logari81 pushed a change to branch master.
from 76d9cbf Create .codecov.yml
new 9b03efd Allow to detect lapack contained in the available BLAS
library
Summary of changes:
configure.ac | 19 ---
1 file changed, 12 insertions(+), 7 deletions(-)
branch: master
commit 9b03efd9854e865e195005436a7fbacf0e925361
Author: Konstantinos Poulios
Date: Wed Oct 16 17:43:04 2019 +0200
Allow to detect lapack contained in the available BLAS library
---
configure.ac | 19 ---
1 file changed, 12 insertions(+), 7 deletions(-)
diff
branch: master
commit 29539bc33c527893aaf820f582466d1819b62103
Author: Konstantinos Poulios
Date: Thu Oct 24 14:31:49 2019 +0200
Deep copy of mesh regions when copying a mesh
---
src/getfem_mesh.cc | 9 +
1 file changed, 5 insertions(+), 4 deletions(-)
diff --git
branch: devel-logari81-internal-variables
commit ff5eb9c9271cb82fd96b6044728bae6173203c81
Author: Konstantinos Poulios
AuthorDate: Wed Jan 29 08:57:05 2020 +0100
Fix wrong scaling of coupling matrix in internal variable condensation
---
src/getfem_generic_assembly_compile_and_exec.cc | 29
branch: devel-logari81-internal-variables
commit 50ebaab6f372cc9435066732a13a9cb14498caa5
Author: Konstantinos Poulios
AuthorDate: Wed Jan 29 16:49:18 2020 +0100
Add support for internal variable condensation to the model object
---
src/getfem/getfem_accumulated_distro.h | 6 +-
branch: devel-logari81-internal-variables
commit 232385db09a7ff588cb8144fd1e8aa79ce6a32b6
Author: Konstantinos Poulios
AuthorDate: Wed Jan 29 09:47:03 2020 +0100
Fix size of internal variable condensation matrix
- Including empty rows for keeping the implementation simpler
---
branch: devel-logari81-internal-variables
commit 78b191f942d27d95da95d6dec284c0f051531cb1
Author: Konstantinos Poulios
AuthorDate: Wed Jan 29 16:47:37 2020 +0100
Minor changes
---
src/getfem/getfem_models.h | 16 +---
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I would maybe leave this for after merging my internal-variables branch
On Fri, Jan 17, 2020 at 8:36 AM Tetsuo Koyama wrote:
> Hi getfem project.
>
> I fixed one line of Newmark_beta_method object code.
> It is a explicit define of scalar_type.
> Could you merge devel-tetsuo-fix-type?
>
> Thank
branch: devel-logari81-internal-variables
commit 79df5e1c2c7b53417298e9d2041d6d414cc049d5
Author: Konstantinos Poulios
Date: Thu Jan 2 18:43:14 2020 +0100
Clean variable inheritance model for ga_workspace
- Now it is possible to create a ga_workspace linked
to a model or
logari81 pushed a change to branch devel-logari81-internal-variables.
from fb27f37 Refactor inheritance of model disabled variables by
ga_workspace
new 79df5e1 Clean variable inheritance model for ga_workspace
Summary of changes:
src/getfem/getfem_generic_assembly.h
branch: devel-logari81-internal-variables
commit e903249a77c10f310e61421aa6e237bd2bb86c08
Author: Konstantinos Poulios
Date: Fri Jan 3 02:26:06 2020 +0100
Refactor compilation and execution of global vector and matrix assembly
- more specialized matrix assembly instruction
logari81 pushed a change to branch devel-logari81-internal-variables.
from 79df5e1 Clean variable inheritance model for ga_workspace
new e903249 Refactor compilation and execution of global vector and
matrix assembly
Summary of changes:
Dear Tetsuo,
Nice that you have found one more mistake.
Actually I don't think that we have a policy for updating headers. I think
Yves did it before making a new release, which is also a good option. If we
are to make a policy for this I would suggest:
- Update headers before a release
- Update
branch: master
commit cac4df66312b3b6155eab78c794b820a5e25ff57
Author: Konstantinos Poulios
Date: Wed Jan 1 11:45:37 2020 +0100
Code readability and typo fixes
---
src/getfem/getfem_generic_assembly.h| 14 +-
src/getfem/getfem_models.h | 4 +-
logari81 pushed a change to branch master.
from 46ae0a7 :arrow_up: isort import for PEP8
new cac4df6 Code readability and typo fixes
Summary of changes:
src/getfem/getfem_generic_assembly.h| 14 +-
src/getfem/getfem_models.h | 4 +-
branch: devel-logari81-internal-variables
commit fb27f37675ffd7d6c8a0a12bd1c6cbaa255dacdd
Author: Konstantinos Poulios
Date: Thu Jan 2 11:05:11 2020 +0100
Refactor inheritance of model disabled variables by ga_workspace
---
src/getfem/getfem_generic_assembly.h | 10 ++--
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at fb27f37 Refactor inheritance of model disabled variables by
ga_workspace
This branch includes the following new commits:
new fb27f37 Refactor inheritance of model disabled variables by
ga_workspace
branch: master
commit ab907910d9bafc8de6fc914a8d7d66e2bca1f152
Author: Konstantinos Poulios
Date: Thu Jan 2 11:03:03 2020 +0100
File header fixes
---
src/getfem/getfem_fem_global_function.h | 2 +-
src/getfem/getfem_global_function.h | 2 +-
logari81 pushed a change to branch master.
from f360290 Merge remote-tracking branch
'origin/devel-tetsuo-happy-new-year-2020'
new ab90791 File header fixes
Summary of changes:
src/getfem/getfem_fem_global_function.h | 2 +-
src/getfem/getfem_global_function.h
branch: master
commit cde202b2cfc85d2288ed1a2c7aa4452e7ec07a46
Author: Konstantinos Poulios
Date: Thu Jan 2 11:52:06 2020 +0100
File header fixes
---
GNU_GPL_V3 | 2 +-
INSTALL| 2 +-
superlu/colamd.c | 2 +-
superlu/colamd.h | 2 +-
superlu/dlamch.c | 6 +++---
logari81 pushed a change to branch master.
from ab90791 File header fixes
new cde202b File header fixes
Summary of changes:
GNU_GPL_V3 | 2 +-
INSTALL| 2 +-
superlu/colamd.c | 2 +-
superlu/colamd.h | 2 +-
superlu/dlamch.c | 6 +++---
logari81 pushed a change to branch master.
from cde202b File header fixes
new 45d95da File header fixes
Summary of changes:
m4/ax_prog_cc_mpi.m4 | 2 +-
m4/ax_prog_cxx_mpi.m4 | 2 +-
m4/ax_prog_fc_mpi.m4 | 2 +-
m4/matlab.m4 | 2 +-
m4/matlabver.m4 | 2 +-
5
Hi Tetsuo and happy 2020,
I have found and fixed quite a few mistakes in this commit. But I would
like to ask you if you have time to recheck your changes in this commit
manually to make sure that we haven't broken any more headers. In general
we shouldn't alter third-party license headers.
Then
branch: devel-logari81-internal-variables
commit d788e47a4897aee425275c7dbc1a16e9a4609a87
Author: Konstantinos Poulios
AuthorDate: Mon Jan 6 12:40:35 2020 +0100
Remove replaced assembly instruction class
---
src/getfem_generic_assembly_compile_and_exec.cc | 84 -
1
logari81 pushed a change to branch devel-logari81-internal-variables.
from afe03f8 adding a test
new d56812c Basic infrastructure for defining internal variables
new d788e47 Remove replaced assembly instruction class
Summary of changes:
src/getfem/getfem_generic_assembly.h
branch: devel-logari81-internal-variables
commit d56812c6dc2926e0978df1e15786ed07a687ecb7
Author: Konstantinos Poulios
AuthorDate: Fri Jan 3 23:45:46 2020 +0100
Basic infrastructure for defining internal variables
- no condensation functionality yet
---
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new 6ff98d3 Fix and simplify ga_local_projection for models with internal
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Has this been merged in the meanwhile?
On Fri, Jan 17, 2020 at 12:40 PM Tetsuo Koyama wrote:
> OK. thanks.
>
> 2020年1月17日(金) 20:17 Konstantinos Poulios :
>
>> I would maybe leave this for after merging my internal-variables branch
>>
>> On Fri, Jan 17, 2020 at 8:36 AM Tetsuo Koyama
>> wrote:
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imports
fef17a6 is
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branch: master
commit a8a51a7f4ba8e30e1b9fee73288705a7d7a55d9b
Author: Yves Renard
AuthorDate: Sun Jan 5 16:11:55 2020 +0100
adding a test
---
interface/tests/python/Makefile.am | 1 +
.../demo_thermo_elasticity_electrical_coupling.py | 26 +-
2 files
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new 2942d41 Refactor compilation and execution of global vector and
matrix assembly
new a8a51a7 adding a test
Summary of changes:
interface/tests/python/Makefile.am
branch: master
commit 2942d419172f23fa7249db87a46136b0533c0992
Author: Konstantinos Poulios
AuthorDate: Fri Jan 3 02:26:06 2020 +0100
Refactor compilation and execution of global vector and matrix assembly
- more specialized matrix assembly instruction classes for different
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branch: master
commit 75ef42f0da2be172db2f884b0afa9301ba6a43e9
Author: Konstantinos Poulios
AuthorDate: Fri Jan 3 23:45:46 2020 +0100
Basic infrastructure for defining internal variables
- no condensation functionality yet
---
src/getfem/getfem_generic_assembly.h| 14
logari81 pushed a change to branch master.
from a8a51a7 adding a test
new 75ef42f Basic infrastructure for defining internal variables
new f7d20be Remove replaced assembly instruction class
Summary of changes:
src/getfem/getfem_generic_assembly.h| 14 +++-
branch: master
commit f7d20be3b26b80094c08d54007703e6006c75ee2
Author: Konstantinos Poulios
AuthorDate: Mon Jan 6 12:40:35 2020 +0100
Remove replaced assembly instruction class
---
src/getfem_generic_assembly_compile_and_exec.cc | 90 +
1 file changed, 3
logari81 pushed a change to branch master.
from 86ae3b6 Refactoring of model solvers
new 1765106 Fix wrong scaling of coupling matrix in internal variable
condensation
new 46ce1c6 Fix size of internal variable condensation matrix
new afffc20 Minor changes
Summary of
branch: master
commit 46ce1c676124687e70d95299c9cf28cd10c4b76b
Author: Konstantinos Poulios
AuthorDate: Wed Jan 29 09:47:03 2020 +0100
Fix size of internal variable condensation matrix
- Including empty rows for keeping the implementation simpler
---
branch: master
commit 1765106029a5aa40aa84435ebd151d460d294a6a
Author: Konstantinos Poulios
AuthorDate: Wed Jan 29 08:57:05 2020 +0100
Fix wrong scaling of coupling matrix in internal variable condensation
---
src/getfem_generic_assembly_compile_and_exec.cc | 29 +++--
1
branch: master
commit afffc209a896ea5d7606aa86b227b7700c546631
Author: Konstantinos Poulios
AuthorDate: Wed Jan 29 16:47:37 2020 +0100
Minor changes
---
src/getfem/getfem_models.h | 16 +---
src/getfem_generic_assembly_compile_and_exec.cc | 12 +++-
logari81 pushed a change to branch master.
from afffc20 Minor changes
new 6ddb898 Add support for internal variable condensation to the model
object
new e32714c Fix in proccessing of multiple coupled internal variables
new 7262aa3 Fix bug in rhs computation of models with
branch: master
commit e32714c433e96158d24b7f71915178d671b85c15
Author: Konstantinos Poulios
AuthorDate: Wed Jan 29 22:08:50 2020 +0100
Fix in proccessing of multiple coupled internal variables
---
src/getfem_generic_assembly_compile_and_exec.cc | 134 +---
1 file
branch: master
commit 6ddb89892316a0c6a0cb7eda9a6ab0db07c48ab4
Author: Konstantinos Poulios
AuthorDate: Wed Jan 29 16:49:18 2020 +0100
Add support for internal variable condensation to the model object
---
src/getfem/getfem_accumulated_distro.h | 6 +-
src/getfem/getfem_models.h
branch: master
commit 4c176ff6596a7966bd55af715834ffec5d71190a
Author: Konstantinos Poulios
AuthorDate: Sat Feb 1 10:07:06 2020 +0100
Simplification
---
.../getfem_generic_assembly_compile_and_exec.h | 2 ++
src/getfem_generic_assembly_compile_and_exec.cc| 28 ++
branch: master
commit f32d6888dd04b004f3a2f50109946fa519e9bf13
Author: Konstantinos Poulios
AuthorDate: Sat Apr 4 02:18:29 2020 +0200
Explicit recording of terms that require post-assembly reduction
# Conflicts:
# src/getfem/getfem_generic_assembly_compile_and_exec.h
---
logari81 pushed a change to branch master.
from 7262aa3 Fix bug in rhs computation of models with internal variables
new f32d688 Explicit recording of terms that require post-assembly
reduction
new 4c176ff Simplification
Summary of changes:
branch: master
commit 988ba0f123146b5e2a5d881746969958659d4ac4
Author: Konstantinos Poulios
AuthorDate: Sat Feb 1 11:51:40 2020 +0100
Mention internal variables in the model object documentation
---
doc/sphinx/source/userdoc/model_object.rst | 23 +++
branch: master
commit cc6b8bcca2812961959672c2b6249d9cbeeac733
Author: Konstantinos Poulios
AuthorDate: Sat Feb 1 10:55:10 2020 +0100
Fixes and simplifications in internal variable condensation
- First working version
---
src/getfem/getfem_generic_assembly.h| 3 +-
branch: master
commit 2722c83bff4df1f817e450cbc0085059369e948e
Author: Konstantinos Poulios
AuthorDate: Sat Feb 1 11:28:19 2020 +0100
Add unit test for internal variable condensation
---
tests/Makefile.am | 4 +
tests/test_condensation.cc | 184
logari81 pushed a change to branch master.
from 4c176ff Simplification
new cc6b8bc Fixes and simplifications in internal variable condensation
new 47ea7f9 Fix model class for internal variable condensation
new 2722c83 Add unit test for internal variable condensation
branch: master
commit 47ea7f9dd6904fe317a3955ae2c8712cf5a025f7
Author: Konstantinos Poulios
AuthorDate: Sat Feb 1 11:23:55 2020 +0100
Fix model class for internal variable condensation
---
src/getfem_models.cc | 13 ++---
1 file changed, 6 insertions(+), 7 deletions(-)
diff --git
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Hi Tetsuo,
Thanks for running the tests on different systems. I don't think that this
is a good option. We should not remove the tests that fail. We should
instead fix the issue. That's what the tests are for.
Best regards
Kostas
On Fri, Apr 24, 2020 at 6:44 PM Tetsuo Koyama wrote:
> Dear
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Dear Tetsuo
I think it is an important contribution to add vtu support, especially if
it is binary/compressed, just ascii is not very useful. However we might
need to discuss a bit on how to do it. As far as I can see you have used
boost for xml writing. I think we had dropped our dependency on
just to add that for compressed vtu files I use the attached conversion
script based on binary vtk files exported from getfem.
On Thu, May 7, 2020 at 11:59 AM Konstantinos Poulios <
logar...@googlemail.com> wrote:
> Dear Tetsuo
>
> I think it is an important contribution to add vtu support,
the other thing is the big overlapping between the vtk_export class and the
new vtu_export class. Duplicating code is not a very good strategy. I think
you should just keep the old vtk_export class and add an optional argument
for the user to choose if exporting to xml format or not.
Best regards
Dear Tetsuo,
Thanks for your answer. Your code looks quite nice actually. I have one
question about the lines
std::vector W(Q*pmf_dof_used.card());
gmm::copy(remove_dof_unused(V, pmf_dof_used, Q), W);
write_dataset_(V, name, qdim);
Since you do not do anything with vector W,
The FOOTER_WRITTEN enumeration entry is not used anywhere, so it has to be
removed.
Is it intentional that you did not support exporting slices in the vtu
format? What prevents us from exporting slices?
For now, you can continue working on your current branch, and when the code
is ready for
by the way, the "remove_dof_unused" function you should make it work
in-place on the passed by reference V vector, as was the code that you
replaced with this function. The line
gmm::copy(remove_dof_unused(V, pmf_dof_used, Q), W)
and the temporary W vector are completely unnecessary, and just add
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commit efe0d4541f6b972d1c48ad685131f42d68ff56b8
Author: Konstantinos Poulios
AuthorDate: Fri May 22 12:01:45 2020 +0200
Fix compilation and test errors with --enable-openmp
---
src/getfem/getfem_omp.h| 5 -
tests/test_kdtree.cc | 2 ++
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branch: devel-logari81-xml
commit db725b2e96688a40a9d5ed83d0876f941134fdb1
Author: Konstantinos Poulios
AuthorDate: Sat May 23 20:37:25 2020 +0200
Move enumeration from header file
---
src/getfem/getfem_export.h | 20 ---
src/getfem_export.cc | 63
branch: devel-logari81-xml
commit dbeb54b5b4d48d384c11eb293064841985f6d6a4
Author: Konstantinos Poulios
AuthorDate: Sat May 23 20:48:23 2020 +0200
Minor changes
---
src/getfem/getfem_export.h | 2 +-
src/getfem_export.cc | 62 +++---
2 files
branch: devel-logari81-xml
commit 9f956bb759bda182a25ae071f8e691c4a345bf12
Author: Konstantinos Poulios
AuthorDate: Sat May 23 21:06:56 2020 +0200
Export to VTU file format (only ascii), based on the original
implementation by Tetsuo Koyama
---
doc/sphinx/source/replaces.txt | 5 +-
logari81 pushed a change to branch devel-logari81-xml.
from db725b2 Move enumeration from header file
new dbeb54b Minor changes
new 9f956bb Export to VTU file format (only ascii), based on the original
implementation by Tetsuo Koyama
Summary of changes:
Dear Tetsuo,
I have revised your code and refactored it in my logari81-devel-xml branch.
Can you test that my refactored version works as your original version? I
removed your "only_mesh" option intentionally.
Moreover, it would be nice if you could:
1) implement the scripting interface for vtu
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Dear Tetsuo,
Great, thanks for testing and for the original vtu implementation. It is a
very useful feature.
I will let Yves do the merge. I think he will prepare a 5.4.1 version soon
to fix the issues with 5.4. on Ubuntu 20.04.
Best regards
Kostas
On Mon, May 25, 2020 at 2:32 PM Tetsuo
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new fb97892 Fix issue with internal variables and reduced fem
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logari81 pushed a commit to branch master
in repository getfem.
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new 36bcd58 Fix memory leak due to lack of base class virtual destructor
36bcd58 is
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new 6af44d9 Fix empty response error in exported vtu files
6af44d9 is described below
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new dfb5b39 Print model variables categorized as variables, disabled
variables and data
It seems that I did not get the reading of physical groups from gmsh v4
mesh format correct in this commit.
v4 format saves entity tags for each element group instead of saving
physical groups. To convert from entity tags to physical group numbers we
need to read the $Entities section of the msh
logari81 pushed a change to branch mpi-fixes.
at 98925a4 Just code style changes
This branch includes the following new commits:
new 98925a4 Just code style changes
branch: mpi-fixes
commit 98925a43e41a9fd15c7369f7d7811cff892fe9cf
Author: Konstantinos Poulios
AuthorDate: Sun May 23 14:32:50 2021 +0200
Just code style changes
---
src/getfem/getfem_models.h | 9 ++--
src/getfem_models.cc | 123 +++--
2
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logari81 pushed a commit to branch mpi-fixes
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new cb06b64 MPI fixes form model residual assembly
cb06b64 is described below
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new 6cd266c MPI fixes for affine and linear terms in nonlinear model
residual
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new 0241496 Rename brick addition functions and new interface function
for lumped mass
Dear Tetsuo,
Thanks for tidying things up and testing. I have merged your branch. Maybe
Yves will suggest some deprecation aliases for the old function names, but
if so we can still add these later.
BR
Kostas
On Wed, Apr 21, 2021 at 2:59 AM Tetsuo Koyama wrote:
> Dear Kostas
>
> Thanks for
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