Re: [DuMuX] Info tutorial

2017-07-21 Thread Timo Koch 

Hi Claudia,

I just did a clean reinstall but I don't get any segfaults, we tested it 
and also the paper reviewers did and didn't seem to have such issues. 
Does it occur everytime?


You could add set(CMAKE_BUILD_TYPE Debug) to the CMakeLists.txt file and 
run it with valgrind and post the report here. Maybe I can say something.


Best wishes,

Timo


On 20.07.2017 11:11, claudia.bortolu...@uzh.ch wrote:

Dear Timo,

Thank you for the install script and the readme file, it was very easy 
to install everything.
At the moment I am still running the first example, but I have already 
visualized part of the output and it seems to work fine.

However on the other two examples I get this error after few time step:

Solve: M deltax^k = rSegmentation fault (core dumped)

So I think that maybe the program is trying to access a memory address 
it is not supposed to; I can try to have a look at the code and see if 
there is some bug.


I am working on my Master thesis at the Interface Group and Kartik is 
my tutor; I just told him about your email.


Best regards,

Claudia Bortolussi
-Timo Koch <timo.k...@iws.uni-stuttgart.de 
<mailto:timo.k...@iws.uni-stuttgart.de>> wrote: -

To: claudia.bortolu...@uzh.ch <mailto:claudia.bortolu...@uzh.ch>
From: Timo Koch <timo.k...@iws.uni-stuttgart.de 
<mailto:timo.k...@iws.uni-stuttgart.de>>

Date: 07/19/2017 03:25PM
Subject: Re: [DuMuX] Info tutorial

Hi Claudia,

are you working with Kartik on the modelling of oxygen transport in the
kidney?

I already told Kartik that we could skype and talk about the topic as I
have some experience now and also have more unpublished simulation code
that might be interesting for you.

Timo

--


Timo Koch  phone: +49 711 685 64676
IWS, Universität Stuttgart fax:   +49 711 685 60430
Pfaffenwaldring 61 email: timo.k...@iws.uni-stuttgart.de 
<mailto:timo.k...@iws.uni-stuttgart.de>
D-70569 Stuttgart  url: www.hydrosys.uni-stuttgart.de 
<http://www.hydrosys.uni-stuttgart.de>





--


Timo Koch  phone: +49 711 685 64676
IWS, Universität Stuttgart fax:   +49 711 685 60430
Pfaffenwaldring 61 email: timo.k...@iws.uni-stuttgart.de
D-70569 Stuttgart  url:   www.hydrosys.uni-stuttgart.de


___
Dumux mailing list
Dumux@listserv.uni-stuttgart.de
https://listserv.uni-stuttgart.de/mailman/listinfo/dumux

Re: [DuMuX] Info tutorial

2017-07-19 Thread Timo Koch 

Hi Claudia,

yes I checked and you need Dumux 2.8. I attached an install script and 
readme that should should set up everything for you.


Best Timo


On 19.07.2017 13:05, claudia.bortolu...@uzh.ch wrote:

Dear Timo,

I have tried to remove the line that include the header  from the 
1dstokespropertydefaults.hh but I get others similar errors like:


/home/cborto/Software/dune-foamgrid-examples/dumux/freeflow/1dstokes/1dstokesvolumevariables.hh:31:62: 
fatal error: dumux/material/fluidstates/immisciblefluidstate.hh: No 
such file or directory


or

/home/cborto/Software/dune-foamgrid-examples/dumux/freeflow/1dstokes/1dstokesvolumevariables.hh:29:60: 
fatal error: dumux/implicit/common/implicitvolumevariables.hh: No such 
file or directory


I don't know if I can remove all the lines that include these headers.
Is it possible that to run this dune-foamgrid-examples I need an older 
version of dumux? i have installed version 2.11.0 of dumux.

Thank you.

Best Regards,

Claudia Bortolussi


-Timo Koch <timo.k...@iws.uni-stuttgart.de 
<mailto:timo.k...@iws.uni-stuttgart.de>> wrote: -

To: claudia.bortolu...@uzh.ch <mailto:claudia.bortolu...@uzh.ch>
From: Timo Koch <timo.k...@iws.uni-stuttgart.de 
<mailto:timo.k...@iws.uni-stuttgart.de>>

Date: 07/16/2017 08:31PM
Subject: Re: [DuMuX] Info tutorial

Hi Claudia,

try removing the line that includes this header from the 
1dstokespropertydefaults.hh it shouldn't be needed. Tell me if that 
works. If not I can check it again.


Timo

Am 14.07.2017 um 11:13 schrieb claudia.bortolu...@uzh.ch 
<mailto:claudia.bortolu...@uzh.ch>:



Dear Timo,
Thank you for your fast reply. I am trying to install the 
dune-foamgrid-examples as the other dune module: after cloning out 
dune-foamgrid-examples I use the command


./dune-common/bin/dunecontrol --only=dune-foamgrid-examples all

but I get this error:

-- Configuring done
-- Generating done
-- Build files have been written to: 
/home/cborto/Software/dune-foamgrid-examples/build-cmake

--- calling make for dune-foamgrid-examples ---
build directory: build-cmake
cmake --build . --
[ 16%] Building CXX object 
examples/bloodflow/CMakeFiles/bloodflow.dir/bloodflow.cc.o
In file included from 
/home/cborto/Software/dune-foamgrid-examples/dumux/freeflow/1dstokes2c/1dstokes2cproperties.hh:32:0,
 from 
/home/cborto/Software/dune-foamgrid-examples/dumux/freeflow/1dstokes2c/1dstokes2cmodel.hh:30,
 from 
/home/cborto/Software/dune-foamgrid-examples/examples/bloodflow/bloodflowproblem.hh:29,
 from 
/home/cborto/Software/dune-foamgrid-examples/examples/bloodflow/bloodflow.cc:26 
<http://bloodflow.cc:26>:
/home/cborto/Software/dune-foamgrid-examples/dumux/freeflow/1dstokes/1dstokespropertydefaults.hh:30:47: 
fatal error: dumux/implicit/box/boxproperties.hh: No such file or 
directory

compilation terminated.
examples/bloodflow/CMakeFiles/bloodflow.dir/build.make:62: recipe for 
target 'examples/bloodflow/CMakeFiles/bloodflow.dir/bloodflow.cc.o' 
failed
make[2]: *** 
[examples/bloodflow/CMakeFiles/bloodflow.dir/bloodflow.cc.o] Error 1
CMakeFiles/Makefile2:1423: recipe for target 
'examples/bloodflow/CMakeFiles/bloodflow.dir/all' failed

make[1]: *** [examples/bloodflow/CMakeFiles/bloodflow.dir/all] Error 2
Makefile:160: recipe for target 'all' failed
make: *** [all] Error 2
--- Failed to build dune-foamgrid-examples ---
Terminating dunecontrol due to previous errors!

The dumux/implicit/box folder is missing. Is there a way to fix this 
problem?


Best regards,

Claudia Bortolussi

-Timo Koch <timo.k...@iws.uni-stuttgart.de 
<mailto:timo.k...@iws.uni-stuttgart.de>> wrote: -
To: DuMuX User Forum <dumux@listserv.uni-stuttgart.de 
<mailto:dumux@listserv.uni-stuttgart.de>>, claudia.bortolu...@uzh.ch 
<mailto:claudia.bortolu...@uzh.ch>
From: Timo Koch <timo.k...@iws.uni-stuttgart.de 
<mailto:timo.k...@iws.uni-stuttgart.de>>

Date: 07/14/2017 09:16AM
Subject: Re: [DuMuX] Info tutorial

Hi Claudia,

you can find the examples described in the paper here for the moment: 
https://gitlab.dune-project.org/tkoch/dune-foamgrid-examples


Best wishes
Timo



Viele Grüße,
Timo
Am 13.07.2017 um 16:33 schrieb <claudia.bortolu...@uzh.ch 
<mailto:claudia.bortolu...@uzh.ch>> <claudia.bortolu...@uzh.ch 
<mailto:claudia.bortolu...@uzh.ch>>:



Dear all,

Is it possible to find a tutorial for Grid Adaptivity (Adaptive 
one-dimensional network grid embedded in three-dimensional space) 
and Root Water Uptake? I have read about them in "The Dune FoamGrid 
implementation for surface and network grids".

It would be very useful because I'm going to work on similar studies.
Thank you.

Best regards,

Claudia Bortolussi
___
Dumux mailing list
Dumux@listserv.uni-stuttgart.de <mailto:Dumux@listserv.uni-stuttgart.de>
https://listserv.

Re: [DuMuX] Info tutorial

2017-07-14 Thread Timo Koch 
Hi Claudia,

you can find the examples described in the paper here for the moment: 
https://gitlab.dune-project.org/tkoch/dune-foamgrid-examples

Best wishes
Timo



Viele Grüße,
Timo
> Am 13.07.2017 um 16:33 schrieb  
> :
> 
> Dear all,
> 
> Is it possible to find a tutorial for Grid Adaptivity (Adaptive 
> one-dimensional network grid embedded in three-dimensional space) and Root 
> Water Uptake? I have read about them in "The Dune FoamGrid implementation for 
> surface and network grids". 
> It would be very useful because I'm going to work on similar studies.
> Thank you.
> 
> Best regards,
> 
> Claudia Bortolussi
> ___
> Dumux mailing list
> Dumux@listserv.uni-stuttgart.de
> https://listserv.uni-stuttgart.de/mailman/listinfo/dumux
___
Dumux mailing list
Dumux@listserv.uni-stuttgart.de
https://listserv.uni-stuttgart.de/mailman/listinfo/dumux