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TOPIC: v8p1r0 - python 3: error running on cluster
v8p1r0 - python 3: error running on cluster 4 years 9 months ago #35270
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Hi,
I tried again, it didn't work. I tried on v8p1 and on the trunk. I guess I found some indication of the problem, but I don't what caused it and how to fix it. Looks like TELEMAC is not creating the out file. Here is a run using Python 2.7 Loading Options and Configurations
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
___ __ ___
/ _ \ /_ | / _ \
__ __| (_) | _ __ | | _ __ | | | |
\ \ / / > _ < | '_ \ | || '__|| | | |
\ V / | (_) || |_) | | || | | |_| |
\_/ \___/ | .__/ |_||_| \___/
| |
|_|
_ _ __ _ _ __ _ _ ___
_| || |_ /_ || || | /_ || || | / _ \
_ __ ___ __ __ |_ __ _| | || || |_ | || || |_ | | | |
| '__| / _ \\ \ / / _| || |_ | ||__ _| | ||__ _|| | | |
| | | __/ \ V / _ |_ __ _| | | | | | | | | | |_| |
|_| \___| \_/ (_) |_||_| |_| |_| |_| |_| \___/
... parsing configuration file: /home/ma211/telemac/v8p1//configs/systel.gfort.cfg
Running your CAS file for:
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
+> configuration: gfortranHPC
+> Gfortran compiler 4.9.2 with open_mpi for a debian 8
+> root: /home/ma211/telemac/v8p1
+> directory /home/ma211/TEC3D/ReDAPT-T4_IMP/
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
... reading the main module dictionary
... processing the main CAS file(s)
+> running in English
... handling temporary directories
... checking coupling between codes
... checking parallelisation
... first pass at updating all input files
copying: h_tpxo9.v1 /home/ma211/TEC3D/ReDAPT-T4_IMP/T3DBB1
copying: u_tpxo9.v1 /home/ma211/TEC3D/ReDAPT-T4_IMP/T3DBB2
copying: NScotT4_IMP.cas /home/ma211/TEC3D/ReDAPT-T4_IMP/T3DCAS
copying: ReDAPT12112019.slf /home/ma211/TEC3D/ReDAPT-T4_IMP/T3DGEO
copying: ReDAPT12112019.cli /home/ma211/TEC3D/ReDAPT-T4_IMP/T3DCLI
copying: TEC3D_positions.txt /home/ma211/TEC3D/ReDAPT-T4_IMP/T3DFO2
copying: telemac3d.dico /home/ma211/TEC3D/ReDAPT-T4_IMP/T3DDICO
... modifying run command to MPI instruction
... modifying run command to PARTEL instruction
... partitioning base files (geo, conlim, sections, zones and weirs)
+> /home/ma211/telemac/v8p1/builds/gfortranHPC/bin/partel < PARTEL.PAR >> partel_T3DGEO.log
STOP 0
... splitting / copying other input files
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
... Your simulation is almost ready for launch. You need to compile your executable with the option -x (--compileonly)
My work is done
Loading Options and Configurations
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
___ __ ___
/ _ \ /_ | / _ \
__ __| (_) | _ __ | | _ __ | | | |
\ \ / / > _ < | '_ \ | || '__|| | | |
\ V / | (_) || |_) | | || | | |_| |
\_/ \___/ | .__/ |_||_| \___/
| |
|_|
_ _ __ _ _ __ _ _ ___
_| || |_ /_ || || | /_ || || | / _ \
_ __ ___ __ __ |_ __ _| | || || |_ | || || |_ | | | |
| '__| / _ \\ \ / / _| || |_ | ||__ _| | ||__ _|| | | |
| | | __/ \ V / _ |_ __ _| | | | | | | | | | |_| |
|_| \___| \_/ (_) |_||_| |_| |_| |_| |_| \___/
... parsing configuration file: /home/ma211/telemac/v8p1//configs/systel.gfort.cfg
Running your CAS file for:
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
+> configuration: gfortranHPC
+> Gfortran compiler 4.9.2 with open_mpi for a debian 8
+> root: /home/ma211/telemac/v8p1
+> directory /home/ma211/TEC3D/ReDAPT-T4_IMP/
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
... reading the main module dictionary
... processing the main CAS file(s)
+> running in English
... handling temporary directories
... checking coupling between codes
... checking parallelisation
... checking the executable
> requires re-compilation
creating: /home/ma211/TEC3D/ReDAPT-T4_IMP/user_fortran
copying: user_mesh_transf.f /home/ma211/TEC3D/ReDAPT-T4_IMP/user_fortran
copying: t3d_TEC_v5.2_exp_IMP.F /home/ma211/TEC3D/ReDAPT-T4_IMP/user_fortran
> compiling objs
compiling: t3d_TEC_v5.2_exp_IMP.F ... completed
compiling: user_mesh_transf.f ... completed
created: out_3D
... modifying run command to MPI instruction
... handling sortie file(s)
Running your simulation(s) :
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
mpirun --prefix /usr/lib64/openmpi -np 36 /home/ma211/TEC3D/ReDAPT-T4_IMP/out_3D
and here is a failed run using Python 3: Loading Options and Configurations
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
_ _
| | | |
| |_ _ __ _ _ _ __ | | __
| __|| '__|| | | || '_ \ | |/ /
| |_ | | | |_| || | | || <
\__||_| \__,_||_| |_||_|\_\
Running your CAS file(s) for:
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
gfortranHPC:
+> Gfortran compiler 4.9.2 with open_mpi for a debian 8
+> root: /home/ma211/telemac/trunk
+> module: ad / api / artemis / bief
damocles / gaia / gretel / hermes
identify_liq_bnd / khione / mascaret / nestor
parallel / partel / postel3d / sisyphe
special / stbtel / telemac2d / telemac3d
tomawac / waqtel
+> directory /home/ma211/TEC3D/trunk/
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
... processing the steering file
... checking parallelisation
... handling temporary directories
copying: NScot-test.cas -> /home/ma211/TEC3D/trunk/T3DCAS
copying: telemac3d.dico -> /home/ma211/TEC3D/trunk/T3DDICO
copying: h_tpxo9.v1 -> /home/ma211/TEC3D/trunk/T3DBB1
copying: u_tpxo9.v1 -> /home/ma211/TEC3D/trunk/T3DBB2
ignoring: NScot-test.cas /home/ma211/TEC3D/trunk/T3DCAS
copying: ReDAPT12112019.slf -> /home/ma211/TEC3D/trunk/T3DGEO
copying: ReDAPT12112019.cli -> /home/ma211/TEC3D/trunk/T3DCLI
... partitioning base files (geo, conlim, sections, zones and weirs)
+> /home/ma211/telemac/trunk/builds/gfortranHPC/bin/partel < partel_T3DGEO.par >> partel_T3DGEO.log
STOP 0
... splitting / copying other input files
duplicating: T3DBB1
duplicating: T3DBB2
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
... Your simulation is almost ready for launch. You need to compile your executable with the option -x (--compileonly)
My work is done
Loading Options and Configurations
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
_ _
| | | |
| |_ _ __ _ _ _ __ | | __
| __|| '__|| | | || '_ \ | |/ /
| |_ | | | |_| || | | || <
\__||_| \__,_||_| |_||_|\_\
Running your CAS file(s) for:
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
gfortranHPC:
+> Gfortran compiler 4.9.2 with open_mpi for a debian 8
+> root: /home/ma211/telemac/trunk
+> module: ad / api / artemis / bief
damocles / gaia / gretel / hermes
identify_liq_bnd / khione / mascaret / nestor
parallel / partel / postel3d / sisyphe
special / stbtel / telemac2d / telemac3d
tomawac / waqtel
+> directory /home/ma211/TEC3D/trunk/
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
... processing the steering file
... checking parallelisation
Running your simulation(s) :
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In /home/ma211/TEC3D/trunk/:
mpirun --prefix /usr/lib64/openmpi -np 24 /home/ma211/TEC3D/trunk/out_telemac3dThe main difference between both is that Python 3 version is not creating OUT file (also when I have user_fortran files, it copies them only without compiling). Thanks, Mohammed |
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