intro story D-Flow FM

 

D-Flow Flexible Mesh

D-Flow Flexible Mesh (D-Flow FM) is the new software engine for hydrodynamical simulations on unstructured grids in 1D-2D-3D. Together with the familiar curvilinear meshes from Delft3D 4, the unstructured grid can consist of triangles, pentagons (etc.) and 1D channel networks, all in one single mesh. It combines proven technology from the hydrodynamic engines of Delft3D 4 and SOBEK 2 and adds flexible administration, resulting in:

  • Easier 1D-2D-3D model coupling, intuitive setup of boundary conditions and meteorological forcings (amongst others).
  • More flexible 2D gridding in delta regions, river junctions, harbours, intertidal flats and more.
  • High performance by smart use of multicore architectures, and grid computing clusters.
An overview of the current developments can be found here.
 
The D-Flow FM - team would be delighted if you would participate in discussions on the generation of meshes, the specification of boundary conditions, the running of computations, and all kinds of other relevant topics. Feel free to share your smart questions and/or brilliant solutions! 

 

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We have launched a new website (still under construction so expect continuous improvements) and a new forum dedicated to Delft3D Flexible Mesh.
Please follow this link to the new forum: 
/web/delft3dfm/forum
Post your questions, issues, suggestions, difficulties related to our Delft3D Flexible Mesh Suite on the new forum.

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** PLEASE TAG YOUR POST! **

  

 

Sub groups
D-Flow Flexible Mesh
DELWAQ
Cohesive sediments & muddy systems

 

Message Boards

Compiling Delft3D on 64 bit Linux

BZ
Barbara Zemskova, modified 7 Years ago.

Compiling Delft3D on 64 bit Linux

Youngling Posts: 5 Join Date: 8/31/11 Recent Posts
Hello,

We are trying to install Delft3D on our new 64 bit Linux cluster. Our system administrator was able to get the source code to compile, but encountered the following error when trying to run one of the examples:


../../src/bin/deltares_hydro.exe: symbol lookup error: ../../src/lib/libflow2d3d.so: undefined symbol: small_

They thought the issue was related to the X11 development tools, which they installed, but it did not fix the error.

Any suggestions would be greatly appreciated.



--Brian
linux 64 bit
Adri Mourits, modified 7 Years ago.

RE: Compiling Delft3D on 64 bit Linux

Yoda Posts: 1221 Join Date: 1/3/11 Recent Posts
Hi Brian/Barbara,

"small" is a tiny little subroutine in subdirectory "src\utils_lgpl\utils_flow\packages\utils_flow\src". When compiling/linking, it should be packed inside libflow2d3d.so. Can you post your "logs/make.log" file? May be that gives more information.

Thanks.

Regards,

Adri
BZ
Barbara Zemskova, modified 7 Years ago.

RE: Compiling Delft3D on 64 bit Linux

Youngling Posts: 5 Join Date: 8/31/11 Recent Posts
Hi Adri,

Thanks for your response. Here is a copy of the log file you requested.

Thanks again!

Attachments:

Adri Mourits, modified 7 Years ago.

RE: Compiling Delft3D on 64 bit Linux

Yoda Posts: 1221 Join Date: 1/3/11 Recent Posts
Hi,

I see nothing strange up to the error message.
Does file "/netscr/shubin/test/Brian_White/delft3d_repository/src/utils_lgpl/utils_flow/packages/utils_flow_c/src/libutils_flow_c.a" exist?
Does file "/netscr/shubin/test/Brian_White/delft3d_repository/src/lib/libutils_flow_c.a" exist?
Did an additional error message appear on the screen when running "build.sh"?

There is something I don't understand. This make.log file suggests that you did not succeed in building libflow2d3d.so. But in your previous post, the error message was "symbol lookup error: ../../src/lib/libflow2d3d.so: undefined symbol: small_"
which suggests that you DO have a libflow2d3d.so. Did you start the calculation using a newly build libflow2d3d.so?

Regards,

Adri
AS
Abhishek Sharma, modified 6 Years ago.

RE: Compiling Delft3D on 64 bit Linux

Youngling Posts: 2 Join Date: 6/9/12 Recent Posts
Hello Adri,

I am trying to compile tagged version 5.00.07.1698 on my Linux (Ubuntu 11.10) 64bit machine.
'autogen.sh' and 'configure.sh' runs fine. However, I get 'make fails' message with following error.
I have also attached all three LOG files.
It seems like the error is related to 'third_party_open' model openDA.
I was successful in installing required mpich2 version with intel compilers on my computer; therefore, I am using intel fortran compiler (latest non-commercial) to build delft3d.
Please suggest me in this regard.

ERROR MESSAGES:

libtool: compile: ifort -I../../../../../utils_lgpl/precision/include -I../../../../../utils_lgpl/esmfsm/include -I../../../../../third_party_open/openda/core/native/include -I../../../../../utils_lgpl/precision/packages/precision/src -I../../../../../utils_lgpl/ec_module/packages/ec_module/src -I../../../../../utils_lgpl/inifiles/packages/inifiles/src -I../../../../../utils_lgpl/meteo/packages/meteo/src -I../../../../../utils_lgpl/deltares_common/packages/deltares_common/src -I../../../../../engines_gpl/flow2d3d/packages/data/src/gdp -I../../../../../engines_gpl/flow2d3d/packages/data/src/basics -I../../../../../engines_gpl/flow2d3d/packages/manager/src -I../../../../../engines_gpl/flow2d3d/packages/kernel/src/inichk -DWITH_DELFTONLINE -O2 -fPIC -m64 -fopenmp -fpp -recursive -reentrancy threaded -traceback -c flow2d3d_f.f90 -fPIC -o .libs/flow2d3d_f.o
flow2d3d_f.f90(39): error #7002: Error in opening the compiled module file. Check INCLUDE paths. [D3D_OLV_CLASS]
use m_openda_olv
--------^
flow2d3d_f.f90(99): error #6404: This name does not have a type, and must have an explicit type. [OPENDA_OLV_HANDLE]
retval = trisim_init(numdom, nummap, context_id, fsm_flags, runID, openda_olv_handle, gdp)
-----------------------------------------------------------------------^
flow2d3d_f.f90(197): error #7002: Error in opening the compiled module file. Check INCLUDE paths. [D3D_OLV_CLASS]
use m_openda_olv
--------^
flow2d3d_f.f90(224): error #6404: This name does not have a type, and must have an explicit type. [OPENDA_OLV_HANDLE]
retVal = trisim_step(openda_olv_handle, gdp)
-------------------------^
flow2d3d_f.f90(236): error #7002: Error in opening the compiled module file. Check INCLUDE paths. [D3D_OLV_CLASS]
use m_openda_olv
--------^
flow2d3d_f.f90(249): error #6404: This name does not have a type, and must have an explicit type. [OPENDA_OLV_HANDLE]
retval = trisim_finish(openda_olv_handle, gdp)
---------------------------^
compilation aborted for flow2d3d_f.f90 (code 1)
make[6]: *** [flow2d3d_f.lo] Error 1
make[6]: Leaving directory `/home/abhishek/Downloads/delft_repository/src/engines_gpl/flow2d3d/packages/flow2d3d_openda/src'
make[5]: *** [install] Error 2
make[5]: Leaving directory `/home/abhishek/Downloads/delft_repository/src/engines_gpl/flow2d3d/packages/flow2d3d_openda/src'
make[4]: *** [install-recursive] Error 1
make[4]: Leaving directory `/home/abhishek/Downloads/delft_repository/src/engines_gpl/flow2d3d/packages/flow2d3d_openda'
make[3]: *** [install-recursive] Error 1
make[3]: Leaving directory `/home/abhishek/Downloads/delft_repository/src/engines_gpl/flow2d3d/packages'
make[2]: *** [install-recursive] Error 1
make[2]: Leaving directory `/home/abhishek/Downloads/delft_repository/src/engines_gpl/flow2d3d'
make[1]: *** [install-recursive] Error 1
make[1]: Leaving directory `/home/abhishek/Downloads/delft_repository/src/engines_gpl'
make: *** [install-recursive] Error 1

Attachments:

Adri Mourits, modified 6 Years ago.

RE: Compiling Delft3D on 64 bit Linux

Yoda Posts: 1221 Join Date: 1/3/11 Recent Posts
Hi Abhishek Sharma,

I don't understand what is going wrong. According to your make.log, file "d3d_in_openda.f90" is compiled without problems. This should have generated the needed mod-file. The following file should be present on your system:
/home/abhishek/Downloads/delft_repository/src/engines_gpl/flow2d3d/packages/kernel/src/inichk/m_openda_olv.mod
Can you check that?

The good news is that you did manage to build libflow2d3d.so. As a workaround, you can skip the compilation of flow2d3d_openda as follows:
Open the following file in a text editor:
/home/abhishek/Downloads/delft_repository/src/engines_gpl/flow2d3d/packages/Makefile.am
Replace the last two lines:
flow2d3d \
flow2d3d_openda
By
flow2d3d
Don't forget to remove the backslash at the end of the one-but-last line. The file must contain an empty line at the end.

Regards,

Adri