0000 (16:12 +0200)]
Extend convert_generalized_support_point_values_to_dof_values for complex-valued types

6 years agoDisable some Sundials functions for complex-valued PETSc
Daniel Arndt [Mon, 2 Oct 2017 14:11:59 +0000 (16:11 +0200)]
Disable some Sundials functions for complex-valued PETSc

6 years agoMerge pull request #5109 from davydden/interpolate_mg
Daniel Arndt [Mon, 2 Oct 2017 13:42:14 +0000 (15:42 +0200)]
Merge pull request #5109 from davydden/interpolate_mg

facilitate transfer of fine-level solution to MG levels and test it with MappingQEulerian

6 years agoSilence warnings for unused parameters without LAPACK 5177/head
Daniel Arndt [Mon, 2 Oct 2017 12:28:59 +0000 (14:28 +0200)]
Silence warnings for unused parameters without LAPACK

6 years agoMerge pull request #4729 from gassmoeller/add_particle_class
Luca Heltai [Mon, 2 Oct 2017 09:10:52 +0000 (11:10 +0200)]
Merge pull request #4729 from gassmoeller/add_particle_class

Add particle class

6 years agoChangelog entry 5175/head
Daniel Arndt [Sun, 1 Oct 2017 18:15:07 +0000 (20:15 +0200)]
Changelog entry

6 years agoAdd tests
Daniel Arndt [Sun, 1 Oct 2017 18:14:50 +0000 (20:14 +0200)]
Add tests

6 years agoAllow to use MGTransferBlockMatrixFree with a separate DoFHandler for each block
Daniel Arndt [Sun, 1 Oct 2017 20:53:10 +0000 (22:53 +0200)]
Allow to use MGTransferBlockMatrixFree with a separate DoFHandler for each block

6 years agoSimplify the logic during parallel::distributed mesh refinement.
Wolfgang Bangerth [Sun, 1 Oct 2017 22:03:42 +0000 (16:03 -0600)]
Simplify the logic during parallel::distributed mesh refinement.

Specifically, rather than let a function call itself recursively and catch that,
make sure we call the function of the base class right away.


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