ocean_bgc's Issues
missing parenthesis in Nitrogen burial fraction
Hello,
We were looking into Nitrogen burial in COBALT and were puzzled by line 7810:
cobalt%frac_burial(i,j) = 0.013 + 0.53*fpoc_btm**2.0/((7.0+fpoc_btm)**2.0) * & cobalt%zt(i,j,k) / (cobalt%z_burial + cobalt%zt(i,j,k))
Is the a missing set of parenthesis in the numerator?
Best,
Sam and Fan
How to account for surface salt restoring fluxes?
Hi. We've recently ported our ocean BGC model WOMBAT (Whole Ocean Model or Biogeochemistry And Tropic dynamics) to the generic_tracers framework so that we can use it with both MOM5 and MOM6.
That model includes virtual flux adjustments to a few tracers when surface salt restoring is applied via a salt flux in the ocean model. Basically I need to adjust the stf array for a few tracers according to:
stf = stf + salt_restore * tracer_global / salt_global
where salt_restore is the restoring salt flux applied by the ocean model, and tracer_global and salt_global are constant parameters.
Obviously I need to modify/extend the generic_tracers API to allow passing the restoring salt flux from the ocean model, but there's no clear clean way to do this. For example, on face value it looks as though the virtual flux adjustments could be done in a generic_WOMBAT_update_from_coupler routine inside generic_tracer_coupler_get, but:
generic_tracer_coupler_getis called before the restoring fluxes are calculated in MOM5generic_tracer_coupler_getis not called at all in MOM6
I'm a little surprised I'm the first to want to do this. Are COBALT, BLING etc never run with ocean salt restoring? Does anyone out there have suggestions for where/how the virtual flux adjustments could be included?
generic_blres.F90 has a typo that cause compile error
Line 100 refers to generic_bling_nml instead of generic_blres_nml
https://github.com/NOAA-GFDL/ocean_BGC/blob/master/generic_tracers/generic_blres.F90#L100
documentation wanted
Users are asking for the code documentation, preferably embeded in the code with doxygen.
We can also think about adding a wiki-like guide.
Coupling sea-ice BGC tracers?
Hi. I'm curious whether anyone out there has thought about or tried coupling sea-ice BGC tracers to a generic tracer package? The FMS coupler types only support:
air_sea_gas_flux_genericair_sea_gas_fluxair_sea_depositionland_sea_runoff
flux types, and none of those are appropriate for sea-ice tracer coupling.
Error in building mocsy: multiple definition of "MAIN__"
Hi
I am trying to build MOM6 with ocean_BGC(I want to use COBALT). I have cloned this repository in "src/MOM6/config_src/external/GFDL_ocean_BGC". While building i am facing the following issue:
test_mocsy.o: In function `MAIN__':
/scratch/ds2/km7623/MOM6_BGC/MOM6-examples/build/gnu/ocean_only/repro/../../../../src/MOM6/config_src/external//GFDL_ocean_BGC/examples/test_mocsy.f90:3: multiple definition of `MAIN__'
test_phizero.o:/scratch/ds2/km7623/MOM6_BGC/MOM6-examples/build/gnu/ocean_only/repro/../../../../src/MOM6/config_src/external//GFDL_ocean_BGC/examples/test_phizero.f90:3: first defined here
test_vars.o: In function `MAIN__':
/scratch/ds2/km7623/MOM6_BGC/MOM6-examples/build/gnu/ocean_only/repro/../../../../src/MOM6/config_src/external//GFDL_ocean_BGC/examples/test_vars.f90:3: multiple definition of `MAIN__'
test_phizero.o:/scratch/ds2/km7623/MOM6_BGC/MOM6-examples/build/gnu/ocean_only/repro/../../../../src/MOM6/config_src/external//GFDL_ocean_BGC/examples/test_phizero.f90:3: first defined here
MOM_driver.o: In function `MAIN__':
/scratch/ds2/km7623/MOM6_BGC/MOM6-examples/build/gnu/ocean_only/repro/../../../../src/MOM6/config_src/drivers/solo_driver/MOM_driver.F90:1: multiple definition of `MAIN__'
test_phizero.o:/scratch/ds2/km7623/MOM6_BGC/MOM6-examples/build/gnu/ocean_only/repro/../../../../src/MOM6/config_src/external//GFDL_ocean_BGC/examples/test_phizero.f90:3: first defined here
test_mocsy_buffesm.o: In function `MAIN__':
/scratch/ds2/km7623/MOM6_BGC/MOM6-examples/build/gnu/ocean_only/repro/../../../../src/MOM6/config_src/external//GFDL_ocean_BGC/examples/test_mocsy_buffesm.f90:3: multiple definition of `MAIN__'
test_phizero.o:/scratch/ds2/km7623/MOM6_BGC/MOM6-examples/build/gnu/ocean_only/repro/../../../../src/MOM6/config_src/external//GFDL_ocean_BGC/examples/test_phizero.f90:3: first defined here
test_errors.o: In function `MAIN__':
/scratch/ds2/km7623/MOM6_BGC/MOM6-examples/build/gnu/ocean_only/repro/../../../../src/MOM6/config_src/external//GFDL_ocean_BGC/examples/test_errors.f90:3: multiple definition of `MAIN__'
test_phizero.o:/scratch/ds2/km7623/MOM6_BGC/MOM6-examples/build/gnu/ocean_only/repro/../../../../src/MOM6/config_src/external//GFDL_ocean_BGC/examples/test_phizero.f90:3: first defined here
test_kprime.o: In function `MAIN__':
/scratch/ds2/km7623/MOM6_BGC/MOM6-examples/build/gnu/ocean_only/repro/../../../../src/MOM6/config_src/external//GFDL_ocean_BGC/examples/test_kprime.f90:3: multiple definition of `MAIN__'
test_phizero.o:/scratch/ds2/km7623/MOM6_BGC/MOM6-examples/build/gnu/ocean_only/repro/../../../../src/MOM6/config_src/external//GFDL_ocean_BGC/examples/test_phizero.f90:3: first defined here
test_kzero.o: In function `MAIN__':
/scratch/ds2/km7623/MOM6_BGC/MOM6-examples/build/gnu/ocean_only/repro/../../../../src/MOM6/config_src/external//GFDL_ocean_BGC/examples/test_kzero.f90:3: multiple definition of `MAIN__'
test_phizero.o:/scratch/ds2/km7623/MOM6_BGC/MOM6-examples/build/gnu/ocean_only/repro/../../../../src/MOM6/config_src/external//GFDL_ocean_BGC/examples/test_phizero.f90:3: first defined here
test_derivnum.o: In function `MAIN__':
/scratch/ds2/km7623/MOM6_BGC/MOM6-examples/build/gnu/ocean_only/repro/../../../../src/MOM6/config_src/external//GFDL_ocean_BGC/examples/test_derivnum.f90:3: multiple definition of `MAIN__'
test_phizero.o:/scratch/ds2/km7623/MOM6_BGC/MOM6-examples/build/gnu/ocean_only/repro/../../../../src/MOM6/config_src/external//GFDL_ocean_BGC/examples/test_phizero.f90:3: first defined here
test_buffesm.o: In function `MAIN__':
/scratch/ds2/km7623/MOM6_BGC/MOM6-examples/build/gnu/ocean_only/repro/../../../../src/MOM6/config_src/external//GFDL_ocean_BGC/examples/test_buffesm.f90:3: multiple definition of `MAIN__'
test_phizero.o:/scratch/ds2/km7623/MOM6_BGC/MOM6-examples/build/gnu/ocean_only/repro/../../../../src/MOM6/config_src/external//GFDL_ocean_BGC/examples/test_phizero.f90:3: first defined here
test_derivauto.o: In function `MAIN__':
/scratch/ds2/km7623/MOM6_BGC/MOM6-examples/build/gnu/ocean_only/repro/../../../../src/MOM6/config_src/external//GFDL_ocean_BGC/examples/test_derivauto.f90:3: multiple definition of `MAIN__'
test_phizero.o:/scratch/ds2/km7623/MOM6_BGC/MOM6-examples/build/gnu/ocean_only/repro/../../../../src/MOM6/config_src/external//GFDL_ocean_BGC/examples/test_phizero.f90:3: first defined here
make: *** [Makefile:1402: MOM6] Error 1
The test cases in "mocsy/example" are creating a problem.
Can you help me here?
(using mpiifort,mpiicc)
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