open TELEMAC-MASCARET The mathematically superior suite of solvers

Hi Youan
It has got much further but a new error in compiling gretel. States requires recompiling with -fPIC - which is in my cmd_lib cmd_exe cmd_obj. Is another -fPIC option needed?

Compiling from the tree top gretel plus dependents
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

+> There is no need to compile any object
- completed: .../v8p0r2/builds/subpar/lib/special4gretel.so
- completed: .../v8p0r2/builds/subpar/lib/hermes4gretel.so
- completed: .../v8p0r2/builds/subpar/lib/bief4gretel.so
- completed: .../v8p0r2/builds/subpar/lib/partel4gretel.so
/usr/bin/ld: ./homere_gretel.o: relocation R_X86_64_32S against `.rodata.str1.8' can not be used when making a shared object; recompile with -fPIC
./homere_gretel.o: could not read symbols: Bad value
collect2: error: ld returned 1 exit status
Traceback (most recent call last):
File "/gpfs/home/e088/telemac_80/v8p0r2//scripts/python3/compile_telemac.py", line 138, in <module>
main()
File "/gpfs/home/e088/telemac_80/v8p0r2//scripts/python3/compile_telemac.py", line 126, in main
compile_cmdf(options.ncsize, modules)
File "/gpfs/home/e088/telemac_80/v8p0r2/scripts/python3/compilation/compil_tools.py", line 1236, in compile_cmdf
'\n +> failed: ' + file_name + '\n')
utils.exceptions.TelemacException:
+> failed: .../v8p0r2/builds/subpar/lib/gretel.so

Run compilation with the option --clean.
Hopefully that should solve it.

Sorry - I still have an include missing to mpif.h Have checked that my $MPIHOME is correct. The flag for incs_mpi doesn't appear in my mpi config?


- completed: .../v8p0r2/sources/utils/special/declarations_special.F
/gpfs/home/e088/telemac_80/v8p0r2/sources/utils/special/plante.F:68: Error: Can't open included file 'mpif.h'
Traceback (most recent call last):
File "/gpfs/home/e088/telemac_80/v8p0r2//scripts/python3/compile_telemac.py", line 138, in <module>
main()
File "/gpfs/home/e088/telemac_80/v8p0r2//scripts/python3/compile_telemac.py", line 126, in main
compile_cmdf(options.ncsize, modules)
File "/gpfs/home/e088/telemac_80/v8p0r2/scripts/python3/compilation/compil_tools.py", line 1204, in compile_cmdf
'\n +> failed: ' + file_name + '\n' + err)
utils.exceptions.TelemacException:
+> failed: .../v8p0r2/sources/utils/special/plante.F
... The following command failed for the reason in the listing
b'gfortran -c -Og -cpp -DHAVE_MPI -DHAVE_AED2 -I /gpfs/home/e088/telemac_80/v8p0r2/builds/subpar/obj/utils/special -I /gpfs/home/e088/telemac_80/v8p0r2/builds/subpar/obj/utils/damocles -I /gpfs/home/e088/telemac_80/v8p0r2/builds/subpar/obj/utils/hermes -I /gpfs/home/e088/telemac_80/v8p0r2/builds/subpar/obj/utils/parallel -I /gpfs/home/e088/telemac_80/v8p0r2/builds/subpar/obj/utils/bief -I /gpfs/home/e088/telemac_80/v8p0r2/builds/subpar/obj/waqtel -I /gpfs/home/e088/telemac_80/v8p0r2/builds/subpar/obj/nestor -I /gpfs/home/e088/telemac_80/v8p0r2/builds/subpar/obj/utils/ad -I /gpfs/home/e088/telemac_80/v8p0r2/builds/subpar/obj/tomawac -I /gpfs/home/e088/telemac_80/v8p0r2/builds/subpar/obj/sisyphe -I /gpfs/home/e088/telemac_80/v8p0r2/builds/subpar/obj/khione -I /gpfs/home/e088/telemac_80/v8p0r2/builds/subpar/obj/telemac2d -I /gpfs/home/e088/telemac_80/v8p0r2/builds/subpar/obj/utils/gretel -I /gpfs/home/e088/telemac_80/v8p0r2/builds/subpar/obj/utils/partel -I /gpfs/home/e088/telemac_80/v8p0r2/builds/subpar/obj/artemis -I /gpfs/home/e088/telemac_80/v8p0r2/builds/subpar/obj/telemac3d -I /gpfs/home/e088/telemac_80/v8p0r2/builds/subpar/obj/api -I $AEDHOME/include -I$AEDHOME/mod /gpfs/home/e088/telemac_80/v8p0r2/sources/utils/special/plante.F'

Replace gfortran by $MPIHOME/bin/mpif90

Hi Youan.
I have got much further - but I return to the api compilation error which I though I'd defeated by compiling in dynamic form. I also had an error in mascaret but have used -mascaret in modules. I now have all the telemac modules compiled except the api, which we don't use, but it would be really good to see the "my work is done" message at the end of compilation. Please can you suggest anything?
Have attached the cfg, pysource and error message.
John

Youan
I have completed the compilation but with modules for api and mascaret which we don't usually use.

Thanks for your your help with this compilation and setting up the config.

HI could you post the error you are getting ?

Im away from work on leave for a few days, but I've completed the compilation successfully using python2.7 and we are now using v8p0r2.
I still find problems with python 3 particularly with the cluster submission scripts. Python 2.7 is working for our colleagues.
I will replicate the python 3 error and send to you whe I return.

Hi Youan
I returned to this - a compile of the v8p0r2 trunk which fails at the second part of f2py under python3.
Have attached the error and config.
Would appreciate any possible help.
John

Hi,

This error seems to come from metis.

I've cleared up your systel.cfg file.

Could you try two things:
- Recompile with the updated configuration file
- If it still crashes Edit compile_telemac.py at line 130 replace silent=True by silent=False. This will make f2py more verbose.

As for the submission part you need to load the full telemac information in your hpc_stdin (PATH, HOMETEL, SYSTELCFG, USETELCFG, PYTHONPATH, LD_LIBRARY_PATH...).

Hope it helps