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7 years agoMerge pull request #4857 from tamiko/generalized_interpolation
Wolfgang Bangerth [Wed, 20 Sep 2017 17:55:03 +0000 (11:55 -0600)]
Merge pull request #4857 from tamiko/generalized_interpolation

Generalized support points / interpolation

7 years agoMerge pull request #5115 from masterleinad/fix_serialization
Daniel Arndt [Wed, 20 Sep 2017 15:30:59 +0000 (17:30 +0200)]
Merge pull request #5115 from masterleinad/fix_serialization

Fix serialization of DoFHandler and Triangulation for clang-5

7 years agoMerge pull request #5111 from bangerth/const-args
Daniel Arndt [Wed, 20 Sep 2017 15:22:00 +0000 (17:22 +0200)]
Merge pull request #5111 from bangerth/const-args

Marks some input arguments as 'const'.

7 years agoFix serialization of DoFHandler and Triangulation for clang-5 5115/head
Daniel Arndt [Wed, 20 Sep 2017 10:15:34 +0000 (12:15 +0200)]
Fix serialization of DoFHandler and Triangulation for clang-5

7 years agoMerge pull request #5104 from masterleinad/doc_copy_to_mg
Timo Heister [Tue, 19 Sep 2017 17:41:17 +0000 (13:41 -0400)]
Merge pull request #5104 from masterleinad/doc_copy_to_mg

Improve documentation for MultigridTransfer::copy_to_mg

7 years agoMerge pull request #5113 from masterleinad/remove_unused_reserve_space
Wolfgang Bangerth [Tue, 19 Sep 2017 16:49:55 +0000 (10:49 -0600)]
Merge pull request #5113 from masterleinad/remove_unused_reserve_space

Remove unused private function DoFHandler::reserve_space

7 years agoRemove unused private function DoFHandler::reserve_space 5113/head
Daniel Arndt [Tue, 19 Sep 2017 15:40:42 +0000 (17:40 +0200)]
Remove unused private function DoFHandler::reserve_space

7 years agoMark some input arguments as 'const'. 5111/head
Wolfgang Bangerth [Tue, 19 Sep 2017 15:10:08 +0000 (09:10 -0600)]
Mark some input arguments as 'const'.

7 years agoImprove documentation for copy_to_mg 5104/head
Daniel Arndt [Mon, 18 Sep 2017 13:58:09 +0000 (15:58 +0200)]
Improve documentation for copy_to_mg

7 years agoMerge pull request #5105 from Rombur/cuda_documentation
Denis Davydov [Tue, 19 Sep 2017 08:11:38 +0000 (10:11 +0200)]
Merge pull request #5105 from Rombur/cuda_documentation

Add documentation to enable CUDA support

7 years agoMerge pull request #5103 from bangerth/fix-warning
Daniel Arndt [Mon, 18 Sep 2017 20:09:21 +0000 (22:09 +0200)]
Merge pull request #5103 from bangerth/fix-warning

Avoid a warning about an unused argument.

7 years agoMerge pull request #5098 from drwells/add-sundials-copy-test
Luca Heltai [Mon, 18 Sep 2017 17:27:51 +0000 (19:27 +0200)]
Merge pull request #5098 from drwells/add-sundials-copy-test

Add a test for copying SUNDIALS vectors.

7 years agoMerge pull request #5099 from drwells/remove-vector-slice-1
David Wells [Mon, 18 Sep 2017 15:22:19 +0000 (11:22 -0400)]
Merge pull request #5099 from drwells/remove-vector-slice-1

Remove VectorSlice from some internal functions.

7 years agoAdd documentation to enable CUDA support 5105/head
Bruno Turcksin [Sun, 17 Sep 2017 04:04:04 +0000 (00:04 -0400)]
Add documentation to enable CUDA support

7 years agoMerge pull request #5102 from bangerth/fix-test
Daniel Arndt [Mon, 18 Sep 2017 14:04:54 +0000 (16:04 +0200)]
Merge pull request #5102 from bangerth/fix-test

Further increase test accuracy.

7 years agoAvoid a warning about an unused argument. 5103/head
Wolfgang Bangerth [Mon, 18 Sep 2017 13:57:26 +0000 (07:57 -0600)]
Avoid a warning about an unused argument.

7 years agoFurther increase test accuracy. 5102/head
Wolfgang Bangerth [Mon, 18 Sep 2017 13:55:58 +0000 (07:55 -0600)]
Further increase test accuracy.

7 years agoMerge pull request #5078 from GivAlz/master
Daniel Arndt [Mon, 18 Sep 2017 08:20:36 +0000 (10:20 +0200)]
Merge pull request #5078 from GivAlz/master

Adding Bounding Boxes class to Base

7 years agoMerge pull request #5093 from bangerth/hp-fixes
Martin Kronbichler [Mon, 18 Sep 2017 07:38:50 +0000 (09:38 +0200)]
Merge pull request #5093 from bangerth/hp-fixes

Provide DoFAccessor::set_dof_indices() for hp.

7 years agoMerge pull request #5097 from drwells/sundials-fixes-2
David Wells [Sun, 17 Sep 2017 23:35:15 +0000 (19:35 -0400)]
Merge pull request #5097 from drwells/sundials-fixes-2

Reword the description of SUNDIALS_INCLUDE_DIRS.

7 years agoCreated class Bounding Box and its routine point_inside 5078/head
Giovanni Alzetta [Sun, 17 Sep 2017 23:25:10 +0000 (23:25 +0000)]
Created class Bounding Box and its routine point_inside

7 years agoRemove VectorSlice from some internal functions. 5099/head
David Wells [Sat, 16 Sep 2017 20:36:18 +0000 (16:36 -0400)]
Remove VectorSlice from some internal functions.

7 years agoAdd a test for copying SUNDIALS vectors. 5098/head
David Wells [Sun, 17 Sep 2017 20:55:58 +0000 (16:55 -0400)]
Add a test for copying SUNDIALS vectors.

7 years agoremove FIXME 4857/head
Matthias Maier [Sat, 16 Sep 2017 06:16:00 +0000 (01:16 -0500)]
remove FIXME

7 years agoFETools::interpolate: Skip body if FENothing is encountered
Matthias Maier [Sat, 16 Sep 2017 05:43:54 +0000 (00:43 -0500)]
FETools::interpolate: Skip body if FENothing is encountered

7 years agocodim_one/error_estimator_02: Fix invalid array access
Matthias Maier [Sat, 16 Sep 2017 05:34:13 +0000 (00:34 -0500)]
codim_one/error_estimator_02: Fix invalid array access

7 years agoadd a note
Matthias Maier [Fri, 15 Sep 2017 15:50:02 +0000 (10:50 -0500)]
add a note

7 years agoAugment documentation
Matthias Maier [Fri, 15 Sep 2017 15:35:35 +0000 (10:35 -0500)]
Augment documentation

7 years agosimplify
Matthias Maier [Fri, 15 Sep 2017 15:32:41 +0000 (10:32 -0500)]
simplify

7 years agogracefully fall-back to Lagrange interpolation if conformity is unknown
Matthias Maier [Fri, 8 Sep 2017 03:28:53 +0000 (22:28 -0500)]
gracefully fall-back to Lagrange interpolation if conformity is unknown

7 years agoadd tests
Matthias Maier [Wed, 6 Sep 2017 22:57:39 +0000 (17:57 -0500)]
add tests

7 years agointermediate
Matthias Maier [Sat, 2 Sep 2017 04:42:07 +0000 (23:42 -0500)]
intermediate

7 years agoAdd FETools::convert_generalized_support_point_values_to_dof_values
Matthias Maier [Thu, 7 Sep 2017 22:14:48 +0000 (17:14 -0500)]
Add FETools::convert_generalized_support_point_values_to_dof_values

7 years agoReword the description of SUNDIALS_INCLUDE_DIRS. 5097/head
David Wells [Sat, 16 Sep 2017 21:29:26 +0000 (17:29 -0400)]
Reword the description of SUNDIALS_INCLUDE_DIRS.

7 years agoMerge pull request #5080 from masterleinad/default_constructors
Wolfgang Bangerth [Sun, 17 Sep 2017 18:21:49 +0000 (12:21 -0600)]
Merge pull request #5080 from masterleinad/default_constructors

Default constructors and destructors

7 years agoMerge pull request #5096 from drwells/sundials-fixes
Luca Heltai [Sat, 16 Sep 2017 21:27:30 +0000 (23:27 +0200)]
Merge pull request #5096 from drwells/sundials-fixes

Sundials fixes

7 years agoGet rid of two unused variable warnings. 5096/head
David Wells [Sat, 16 Sep 2017 18:50:30 +0000 (14:50 -0400)]
Get rid of two unused variable warnings.

7 years agoImprove the path-finding for FindSUNDIALS.cmake.
David Wells [Sat, 16 Sep 2017 18:00:51 +0000 (14:00 -0400)]
Improve the path-finding for FindSUNDIALS.cmake.

This fixes an issue where if SUNDIALS_DIR is never set then SUN_INC is just
'/include/', which is usually not a directory.

7 years agoMake the SUNDIALS vector copy more generic.
David Wells [Sat, 16 Sep 2017 18:00:30 +0000 (14:00 -0400)]
Make the SUNDIALS vector copy more generic.

7 years agoMerge pull request #4852 from luca-heltai/ida-interface
Luca Heltai [Sat, 16 Sep 2017 04:44:14 +0000 (06:44 +0200)]
Merge pull request #4852 from luca-heltai/ida-interface

IDAInterface

7 years agoAdd include file to fix errors in multigrid tests 5080/head
Daniel Arndt [Fri, 15 Sep 2017 22:48:04 +0000 (00:48 +0200)]
Add include file to fix errors in multigrid tests

7 years agoFixed compilation issue in serial. 4852/head
Luca Heltai [Fri, 15 Sep 2017 22:44:25 +0000 (00:44 +0200)]
Fixed compilation issue in serial.

7 years agoMerge pull request #5094 from bangerth/update-test
Matthias Maier [Fri, 15 Sep 2017 22:19:26 +0000 (17:19 -0500)]
Merge pull request #5094 from bangerth/update-test

Increase precision with which we output test results.

7 years agoIncrease precision with which we output test results. 5094/head
Wolfgang Bangerth [Fri, 15 Sep 2017 21:44:17 +0000 (15:44 -0600)]
Increase precision with which we output test results.

7 years agoUnify the hp and non-hp implementations of a function. 5093/head
Wolfgang Bangerth [Wed, 13 Sep 2017 21:12:31 +0000 (15:12 -0600)]
Unify the hp and non-hp implementations of a function.

7 years agoImplement set_dof_indices() also for the hp case.
Wolfgang Bangerth [Wed, 13 Sep 2017 19:46:51 +0000 (13:46 -0600)]
Implement set_dof_indices() also for the hp case.

This is a trivial copy of the non-hp case as long as we provide the
appropriate active_fe_index.

7 years agoUse DoFInvalidAccessor to unify three partial specializations into one.
Wolfgang Bangerth [Wed, 13 Sep 2017 18:46:29 +0000 (12:46 -0600)]
Use DoFInvalidAccessor to unify three partial specializations into one.

7 years agoChangelog.
Luca Heltai [Tue, 12 Sep 2017 11:49:09 +0000 (13:49 +0200)]
Changelog.

7 years agoMoved options to AdditionalData. Fixed doc.
Luca Heltai [Tue, 12 Sep 2017 11:43:43 +0000 (13:43 +0200)]
Moved options to AdditionalData. Fixed doc.

7 years agoUse GrowingVectorMemory in IDA + example in doc.
Luca Heltai [Fri, 8 Sep 2017 14:45:02 +0000 (16:45 +0200)]
Use GrowingVectorMemory in IDA + example in doc.

7 years agoRenamed IDAInterface to IDA.
Luca Heltai [Wed, 6 Sep 2017 12:38:46 +0000 (14:38 +0200)]
Renamed IDAInterface to IDA.

7 years agoMore sensible defaults, and document optional functions.
Luca Heltai [Wed, 6 Sep 2017 12:22:03 +0000 (14:22 +0200)]
More sensible defaults, and document optional functions.

7 years agoRenamed reset_dae and improved documentation.
Luca Heltai [Wed, 6 Sep 2017 11:33:36 +0000 (13:33 +0200)]
Renamed reset_dae and improved documentation.

7 years agoAdded AssertIDA macro.
Luca Heltai [Wed, 6 Sep 2017 11:32:56 +0000 (13:32 +0200)]
Added AssertIDA macro.

7 years agoAdded quicktest.
Luca Heltai [Tue, 5 Sep 2017 14:26:26 +0000 (16:26 +0200)]
Added quicktest.

7 years agoStarting point for SUNDIALS IDA interface.
Luca Heltai [Mon, 14 Aug 2017 23:25:03 +0000 (17:25 -0600)]
Starting point for SUNDIALS IDA interface.

7 years agoMerge pull request #5052 from Rombur/python_triangulation
Denis Davydov [Fri, 15 Sep 2017 12:20:45 +0000 (14:20 +0200)]
Merge pull request #5052 from Rombur/python_triangulation

Python wrappers

7 years agoMerge pull request #5087 from drwells/timer-multithreaded-fixes
Luca Heltai [Fri, 15 Sep 2017 12:09:34 +0000 (14:09 +0200)]
Merge pull request #5087 from drwells/timer-multithreaded-fixes

Timer multithreaded fixes

7 years agoMerge pull request #5091 from bangerth/doc-update
Luca Heltai [Fri, 15 Sep 2017 12:06:56 +0000 (14:06 +0200)]
Merge pull request #5091 from bangerth/doc-update

Fix grammar.

7 years agoFix default definitions in header files
Daniel Arndt [Fri, 15 Sep 2017 07:56:57 +0000 (09:56 +0200)]
Fix default definitions in header files

7 years agoMove default definitions to declarations
Daniel Arndt [Thu, 14 Sep 2017 21:58:05 +0000 (23:58 +0200)]
Move default definitions to declarations

7 years agoMerge pull request #5083 from masterleinad/replace_single_character
Daniel Arndt [Thu, 14 Sep 2017 23:02:28 +0000 (01:02 +0200)]
Merge pull request #5083 from masterleinad/replace_single_character

Replace single character strings

7 years agoFix grammar. 5091/head
Wolfgang Bangerth [Thu, 14 Sep 2017 22:13:31 +0000 (16:13 -0600)]
Fix grammar.

7 years agoDefault constructors and destructors
Daniel Arndt [Tue, 12 Sep 2017 13:56:29 +0000 (15:56 +0200)]
Default constructors and destructors

7 years agoMerge pull request #5089 from tjhei/fix_boost_serialize_header_missing_2
Wolfgang Bangerth [Thu, 14 Sep 2017 20:11:19 +0000 (14:11 -0600)]
Merge pull request #5089 from tjhei/fix_boost_serialize_header_missing_2

second try in fixing boost serialization missing header

7 years agosecond try in fixing boost serialization missing header 5089/head
Timo Heister [Thu, 14 Sep 2017 20:01:34 +0000 (16:01 -0400)]
second try in fixing boost serialization missing header

7 years agoMerge pull request #5055 from masterleinad/move_finite_element
Wolfgang Bangerth [Thu, 14 Sep 2017 19:55:57 +0000 (13:55 -0600)]
Merge pull request #5055 from masterleinad/move_finite_element

Implement move constructors for FiniteElement and FESystem

7 years agoMerge pull request #5075 from bangerth/invalid-accessor
Matthias Maier [Thu, 14 Sep 2017 19:52:21 +0000 (14:52 -0500)]
Merge pull request #5075 from bangerth/invalid-accessor

Introduce a class that can't be used.

7 years agoExit the given subsection in TimerOutput::Scope. 5087/head
David Wells [Thu, 14 Sep 2017 18:24:29 +0000 (14:24 -0400)]
Exit the given subsection in TimerOutput::Scope.

The current implementation doesn't work in a multithreaded context.
Consider the following sequence of events:

Thread 1: start and create Scope scope_1(timer_output, "1")
Thread 2: start and create Scope scope_2(timer_output, "2")
Thread 1: call ~scope_1() and join
Thread 2: call ~scope_2() and join

The current implementation of ~Scope() exits the most recent subsection,
so when ~scope_1() is called we leave subsection "2" and when ~scope_2()
is called we leave subsection "1". We can get around this by always
explicitly exiting the subsection in which we started.

7 years agoUse last lap times for TimerOutput accumulation.
David Wells [Thu, 14 Sep 2017 18:22:22 +0000 (14:22 -0400)]
Use last lap times for TimerOutput accumulation.

The methods Timer::wall_time() and Timer::cpu_time() (i.e.,
Timer::operator()()) return cumulative times instead of times over the
last lap.

7 years agoMerge pull request #5026 from masterleinad/variadic_constructor_fe_system
Wolfgang Bangerth [Thu, 14 Sep 2017 17:51:31 +0000 (11:51 -0600)]
Merge pull request #5026 from masterleinad/variadic_constructor_fe_system

Variadic constructor for FESystem

7 years agoMerge pull request #5071 from masterleinad/fix_clang_5_0_0
Wolfgang Bangerth [Thu, 14 Sep 2017 17:47:29 +0000 (11:47 -0600)]
Merge pull request #5071 from masterleinad/fix_clang_5_0_0

Fix warnings for clang-5.0.0

7 years agoMerge pull request #5081 from masterleinad/use_const_ref
Wolfgang Bangerth [Thu, 14 Sep 2017 17:46:59 +0000 (11:46 -0600)]
Merge pull request #5081 from masterleinad/use_const_ref

Use const& instead of const where applicable

7 years agoMerge pull request #5086 from tjhei/fix_boost_serialize_header_missing
Wolfgang Bangerth [Thu, 14 Sep 2017 17:23:00 +0000 (11:23 -0600)]
Merge pull request #5086 from tjhei/fix_boost_serialize_header_missing

add missing header file needed for boost 1.65

7 years agoadd missing header file needed for boost 1.65 5086/head
Timo Heister [Thu, 14 Sep 2017 17:20:29 +0000 (13:20 -0400)]
add missing header file needed for boost 1.65

7 years agoMerge pull request #5084 from GivAlz/ErrorPoint
Wolfgang Bangerth [Thu, 14 Sep 2017 14:49:20 +0000 (08:49 -0600)]
Merge pull request #5084 from GivAlz/ErrorPoint

Corrected error in documentation of point input operator

7 years agoCorrected error in documentation 5084/head
GivAlz [Thu, 14 Sep 2017 16:44:12 +0000 (16:44 +0000)]
Corrected error in documentation

7 years agoMerge pull request #5082 from masterleinad/use_nullptr
Wolfgang Bangerth [Thu, 14 Sep 2017 14:11:47 +0000 (08:11 -0600)]
Merge pull request #5082 from masterleinad/use_nullptr

Use nullptr instead of NULL

7 years agoMerge pull request #5068 from bangerth/hp-fixes
Timo Heister [Thu, 14 Sep 2017 13:44:19 +0000 (09:44 -0400)]
Merge pull request #5068 from bangerth/hp-fixes

More parallel hp fixes

7 years agoReplace single character strings 5083/head
Daniel Arndt [Thu, 14 Sep 2017 13:36:17 +0000 (15:36 +0200)]
Replace single character strings

7 years agoUse nullptr instead of NULL 5082/head
Daniel Arndt [Thu, 14 Sep 2017 13:35:31 +0000 (15:35 +0200)]
Use nullptr instead of NULL

7 years agoUse const& instead of const where applicable 5081/head
Daniel Arndt [Thu, 14 Sep 2017 13:34:30 +0000 (15:34 +0200)]
Use const& instead of const where applicable

7 years agoMerge pull request #5079 from bangerth/doc-update
Timo Heister [Thu, 14 Sep 2017 13:39:54 +0000 (09:39 -0400)]
Merge pull request #5079 from bangerth/doc-update

Update the C++11 page.

7 years agoUpdate the C++11 page. 5079/head
Wolfgang Bangerth [Thu, 14 Sep 2017 13:35:18 +0000 (07:35 -0600)]
Update the C++11 page.

7 years agoMerge pull request #5070 from bangerth/prep-work
Daniel Arndt [Thu, 14 Sep 2017 13:13:53 +0000 (15:13 +0200)]
Merge pull request #5070 from bangerth/prep-work

Prep work

7 years agoMerge pull request #5065 from bangerth/fix-richardson
Daniel Arndt [Thu, 14 Sep 2017 07:30:59 +0000 (09:30 +0200)]
Merge pull request #5065 from bangerth/fix-richardson

Avoid raw pointers in favor of VectorMemory::Pointer in SolverRichardson.

7 years agoMerge pull request #5076 from bangerth/simplify
Denis Davydov [Thu, 14 Sep 2017 06:16:37 +0000 (08:16 +0200)]
Merge pull request #5076 from bangerth/simplify

Simplify some function calls now that we have hp::DoFHandler::get_fe(index)

7 years agoSimplify some function calls now that we have hp::DoFHandler::get_fe(index). 5076/head
Wolfgang Bangerth [Wed, 13 Sep 2017 22:12:36 +0000 (16:12 -0600)]
Simplify some function calls now that we have hp::DoFHandler::get_fe(index).

7 years agoFix warnings for clang-5.0.0 5071/head
Daniel Arndt [Wed, 13 Sep 2017 16:00:16 +0000 (18:00 +0200)]
Fix warnings for clang-5.0.0

7 years agoUpdate some documentation. 5075/head
Wolfgang Bangerth [Wed, 13 Sep 2017 18:45:49 +0000 (12:45 -0600)]
Update some documentation.

7 years agoIntroduce a class that can't be used.
Wolfgang Bangerth [Wed, 13 Sep 2017 18:45:34 +0000 (12:45 -0600)]
Introduce a class that can't be used.

Specifically, declare DoFInvalidAccessor that is the accessor
for cases where dim>spacedim -- i.e., things that can't logically
happen, but that at times do happen in code like

  for (quad=0; quad<GeometryInfo<dim>::quads_per_cell; ++quad)
    cell->quad(quad)->do_something();

Here, the code is not executed in 1d, but we want it to be syntactically
correct so that we can compile the function. Having a DoFInvalidAccessor
then serves the same purpose that InvalidAccessor already does for
tria accessor functions: such objects cannot be created but rather
throw an exception, but they provide the correct syntax.

7 years agoMerge pull request #5066 from tamiko/bzip2_dir
Timo Heister [Wed, 13 Sep 2017 17:42:30 +0000 (13:42 -0400)]
Merge pull request #5066 from tamiko/bzip2_dir

CMake: Respect BZIP2_DIR in FindBZIP2.cmake

7 years agoMake the set_dof_indices() function more general. 5070/head
Wolfgang Bangerth [Wed, 13 Sep 2017 03:08:02 +0000 (21:08 -0600)]
Make the set_dof_indices() function more general.

7 years agoWrap a bunch of comments.
Wolfgang Bangerth [Tue, 12 Sep 2017 22:48:05 +0000 (16:48 -0600)]
Wrap a bunch of comments.

7 years agoAdd a changelog entry. 5065/head
Wolfgang Bangerth [Wed, 13 Sep 2017 15:32:20 +0000 (09:32 -0600)]
Add a changelog entry.

7 years agoAvoid raw pointers in favor of VectorMemory::Pointer.
Wolfgang Bangerth [Tue, 12 Sep 2017 01:03:29 +0000 (19:03 -0600)]
Avoid raw pointers in favor of VectorMemory::Pointer.

7 years agoRemove an unused variable.
Wolfgang Bangerth [Tue, 12 Sep 2017 00:45:48 +0000 (18:45 -0600)]
Remove an unused variable.

7 years agoMake SolverRichardson::criterion() be self contained.
Wolfgang Bangerth [Tue, 12 Sep 2017 00:44:42 +0000 (18:44 -0600)]
Make SolverRichardson::criterion() be self contained.

Specifically, pass everything the function needs as argument. Also make it 'const'
by not letting it set a variable that is otherwise never read anywhere.

7 years agoRemove an unnecessary include file.
Wolfgang Bangerth [Tue, 12 Sep 2017 00:37:09 +0000 (18:37 -0600)]
Remove an unnecessary include file.

7 years agoMerge pull request #5069 from bangerth/doc-updates
Timo Heister [Wed, 13 Sep 2017 14:53:42 +0000 (10:53 -0400)]
Merge pull request #5069 from bangerth/doc-updates

Doc updates


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