Syrthes 3.4

[Yvan Fournier]

Hello,

No, there are no specific requirements. The error message you obtained is upon writing a postprocessing output mesh used to check the distance between SYRTHES face centers and the Code_Saturne mesh. This specific visualization mesh only uses vertices, not faces or cells.

I had tested this postprocessing with the EnSight output format, not with the MED output format.
To workaround this bug (which will be fixed for final 2.2 release), the easiest is to use the EnSight format for postprocessing output (SALOME's Paraviz can read it as well as MED, and several other tools (besides EnSight itself) read that format.

Best regards,

Yvan

[nsellami]

Hi again,
Indeed, now my first coupled job is runnig and I am so excited !!
Thanks a lot for all the quick assistance and the time you put to help us take in this software!
Nadia

[nsellami]

Hi again,
I have a small question about running a job with syrthes 4 only (no coupling). I am sorry if this is not the right place for it.
If I start the job from the gui, it does go through a convergence process with multiple iterations. while if I execute the command myself by typing: syrthes.py -n 1 -d job.syd -l listing, it stops after a single iteration with a succesful termination message.
It is odd since it is the same input and executable files!
Thanks in advance.
Nadia

[Jacques Fontaine]

Hello,
Is there the good number of time steps in your job.syd?

Code: Select all

/ Pas de temps
/---------------
NOMBRE DE PAS DE TEMPS SOLIDES= 100

In case of coupling, - I'm not sure - I think the Syrthes time step is chosen automatically in case of incoherency with CS.

Best regards,
JF

[Pisolino]

Hi all,
i'm a fellowship researcher of Politecnico di Torino, i'm trying to run an industrial oven simulation, so i need coupling between fluid and solid domain, i'm desperately waiting for 2.2 release of Saturne. Is there any chance for me to get a pre-release version to couple with syrthes4 ?

Thanks in advance

Andrea

[Yvan Fournier]

Hello,

Versions 2.2.0 and 2.2.1 have already been released a few weeks ago. See the Download section of this web site. Sorry, we have not done announces; we'll try to do one for 2.3 when it is released.

Note that if you are running on a cluster using PBS, you need to edit line 371 of the bin/cs_exec_environment.py file, to replace "self.host" with "self.hosts". Other than the bug de to this typo, version 2.2.1 should work fine.

Best regards,

Yvan

[Pisolino]

really thanks ! i'm using ubuntu 10.04 lts ( the same of CAELINUX) is this distro correct ? because i'm having problems on installing saturne.

[Yvan Fournier]

Hello,

I havn't run on Ubuntu 10.4 in a while (I am running 12.4), but things should work. What is most important is having the required dependencies installed, along with the developpement headers.

You may want to check the installation manual for a list of the packages required or recommended for the code.

Also, you need to source the syrthes.profile to use SYRTHES, but I would recommend not sourcing it during the Code_Saturne installation (as I have not checked if it interferes with the choice of Python and PyQt4 versions).

Best regards,

Yvan

[Pisolino]

i'm still having serious problems on isntalling saturne 2.2 on ubuntu 12.04, i can't get rid of this erro during make:
make[3]: Entering directory `/home/ltmm1/saturne/src'
\
/bin/bash ../libtool --tag=FC --mode=compile ../src -O -c -o paramx.lo `test -f '/home/ltmm1/Scaricati/code_saturne/src/base/paramx.f90' || echo '/home/ltmm1/Scaricati/code_saturne/src/'`/home/ltmm1/Scaricati/code_saturne/src/base/paramx.f90
libtool: compile: ../src -O -c /home/ltmm1/Scaricati/code_saturne/src/base/paramx.f90 -o .libs/paramx.o
../libtool: line 1130: ../src: Is a directory
make[3]: *** [paramx.lo] Error 1
make[3]: Leaving directory `/home/ltmm1/saturne/src'
make[2]: *** [all-recursive] Error 1
make[2]: Leaving directory `/home/ltmm1/saturne/src'
make[1]: *** [all-recursive] Error 1
make[1]: Leaving directory `/home/ltmm1/saturne'
make: *** [all] Error 2


any idea?

[Pisolino]

and this is the end of the configure part ( i can't find any particular problem here)

checking for byacc... no
checking how to get verbose linking output from ... configure: WARNING: compilation failed

checking for Fortran libraries of ...
configure: sourcing config/cs_auto_flags.sh (test for known compilers)
compiler 'gcc' is GNU gcc-4.6.3
checking how to print strings... printf
checking for a sed that does not truncate output... (cached) /bin/sed
checking for grep that handles long lines and -e... /bin/grep
checking for egrep... /bin/grep -E
checking for fgrep... /bin/grep -F
checking for ld used by gcc... /usr/bin/ld
checking if the linker (/usr/bin/ld) is GNU ld... yes
checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B
checking the name lister (/usr/bin/nm -B) interface... BSD nm
checking the maximum length of command line arguments... 1572864
checking whether the shell understands some XSI constructs... yes
checking whether the shell understands "+="... yes
checking how to convert x86_64-unknown-linux-gnu file names to x86_64-unknown-linux-gnu format... func_convert_file_noop
checking how to convert x86_64-unknown-linux-gnu file names to toolchain format... func_convert_file_noop
checking for /usr/bin/ld option to reload object files... -r
checking for objdump... objdump
checking how to recognize dependent libraries... pass_all
checking for dlltool... no
checking how to associate runtime and link libraries... printf %s\n
checking for ar... ar
checking for archiver @FILE support... @
checking for strip... strip
checking for ranlib... ranlib
checking command to parse /usr/bin/nm -B output from gcc object... ok
checking for sysroot... no
checking for mt... mt
checking if mt is a manifest tool... no
checking how to run the C preprocessor... gcc -E
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
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checking for unistd.h... yes
checking for dlfcn.h... yes
checking for objdir... .libs
checking if gcc supports -fno-rtti -fno-exceptions... no
checking for gcc option to produce PIC... -fPIC -DPIC
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checking if gcc static flag -static works... no
checking if gcc supports -c -o file.o... yes
checking if gcc supports -c -o file.o... (cached) yes
checking whether the gcc linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes
checking whether -lc should be explicitly linked in... no
checking dynamic linker characteristics... GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking for shl_load... no
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checking for dlopen in -ldl... yes
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checking for stdbool.h that conforms to C99... yes
checking for _Bool... yes
checking for long long... yes
checking for unsigned long long... yes
checking for int32_t... yes
checking for int64_t... yes
checking for uint32_t... yes
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checking for ptrdiff_t... yes
checking size of void *... 8
checking size of short... 2
checking size of int... 4
checking size of long... 8
checking size of long long... 8
checking size of float... 4
checking size of double... 8
checking for Fortran 2003 flush instruction... no
checking libxml/parser.h usability... yes
checking libxml/parser.h presence... yes
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checking for xmlInitParser in -lxml2... yes
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checking mpi.h usability... yes
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checking for metis.h... no
configure: WARNING: METIS header not found or usable
checking for ptscotch.h... no
checking for ptscotch.h... yes
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checking hdf5.h usability... yes
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CGNS >= 3.1.0 headers not found
CGNS >= 2.5.0 headers found
checking for cg_coord_partial_write in -lcgns... yes
MED >= 2.9.0 headers found
configure: WARNING: no MED file MPI support
checking for ADF_Database_Open in -ladf... no
configure: WARNING: no ADF support
CCMIO headers not found
checking for Zlib... yes
checking size of z_off_t... 8
checking for SYRTHES support... configure: WARNING: cannot find syrthes.profile
checking whether pthreads work with -pthread... yes
checking for joinable pthread attribute... PTHREAD_CREATE_JOINABLE
checking if more special flags are required for pthreads... no
configure: WARNING: no SALOME support
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for omniORBpy: no
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unknown orb
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configure: WARNING: no MEDCoupling support
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checking for _LARGEFILE_SOURCE value needed for large files... 1
checking size of off_t... 8
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checking for ld used by GCC... /usr/bin/ld -m elf_x86_64
checking if the linker (/usr/bin/ld -m elf_x86_64) is GNU ld... yes
checking for shared library run path origin... done
checking for CFPreferencesCopyAppValue... no
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checking for GNU gettext in libc... yes
checking whether to use NLS... yes
checking where the gettext function comes from... libc
configure: creating ./config.status
config.status: creating Makefile
config.status: creating po/Makefile.in
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config.status: creating salome/fsi_coupling/src/FSI_SATURNE/Makefile
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config.status: executing depfiles commands
config.status: executing libtool commands
config.status: executing po-directories commands
config.status: creating po/POTFILES
config.status: creating po/Makefile
=== configuring in libple (/home/ltmm1/saturne/libple)
configure: running /bin/bash /home/ltmm1/Scaricati/code_saturne/libple/configure --disable-option-checking '--prefix=/usr/local' --cache-file=/dev/null --srcdir=/home/ltmm1/Scaricati/code_saturne/libple
checking build system type... x86_64-unknown-linux-gnu
checking host system type... x86_64-unknown-linux-gnu
checking target system type... x86_64-unknown-linux-gnu
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for a thread-safe mkdir -p... /bin/mkdir -p
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checking for mawk... mawk
checking whether make sets $(MAKE)... yes
configure: initializing ple_config.h
checking whether to enable maintainer-specific portions of Makefiles... no
checking for gcc... gcc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables...
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking for style of include used by make... GNU
checking dependency style of gcc... gcc3
checking whether ln -s works... yes
checking whether gcc and cc understand -c and -o together... yes
configure: sourcing config/ple_auto_flags.sh (test for known compilers)
compiler 'gcc' is GNU gcc-4.6.3
checking how to print strings... printf
checking for a sed that does not truncate output... /bin/sed
checking for grep that handles long lines and -e... /bin/grep
checking for egrep... /bin/grep -E
checking for fgrep... /bin/grep -F
checking for ld used by gcc... /usr/bin/ld
checking if the linker (/usr/bin/ld) is GNU ld... yes
checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B
checking the name lister (/usr/bin/nm -B) interface... BSD nm
checking the maximum length of command line arguments... 1572864
checking whether the shell understands some XSI constructs... yes
checking whether the shell understands "+="... yes
checking how to convert x86_64-unknown-linux-gnu file names to x86_64-unknown-linux-gnu format... func_convert_file_noop
checking how to convert x86_64-unknown-linux-gnu file names to toolchain format... func_convert_file_noop
checking for /usr/bin/ld option to reload object files... -r
checking for objdump... objdump
checking how to recognize dependent libraries... pass_all
checking for dlltool... no
checking how to associate runtime and link libraries... printf %s\n
checking for ar... ar
checking for archiver @FILE support... @
checking for strip... strip
checking for ranlib... ranlib
checking command to parse /usr/bin/nm -B output from gcc object... ok
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checking if mt is a manifest tool... no
checking how to run the C preprocessor... gcc -E
checking for ANSI C header files... yes
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checking if gcc supports -fno-rtti -fno-exceptions... no
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checking if gcc static flag -static works... yes
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checking if gcc supports -c -o file.o... (cached) yes
checking whether the gcc linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes
checking whether -lc should be explicitly linked in... no
checking dynamic linker characteristics... GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking whether stripping libraries is possible... yes
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configure: initializing ple-config
configure: closing ple-config
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configure: creating ./config.status
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config.status: creating ple_config_priv.h
config.status: executing depfiles commands
config.status: executing libtool commands

Configuration options:
use debugging code: false
MPI (Message Passing Interface) support: yes

The package has been configured. Type:
make
make install

To generate and install the PLE package


Configuration options:
use debugging code: no
use malloc hooks: no
use graphical user interface: yes
use long integers: no
Zlib (gzipped file) support: yes
MPI (Message Passing Interface) support: yes
MPI I/O support: yes
MPI2 one-sided communication support: yes
OpenMP support: no
BLAS (Basic Linear Algebra Subprograms) support: yes
Libxml2 (XML Reader) support: yes
ParMETIS (Parallel Graph Partitioning) support: yes
PT-SCOTCH (Parallel Graph Partitioning) support: yes
ADF support: no
CCM support: no
HDF (Hierarchical Data Format) support: yes
CGNS (CFD General Notation System) support: yes
MED (Model for Exchange of Data) support: yes
MED MPI I/O support: no
MEDCoupling support: no
SALOME GUI support: yes
SALOME Kernel support: no
Dynamic loader support (for YACS): yes
SYRTHES 3 coupling support: no

Warning: CGNS version used is 2.5, which is deprecated.
in future versions, CGNS >= 3.1 will be required.

The package has been configured. Type:
make
make install

To generate and install the Code_Saturne kernel